make pylith make[1]: Entering directory `/Users/gcheng6/build/pylith' make swig make[2]: Entering directory `/Users/gcheng6/build/pylith' swig not required. Skipping installation. touch /Users/gcheng6/build/pylith/installed_swig make[2]: Leaving directory `/Users/gcheng6/build/pylith' make netcdf make[2]: Entering directory `/Users/gcheng6/build/pylith' make hdf5 make[3]: Entering directory `/Users/gcheng6/build/pylith' make mpi make[4]: Entering directory `/Users/gcheng6/build/pylith' mpi already installed. Skipping installation. touch /Users/gcheng6/build/pylith/installed_mpi make[4]: Leaving directory `/Users/gcheng6/build/pylith' hdf5 already installed. Skipping installation. touch /Users/gcheng6/build/pylith/installed_hdf5 make[3]: Leaving directory `/Users/gcheng6/build/pylith' netcdf already installed. Skipping installation. touch /Users/gcheng6/build/pylith/installed_netcdf make[2]: Leaving directory `/Users/gcheng6/build/pylith' make h5py make[2]: Entering directory `/Users/gcheng6/build/pylith' make numpy make[3]: Entering directory `/Users/gcheng6/build/pylith' make setuptools make[4]: Entering directory `/Users/gcheng6/build/pylith' /Users/gcheng6/src/pylith/pylith-installer-2.2.2-0/bin/fetch.sh "/usr/bin/wget -nd -r -O" setuptools-39.1.0.zip http://geoweb.cse.ucdavis.edu/~buildbot/deps Downloading setuptools-39.1.0.zip from http://geoweb.cse.ucdavis.edu/~buildbot/deps. WARNING: combining -O with -r or -p will mean that all downloaded content will be placed in the single file you specified. --2021-04-06 13:47:22-- http://geoweb.cse.ucdavis.edu/~buildbot/deps/setuptools-39.1.0.zip Resolving geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)... 128.120.246.36 Connecting to geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)|128.120.246.36|:80... connected. HTTP request sent, awaiting response... 200 OK Length: 845300 (825K) [application/zip] Saving to: ‘setuptools-39.1.0.zip’ 100%[========================================================================================================================================================================>] 845,300 1.45MB/s in 0.6s 2021-04-06 13:47:24 (1.45 MB/s) - ‘setuptools-39.1.0.zip’ saved [845300/845300] FINISHED --2021-04-06 13:47:24-- Total wall clock time: 1.7s Downloaded: 1 files, 825K in 0.6s (1.45 MB/s) /usr/bin/unzip setuptools-39.1.0.zip Archive: setuptools-39.1.0.zip inflating: setuptools-39.1.0/CHANGES.rst inflating: setuptools-39.1.0/LICENSE inflating: setuptools-39.1.0/MANIFEST.in inflating: setuptools-39.1.0/README.rst inflating: setuptools-39.1.0/bootstrap.py inflating: setuptools-39.1.0/conftest.py inflating: setuptools-39.1.0/easy_install.py inflating: setuptools-39.1.0/launcher.c inflating: setuptools-39.1.0/msvc-build-launcher.cmd inflating: setuptools-39.1.0/pavement.py 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setuptools-39.1.0/docs/_theme/nature/static/nature.css_t inflating: setuptools-39.1.0/docs/_theme/nature/static/pygments.css inflating: setuptools-39.1.0/pkg_resources/__init__.py inflating: setuptools-39.1.0/pkg_resources/api_tests.txt inflating: setuptools-39.1.0/pkg_resources/py31compat.py inflating: setuptools-39.1.0/pkg_resources/_vendor/__init__.py inflating: setuptools-39.1.0/pkg_resources/_vendor/appdirs.py inflating: setuptools-39.1.0/pkg_resources/_vendor/pyparsing.py inflating: setuptools-39.1.0/pkg_resources/_vendor/six.py inflating: setuptools-39.1.0/pkg_resources/_vendor/vendored.txt inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/__about__.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/__init__.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/_compat.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/_structures.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/markers.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/requirements.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/specifiers.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/utils.py inflating: setuptools-39.1.0/pkg_resources/_vendor/packaging/version.py inflating: setuptools-39.1.0/pkg_resources/extern/__init__.py inflating: setuptools-39.1.0/pkg_resources/tests/__init__.py inflating: setuptools-39.1.0/pkg_resources/tests/test_find_distributions.py inflating: setuptools-39.1.0/pkg_resources/tests/test_markers.py inflating: setuptools-39.1.0/pkg_resources/tests/test_pkg_resources.py inflating: setuptools-39.1.0/pkg_resources/tests/test_resources.py inflating: setuptools-39.1.0/pkg_resources/tests/test_working_set.py inflating: setuptools-39.1.0/setuptools/__init__.py inflating: setuptools-39.1.0/setuptools/archive_util.py inflating: setuptools-39.1.0/setuptools/build_meta.py inflating: setuptools-39.1.0/setuptools/cli-32.exe inflating: setuptools-39.1.0/setuptools/cli-64.exe inflating: setuptools-39.1.0/setuptools/cli.exe inflating: setuptools-39.1.0/setuptools/config.py inflating: setuptools-39.1.0/setuptools/dep_util.py inflating: setuptools-39.1.0/setuptools/depends.py inflating: setuptools-39.1.0/setuptools/dist.py inflating: setuptools-39.1.0/setuptools/extension.py inflating: setuptools-39.1.0/setuptools/glibc.py inflating: setuptools-39.1.0/setuptools/glob.py inflating: setuptools-39.1.0/setuptools/gui-32.exe inflating: setuptools-39.1.0/setuptools/gui-64.exe inflating: setuptools-39.1.0/setuptools/gui.exe inflating: setuptools-39.1.0/setuptools/launch.py inflating: setuptools-39.1.0/setuptools/lib2to3_ex.py inflating: setuptools-39.1.0/setuptools/monkey.py inflating: setuptools-39.1.0/setuptools/msvc.py inflating: setuptools-39.1.0/setuptools/namespaces.py inflating: setuptools-39.1.0/setuptools/package_index.py inflating: setuptools-39.1.0/setuptools/pep425tags.py inflating: setuptools-39.1.0/setuptools/py27compat.py inflating: setuptools-39.1.0/setuptools/py31compat.py inflating: setuptools-39.1.0/setuptools/py33compat.py inflating: setuptools-39.1.0/setuptools/py36compat.py inflating: setuptools-39.1.0/setuptools/sandbox.py inflating: setuptools-39.1.0/setuptools/script (dev).tmpl inflating: setuptools-39.1.0/setuptools/script.tmpl inflating: setuptools-39.1.0/setuptools/site-patch.py inflating: setuptools-39.1.0/setuptools/ssl_support.py inflating: setuptools-39.1.0/setuptools/unicode_utils.py inflating: setuptools-39.1.0/setuptools/version.py inflating: setuptools-39.1.0/setuptools/wheel.py inflating: setuptools-39.1.0/setuptools/windows_support.py inflating: setuptools-39.1.0/setuptools/_vendor/__init__.py inflating: setuptools-39.1.0/setuptools/_vendor/pyparsing.py inflating: setuptools-39.1.0/setuptools/_vendor/six.py inflating: setuptools-39.1.0/setuptools/_vendor/vendored.txt inflating: setuptools-39.1.0/setuptools/_vendor/__pycache__/__init__.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/__pycache__/six.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__about__.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__init__.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/_compat.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/_structures.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/markers.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/requirements.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/specifiers.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/utils.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/version.py inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__pycache__/__about__.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__pycache__/__init__.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__pycache__/_compat.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__pycache__/_structures.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__pycache__/specifiers.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/_vendor/packaging/__pycache__/version.cpython-36.pyc inflating: setuptools-39.1.0/setuptools/command/__init__.py inflating: setuptools-39.1.0/setuptools/command/alias.py inflating: setuptools-39.1.0/setuptools/command/bdist_egg.py inflating: setuptools-39.1.0/setuptools/command/bdist_rpm.py inflating: setuptools-39.1.0/setuptools/command/bdist_wininst.py inflating: setuptools-39.1.0/setuptools/command/build_clib.py inflating: setuptools-39.1.0/setuptools/command/build_ext.py inflating: setuptools-39.1.0/setuptools/command/build_py.py inflating: setuptools-39.1.0/setuptools/command/develop.py inflating: setuptools-39.1.0/setuptools/command/dist_info.py inflating: setuptools-39.1.0/setuptools/command/easy_install.py inflating: setuptools-39.1.0/setuptools/command/egg_info.py inflating: setuptools-39.1.0/setuptools/command/install.py inflating: setuptools-39.1.0/setuptools/command/install_egg_info.py inflating: setuptools-39.1.0/setuptools/command/install_lib.py inflating: setuptools-39.1.0/setuptools/command/install_scripts.py inflating: setuptools-39.1.0/setuptools/command/launcher manifest.xml inflating: setuptools-39.1.0/setuptools/command/py36compat.py inflating: setuptools-39.1.0/setuptools/command/register.py inflating: setuptools-39.1.0/setuptools/command/rotate.py inflating: setuptools-39.1.0/setuptools/command/saveopts.py inflating: setuptools-39.1.0/setuptools/command/sdist.py inflating: setuptools-39.1.0/setuptools/command/setopt.py inflating: setuptools-39.1.0/setuptools/command/test.py inflating: setuptools-39.1.0/setuptools/command/upload.py inflating: setuptools-39.1.0/setuptools/command/upload_docs.py inflating: setuptools-39.1.0/setuptools/extern/__init__.py inflating: setuptools-39.1.0/setuptools/tests/__init__.py inflating: setuptools-39.1.0/setuptools/tests/contexts.py inflating: setuptools-39.1.0/setuptools/tests/environment.py inflating: setuptools-39.1.0/setuptools/tests/files.py inflating: setuptools-39.1.0/setuptools/tests/fixtures.py inflating: setuptools-39.1.0/setuptools/tests/mod_with_constant.py inflating: setuptools-39.1.0/setuptools/tests/namespaces.py inflating: setuptools-39.1.0/setuptools/tests/script-with-bom.py inflating: setuptools-39.1.0/setuptools/tests/server.py inflating: setuptools-39.1.0/setuptools/tests/test_archive_util.py inflating: setuptools-39.1.0/setuptools/tests/test_bdist_egg.py inflating: setuptools-39.1.0/setuptools/tests/test_build_clib.py inflating: setuptools-39.1.0/setuptools/tests/test_build_ext.py inflating: setuptools-39.1.0/setuptools/tests/test_build_meta.py inflating: setuptools-39.1.0/setuptools/tests/test_build_py.py inflating: setuptools-39.1.0/setuptools/tests/test_config.py inflating: setuptools-39.1.0/setuptools/tests/test_dep_util.py inflating: setuptools-39.1.0/setuptools/tests/test_depends.py inflating: setuptools-39.1.0/setuptools/tests/test_develop.py inflating: setuptools-39.1.0/setuptools/tests/test_dist.py inflating: setuptools-39.1.0/setuptools/tests/test_dist_info.py inflating: setuptools-39.1.0/setuptools/tests/test_easy_install.py inflating: setuptools-39.1.0/setuptools/tests/test_egg_info.py inflating: setuptools-39.1.0/setuptools/tests/test_find_packages.py inflating: setuptools-39.1.0/setuptools/tests/test_install_scripts.py inflating: setuptools-39.1.0/setuptools/tests/test_integration.py inflating: setuptools-39.1.0/setuptools/tests/test_manifest.py inflating: setuptools-39.1.0/setuptools/tests/test_msvc.py inflating: setuptools-39.1.0/setuptools/tests/test_namespaces.py inflating: setuptools-39.1.0/setuptools/tests/test_packageindex.py inflating: setuptools-39.1.0/setuptools/tests/test_sandbox.py inflating: setuptools-39.1.0/setuptools/tests/test_sdist.py inflating: setuptools-39.1.0/setuptools/tests/test_setuptools.py inflating: setuptools-39.1.0/setuptools/tests/test_test.py inflating: setuptools-39.1.0/setuptools/tests/test_unicode_utils.py inflating: setuptools-39.1.0/setuptools/tests/test_upload_docs.py inflating: setuptools-39.1.0/setuptools/tests/test_virtualenv.py inflating: setuptools-39.1.0/setuptools/tests/test_wheel.py inflating: setuptools-39.1.0/setuptools/tests/test_windows_wrappers.py inflating: setuptools-39.1.0/setuptools/tests/text.py inflating: setuptools-39.1.0/setuptools/tests/textwrap.py inflating: setuptools-39.1.0/setuptools/tests/indexes/test_links_priority/external.html inflating: setuptools-39.1.0/setuptools/tests/indexes/test_links_priority/simple/foobar/index.html inflating: setuptools-39.1.0/setuptools.egg-info/PKG-INFO inflating: setuptools-39.1.0/setuptools.egg-info/SOURCES.txt inflating: setuptools-39.1.0/setuptools.egg-info/dependency_links.txt inflating: setuptools-39.1.0/setuptools.egg-info/entry_points.txt inflating: setuptools-39.1.0/setuptools.egg-info/requires.txt inflating: setuptools-39.1.0/setuptools.egg-info/top_level.txt inflating: setuptools-39.1.0/setuptools.egg-info/zip-safe inflating: setuptools-39.1.0/tests/manual_test.py inflating: setuptools-39.1.0/tests/test_pypi.py cd setuptools-39.1.0 && /Users/gcheng6/pylith/bin/python setup.py install --prefix=/Users/gcheng6/pylith && touch /Users/gcheng6/build/pylith/installed_setuptools /Users/gcheng6/pylith/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'long_description_content_type' warnings.warn(msg) running install running bdist_egg running egg_info writing requirements to setuptools.egg-info/requires.txt writing setuptools.egg-info/PKG-INFO writing top-level names to setuptools.egg-info/top_level.txt writing dependency_links to setuptools.egg-info/dependency_links.txt writing entry points to setuptools.egg-info/entry_points.txt reading manifest file 'setuptools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'setuptools.egg-info/SOURCES.txt' installing library code to build/bdist.linux-x86_64/egg running install_lib running build_py creating build creating build/lib copying easy_install.py -> build/lib creating build/lib/pkg_resources copying pkg_resources/py31compat.py -> build/lib/pkg_resources copying pkg_resources/__init__.py -> build/lib/pkg_resources creating build/lib/setuptools copying setuptools/py27compat.py -> build/lib/setuptools copying setuptools/msvc.py -> build/lib/setuptools copying setuptools/package_index.py -> build/lib/setuptools copying setuptools/sandbox.py -> build/lib/setuptools copying setuptools/version.py -> build/lib/setuptools copying setuptools/glibc.py -> build/lib/setuptools copying setuptools/unicode_utils.py -> build/lib/setuptools copying setuptools/build_meta.py -> build/lib/setuptools copying setuptools/py36compat.py -> build/lib/setuptools copying setuptools/archive_util.py -> build/lib/setuptools copying setuptools/windows_support.py -> build/lib/setuptools copying setuptools/depends.py -> build/lib/setuptools copying setuptools/py31compat.py -> build/lib/setuptools copying setuptools/monkey.py -> build/lib/setuptools copying setuptools/__init__.py -> build/lib/setuptools copying setuptools/namespaces.py -> build/lib/setuptools copying setuptools/wheel.py -> build/lib/setuptools copying setuptools/glob.py -> build/lib/setuptools copying setuptools/ssl_support.py -> build/lib/setuptools copying setuptools/dist.py -> build/lib/setuptools copying setuptools/config.py -> build/lib/setuptools copying setuptools/pep425tags.py -> build/lib/setuptools copying setuptools/site-patch.py -> build/lib/setuptools copying setuptools/py33compat.py -> build/lib/setuptools copying setuptools/extension.py -> build/lib/setuptools copying setuptools/dep_util.py -> build/lib/setuptools copying setuptools/launch.py -> build/lib/setuptools copying setuptools/lib2to3_ex.py -> build/lib/setuptools creating build/lib/pkg_resources/extern copying pkg_resources/extern/__init__.py -> build/lib/pkg_resources/extern creating build/lib/pkg_resources/_vendor copying pkg_resources/_vendor/pyparsing.py -> build/lib/pkg_resources/_vendor copying pkg_resources/_vendor/__init__.py -> build/lib/pkg_resources/_vendor copying pkg_resources/_vendor/appdirs.py -> build/lib/pkg_resources/_vendor copying pkg_resources/_vendor/six.py -> build/lib/pkg_resources/_vendor creating build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/_structures.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/_compat.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/specifiers.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/__about__.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/__init__.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/requirements.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/utils.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/version.py -> build/lib/pkg_resources/_vendor/packaging copying pkg_resources/_vendor/packaging/markers.py -> build/lib/pkg_resources/_vendor/packaging creating build/lib/setuptools/_vendor copying setuptools/_vendor/six.py -> build/lib/setuptools/_vendor copying setuptools/_vendor/__init__.py -> build/lib/setuptools/_vendor copying setuptools/_vendor/pyparsing.py -> build/lib/setuptools/_vendor creating build/lib/setuptools/command copying setuptools/command/__init__.py -> build/lib/setuptools/command copying setuptools/command/bdist_rpm.py -> build/lib/setuptools/command copying setuptools/command/register.py -> build/lib/setuptools/command copying setuptools/command/saveopts.py -> build/lib/setuptools/command copying setuptools/command/build_py.py -> build/lib/setuptools/command copying setuptools/command/install.py -> build/lib/setuptools/command copying setuptools/command/build_clib.py -> build/lib/setuptools/command copying setuptools/command/bdist_wininst.py -> build/lib/setuptools/command copying setuptools/command/rotate.py -> build/lib/setuptools/command copying setuptools/command/dist_info.py -> build/lib/setuptools/command copying setuptools/command/easy_install.py -> build/lib/setuptools/command copying setuptools/command/test.py -> build/lib/setuptools/command copying setuptools/command/py36compat.py -> build/lib/setuptools/command copying setuptools/command/install_egg_info.py -> build/lib/setuptools/command copying setuptools/command/develop.py -> build/lib/setuptools/command copying setuptools/command/bdist_egg.py -> build/lib/setuptools/command copying setuptools/command/install_scripts.py -> build/lib/setuptools/command copying setuptools/command/build_ext.py -> build/lib/setuptools/command copying setuptools/command/setopt.py -> build/lib/setuptools/command copying setuptools/command/install_lib.py -> build/lib/setuptools/command copying setuptools/command/sdist.py -> build/lib/setuptools/command copying setuptools/command/egg_info.py -> build/lib/setuptools/command copying setuptools/command/upload_docs.py -> build/lib/setuptools/command copying setuptools/command/upload.py -> build/lib/setuptools/command copying setuptools/command/alias.py -> build/lib/setuptools/command creating build/lib/setuptools/extern copying setuptools/extern/__init__.py -> build/lib/setuptools/extern creating build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/markers.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/version.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/specifiers.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/_structures.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/requirements.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/__about__.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/_compat.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/utils.py -> build/lib/setuptools/_vendor/packaging copying setuptools/_vendor/packaging/__init__.py -> build/lib/setuptools/_vendor/packaging copying setuptools/script (dev).tmpl -> build/lib/setuptools copying setuptools/script.tmpl -> build/lib/setuptools copying setuptools/cli-64.exe -> build/lib/setuptools copying setuptools/gui.exe -> build/lib/setuptools copying setuptools/cli-32.exe -> build/lib/setuptools copying setuptools/gui-32.exe -> build/lib/setuptools copying setuptools/gui-64.exe -> build/lib/setuptools copying setuptools/cli.exe -> build/lib/setuptools copying setuptools/command/launcher manifest.xml -> build/lib/setuptools/command creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/launch.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/ssl_support.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/py33compat.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/site-patch.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/windows_support.py -> build/bdist.linux-x86_64/egg/setuptools creating build/bdist.linux-x86_64/egg/setuptools/_vendor copying build/lib/setuptools/_vendor/__init__.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor creating build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/requirements.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/markers.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/__init__.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/__about__.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/version.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/_structures.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/specifiers.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/_compat.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/packaging/utils.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging copying build/lib/setuptools/_vendor/pyparsing.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor copying build/lib/setuptools/_vendor/six.py -> build/bdist.linux-x86_64/egg/setuptools/_vendor copying build/lib/setuptools/extension.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/msvc.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/script.tmpl -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/archive_util.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/__init__.py -> build/bdist.linux-x86_64/egg/setuptools creating build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/upload_docs.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/egg_info.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/upload.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/sdist.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/build_clib.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/bdist_rpm.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/bdist_wininst.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/py36compat.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/alias.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/install_lib.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/dist_info.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/setopt.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/test.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/develop.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/install_scripts.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/easy_install.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/install_egg_info.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/install.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/build_py.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/build_ext.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/__init__.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/bdist_egg.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/saveopts.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/register.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/launcher manifest.xml -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/command/rotate.py -> build/bdist.linux-x86_64/egg/setuptools/command copying build/lib/setuptools/lib2to3_ex.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/gui-64.exe -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/wheel.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/namespaces.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/config.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/gui.exe -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/gui-32.exe -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/pep425tags.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/dep_util.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/py36compat.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/version.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/monkey.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/build_meta.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/sandbox.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/glob.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/dist.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/py31compat.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/package_index.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/script (dev).tmpl -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/depends.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/py27compat.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/unicode_utils.py -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/cli-32.exe -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/cli-64.exe -> build/bdist.linux-x86_64/egg/setuptools copying build/lib/setuptools/glibc.py -> build/bdist.linux-x86_64/egg/setuptools creating build/bdist.linux-x86_64/egg/setuptools/extern copying build/lib/setuptools/extern/__init__.py -> build/bdist.linux-x86_64/egg/setuptools/extern copying build/lib/setuptools/cli.exe -> build/bdist.linux-x86_64/egg/setuptools creating build/bdist.linux-x86_64/egg/pkg_resources copying build/lib/pkg_resources/py31compat.py -> build/bdist.linux-x86_64/egg/pkg_resources creating build/bdist.linux-x86_64/egg/pkg_resources/extern copying build/lib/pkg_resources/extern/__init__.py -> build/bdist.linux-x86_64/egg/pkg_resources/extern copying build/lib/pkg_resources/__init__.py -> build/bdist.linux-x86_64/egg/pkg_resources creating build/bdist.linux-x86_64/egg/pkg_resources/_vendor creating build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/specifiers.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/_structures.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/requirements.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/__init__.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/utils.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/_compat.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/version.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/markers.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/packaging/__about__.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging copying build/lib/pkg_resources/_vendor/six.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor copying build/lib/pkg_resources/_vendor/appdirs.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor copying build/lib/pkg_resources/_vendor/__init__.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor copying build/lib/pkg_resources/_vendor/pyparsing.py -> build/bdist.linux-x86_64/egg/pkg_resources/_vendor copying build/lib/easy_install.py -> build/bdist.linux-x86_64/egg byte-compiling build/bdist.linux-x86_64/egg/setuptools/launch.py to launch.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/ssl_support.py to ssl_support.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/py33compat.py to py33compat.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/site-patch.py to site-patch.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/windows_support.py to windows_support.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/requirements.py to requirements.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/markers.py to markers.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/__about__.py to __about__.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/version.py to version.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/_structures.py to _structures.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/specifiers.py to specifiers.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/_compat.py to _compat.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/packaging/utils.py to utils.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/pyparsing.py to pyparsing.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/_vendor/six.py to six.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/extension.py to extension.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/msvc.py to msvc.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/archive_util.py to archive_util.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/upload_docs.py to upload_docs.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/egg_info.py to egg_info.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/upload.py to upload.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/sdist.py to sdist.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/build_clib.py to build_clib.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/bdist_rpm.py to bdist_rpm.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/bdist_wininst.py to bdist_wininst.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/py36compat.py to py36compat.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/alias.py to alias.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/install_lib.py to install_lib.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/dist_info.py to dist_info.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/setopt.py to setopt.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/test.py to test.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/develop.py to develop.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/install_scripts.py to install_scripts.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/easy_install.py to easy_install.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/install_egg_info.py to install_egg_info.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/install.py to install.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/build_py.py to build_py.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/build_ext.py to build_ext.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/bdist_egg.py to bdist_egg.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/saveopts.py to saveopts.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/register.py to register.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/command/rotate.py to rotate.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/lib2to3_ex.py to lib2to3_ex.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/wheel.py to wheel.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/namespaces.py to namespaces.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/config.py to config.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/pep425tags.py to pep425tags.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/dep_util.py to dep_util.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/py36compat.py to py36compat.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/version.py to version.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/monkey.py to monkey.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/build_meta.py to build_meta.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/sandbox.py to sandbox.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/glob.py to glob.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/dist.py to dist.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/py31compat.py to py31compat.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/package_index.py to package_index.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/depends.py to depends.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/py27compat.py to py27compat.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/unicode_utils.py to unicode_utils.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/glibc.py to glibc.pyc byte-compiling build/bdist.linux-x86_64/egg/setuptools/extern/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/py31compat.py to py31compat.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/extern/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/specifiers.py to specifiers.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/_structures.py to _structures.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/requirements.py to requirements.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/utils.py to utils.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/_compat.py to _compat.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/version.py to version.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/markers.py to markers.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/packaging/__about__.py to __about__.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/six.py to six.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/appdirs.py to appdirs.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/pkg_resources/_vendor/pyparsing.py to pyparsing.pyc byte-compiling build/bdist.linux-x86_64/egg/easy_install.py to easy_install.pyc creating build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/entry_points.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying setuptools.egg-info/zip-safe -> build/bdist.linux-x86_64/egg/EGG-INFO creating dist creating 'dist/setuptools-39.1.0-py2.7.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Creating /Users/gcheng6/pylith/lib/python2.7/site-packages/site.py Processing setuptools-39.1.0-py2.7.egg Copying setuptools-39.1.0-py2.7.egg to /Users/gcheng6/pylith/lib/python2.7/site-packages Adding setuptools 39.1.0 to easy-install.pth file Installing easy_install script to /Users/gcheng6/pylith/bin Installing easy_install-2.7 script to /Users/gcheng6/pylith/bin Installed /Users/gcheng6/pylith/lib/python2.7/site-packages/setuptools-39.1.0-py2.7.egg Processing dependencies for setuptools==39.1.0 Finished processing dependencies for setuptools==39.1.0 make[4]: Leaving directory `/Users/gcheng6/build/pylith' /Users/gcheng6/src/pylith/pylith-installer-2.2.2-0/bin/fetch.sh "/usr/bin/wget -nd -r -O" numpy-1.14.3.tar.gz http://geoweb.cse.ucdavis.edu/~buildbot/deps Downloading numpy-1.14.3.tar.gz from http://geoweb.cse.ucdavis.edu/~buildbot/deps. WARNING: combining -O with -r or -p will mean that all downloaded content will be placed in the single file you specified. --2021-04-06 13:47:30-- http://geoweb.cse.ucdavis.edu/~buildbot/deps/numpy-1.14.3.tar.gz Resolving geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)... 128.120.246.36 Connecting to geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)|128.120.246.36|:80... connected. HTTP request sent, awaiting response... 200 OK Length: 4370292 (4.2M) [application/x-gzip] Saving to: ‘numpy-1.14.3.tar.gz’ 100%[========================================================================================================================================================================>] 4,370,292 4.97MB/s in 0.8s 2021-04-06 13:47:31 (4.97 MB/s) - ‘numpy-1.14.3.tar.gz’ saved [4370292/4370292] FINISHED --2021-04-06 13:47:31-- Total wall clock time: 1.1s Downloaded: 1 files, 4.2M in 0.8s (4.97 MB/s) /usr/bin/tar -zxf numpy-1.14.3.tar.gz cd numpy-1.14.3 && \ /Users/gcheng6/pylith/bin/python setup.py install --prefix=/Users/gcheng6/pylith && \ touch /Users/gcheng6/build/pylith/installed_numpy Running from numpy source directory. Note: if you need reliable uninstall behavior, then install with pip instead of using `setup.py install`: - `pip install .` (from a git repo or downloaded source release) - `pip install numpy` (last NumPy release on PyPi) blas_opt_info: blas_mkl_info: customize UnixCCompiler libraries mkl_rt not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE blis_info: customize UnixCCompiler libraries blis not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE openblas_info: customize UnixCCompiler customize UnixCCompiler libraries openblas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE atlas_3_10_blas_threads_info: Setting PTATLAS=ATLAS customize UnixCCompiler libraries tatlas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64/atlas', '/usr/lib64/sse2', '/usr/lib64', '/usr/lib/sse2', '/usr/lib', '/usr/lib/sse2', '/usr/lib/'] NOT AVAILABLE atlas_3_10_blas_info: customize UnixCCompiler libraries satlas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64/atlas', '/usr/lib64/sse2', '/usr/lib64', '/usr/lib/sse2', '/usr/lib', '/usr/lib/sse2', '/usr/lib/'] NOT AVAILABLE atlas_blas_threads_info: Setting PTATLAS=ATLAS customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64/atlas', '/usr/lib64/sse2', '/usr/lib64', '/usr/lib/sse2', '/usr/lib', '/usr/lib/sse2', '/usr/lib/'] NOT AVAILABLE atlas_blas_info: customize UnixCCompiler libraries f77blas,cblas,atlas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64/atlas', '/usr/lib64/sse2', '/usr/lib64', '/usr/lib/sse2', '/usr/lib', '/usr/lib/sse2', '/usr/lib/'] NOT AVAILABLE /Users/gcheng6/build/pylith/numpy-1.14.3/numpy/distutils/system_info.py:624: UserWarning: Atlas (http://math-atlas.sourceforge.net/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [atlas]) or by setting the ATLAS environment variable. self.calc_info() blas_info: customize UnixCCompiler libraries blas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE /Users/gcheng6/build/pylith/numpy-1.14.3/numpy/distutils/system_info.py:624: UserWarning: Blas (http://www.netlib.org/blas/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [blas]) or by setting the BLAS environment variable. self.calc_info() blas_src_info: NOT AVAILABLE /Users/gcheng6/build/pylith/numpy-1.14.3/numpy/distutils/system_info.py:624: UserWarning: Blas (http://www.netlib.org/blas/) sources not found. Directories to search for the sources can be specified in the numpy/distutils/site.cfg file (section [blas_src]) or by setting the BLAS_SRC environment variable. self.calc_info() NOT AVAILABLE non-existing path in 'numpy/distutils': 'site.cfg' F2PY Version 2 lapack_opt_info: lapack_mkl_info: customize UnixCCompiler libraries mkl_rt not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE openblas_lapack_info: customize UnixCCompiler customize UnixCCompiler libraries openblas not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE openblas_clapack_info: customize UnixCCompiler customize UnixCCompiler libraries openblas,lapack not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE atlas_3_10_threads_info: Setting PTATLAS=ATLAS customize UnixCCompiler libraries tatlas,tatlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries lapack_atlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries tatlas,tatlas not found in /usr/local/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib64 customize UnixCCompiler libraries tatlas,tatlas not found in /usr/local/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib64/atlas customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/atlas customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64 customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/lib customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries tatlas,tatlas not found in /usr/lib/ customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/ NOT AVAILABLE atlas_3_10_info: customize UnixCCompiler libraries satlas,satlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries lapack_atlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries satlas,satlas not found in /usr/local/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib64 customize UnixCCompiler libraries satlas,satlas not found in /usr/local/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib customize UnixCCompiler libraries satlas,satlas not found in /usr/lib64/atlas customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/atlas customize UnixCCompiler libraries satlas,satlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries satlas,satlas not found in /usr/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64 customize UnixCCompiler libraries satlas,satlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries satlas,satlas not found in /usr/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/lib customize UnixCCompiler libraries satlas,satlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries satlas,satlas not found in /usr/lib/ customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/ NOT AVAILABLE atlas_threads_info: Setting PTATLAS=ATLAS customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries lapack_atlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib64 customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib64/atlas customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/atlas customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64 customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/lib customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries ptf77blas,ptcblas,atlas not found in /usr/lib/ customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/ NOT AVAILABLE atlas_info: customize UnixCCompiler libraries f77blas,cblas,atlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries lapack_atlas not found in /Users/gcheng6/pylith/lib customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/local/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib64 customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/local/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/local/lib customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib64/atlas customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/atlas customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64/sse2 customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib64 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib64 customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib customize UnixCCompiler libraries lapack_atlas not found in /usr/lib customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/sse2 customize UnixCCompiler libraries f77blas,cblas,atlas not found in /usr/lib/ customize UnixCCompiler libraries lapack_atlas not found in /usr/lib/ NOT AVAILABLE lapack_info: customize UnixCCompiler libraries lapack not found in ['/Users/gcheng6/pylith/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/'] NOT AVAILABLE /Users/gcheng6/build/pylith/numpy-1.14.3/numpy/distutils/system_info.py:624: UserWarning: Lapack (http://www.netlib.org/lapack/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [lapack]) or by setting the LAPACK environment variable. self.calc_info() lapack_src_info: NOT AVAILABLE /Users/gcheng6/build/pylith/numpy-1.14.3/numpy/distutils/system_info.py:624: UserWarning: Lapack (http://www.netlib.org/lapack/) sources not found. Directories to search for the sources can be specified in the numpy/distutils/site.cfg file (section [lapack_src]) or by setting the LAPACK_SRC environment variable. self.calc_info() NOT AVAILABLE /Users/gcheng6/pylith/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'define_macros' warnings.warn(msg) running install running bdist_egg running egg_info running build_src build_src building py_modules sources creating build creating build/src.linux-x86_64-2.7 creating build/src.linux-x86_64-2.7/numpy creating build/src.linux-x86_64-2.7/numpy/distutils building library "npymath" sources get_default_fcompiler: matching types: '['gnu95', 'intel', 'lahey', 'pg', 'absoft', 'nag', 'vast', 'compaq', 'intele', 'intelem', 'gnu', 'g95', 'pathf95', 'nagfor']' customize Gnu95FCompiler Found executable /usr/bin/gfortran customize Gnu95FCompiler customize Gnu95FCompiler using config C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest /usr/bin/ld: _configtest.o: undefined reference to symbol 'exp@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status /usr/bin/ld: _configtest.o: undefined reference to symbol 'exp@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest creating build/src.linux-x86_64-2.7/numpy/core creating build/src.linux-x86_64-2.7/numpy/core/src creating build/src.linux-x86_64-2.7/numpy/core/src/npymath conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npymath/npy_math_internal.h adding 'build/src.linux-x86_64-2.7/numpy/core/src/npymath' to include_dirs. conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npymath/ieee754.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npymath/npy_math_complex.c None - nothing done with h_files = ['build/src.linux-x86_64-2.7/numpy/core/src/npymath/npy_math_internal.h'] building library "npysort" sources creating build/src.linux-x86_64-2.7/numpy/core/src/npysort conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npysort/quicksort.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npysort/mergesort.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npysort/heapsort.c creating build/src.linux-x86_64-2.7/numpy/core/src/private conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/private/npy_partition.h adding 'build/src.linux-x86_64-2.7/numpy/core/src/private' to include_dirs. conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npysort/selection.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/private/npy_binsearch.h conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/npysort/binsearch.c None - nothing done with h_files = ['build/src.linux-x86_64-2.7/numpy/core/src/private/npy_partition.h', 'build/src.linux-x86_64-2.7/numpy/core/src/private/npy_binsearch.h'] building extension "numpy.core._dummy" sources Generating build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:24: fatal error: sys/endian.h: No such file or directory compilation terminated. _configtest.c:1:24: fatal error: sys/endian.h: No such file or directory compilation terminated. failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 4)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 8)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 8)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 16)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:12: error: 'SIZEOF_LONGDOUBLE' undeclared (first use in this function) (void) SIZEOF_LONGDOUBLE; ^ _configtest.c:7:12: note: each undeclared identifier is reported only once for each function it appears in _configtest.c: In function 'main': _configtest.c:7:12: error: 'SIZEOF_LONGDOUBLE' undeclared (first use in this function) (void) SIZEOF_LONGDOUBLE; ^ _configtest.c:7:12: note: each undeclared identifier is reported only once for each function it appears in failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 16)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 32)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 8)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 8)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 8)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:16: warning: variable 'test_array' set but not used [-Wunused-but-set-variable] static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == 8)]; ^ removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest /usr/bin/ld: _configtest.o: undefined reference to symbol 'exp@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status /usr/bin/ld: _configtest.o: undefined reference to symbol 'exp@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'asin' int asin (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'cos' int cos (void); ^ _configtest.c:3:5: warning: conflicting types for built-in function 'log' int log (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'fabs' int fabs (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'tanh' int tanh (void); ^ _configtest.c:6:5: warning: conflicting types for built-in function 'atan' int atan (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'acos' int acos (void); ^ _configtest.c:8:5: warning: conflicting types for built-in function 'floor' int floor (void); ^ _configtest.c:9:5: warning: conflicting types for built-in function 'fmod' int fmod (void); ^ _configtest.c:10:5: warning: conflicting types for built-in function 'sqrt' int sqrt (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'cosh' int cosh (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'modf' int modf (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'sinh' int sinh (void); ^ _configtest.c:14:5: warning: conflicting types for built-in function 'frexp' int frexp (void); ^ _configtest.c:15:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ _configtest.c:16:5: warning: conflicting types for built-in function 'tan' int tan (void); ^ _configtest.c:17:5: warning: conflicting types for built-in function 'ceil' int ceil (void); ^ _configtest.c:18:5: warning: conflicting types for built-in function 'log10' int log10 (void); ^ _configtest.c:19:5: warning: conflicting types for built-in function 'sin' int sin (void); ^ _configtest.c:20:5: warning: conflicting types for built-in function 'ldexp' int ldexp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'log2' int log2 (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'pow' int pow (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'exp2' int exp2 (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'atan2' int atan2 (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'rint' int rint (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'cbrt' int cbrt (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'nextafter' int nextafter (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'trunc' int trunc (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:3: warning: statement with no effect [-Wunused-value] __builtin_isnan(5.); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:3: warning: statement with no effect [-Wunused-value] __builtin_isinf(5.); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:3: warning: statement with no effect [-Wunused-value] __builtin_isfinite(5.); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:3: warning: statement with no effect [-Wunused-value] __builtin_bswap32(5u); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:3: warning: statement with no effect [-Wunused-value] __builtin_bswap64(5u); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:5:3: warning: statement with no effect [-Wunused-value] __builtin_expect(5, 0); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:7:16: warning: unused variable 'r' [-Wunused-variable] volatile int r = __builtin_cpu_supports("sse"); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:8:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:8:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:8:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:8:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:8:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:8:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:5:5: warning: function declaration isn't a prototype [-Wstrict-prototypes] int __declspec(thread) foo; ^ _configtest.c: In function '__declspec': _configtest.c:5:24: error: expected declaration specifiers before 'foo' int __declspec(thread) foo; ^ _configtest.c:9:1: error: expected '=', ',', ';', 'asm' or '__attribute__' before '{' token { ^ _configtest.c:5:5: warning: type of 'thread' defaults to 'int' [-Wimplicit-int] int __declspec(thread) foo; ^ _configtest.c:11:1: error: expected '{' at end of input } ^ _configtest.c:11:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ _configtest.c:3:0: warning: ignoring #pragma clang diagnostic [-Wunknown-pragmas] #pragma clang diagnostic error "-Wattributes" ^ _configtest.c:5:5: warning: function declaration isn't a prototype [-Wstrict-prototypes] int __declspec(thread) foo; ^ _configtest.c: In function '__declspec': _configtest.c:5:24: error: expected declaration specifiers before 'foo' int __declspec(thread) foo; ^ _configtest.c:9:1: error: expected '=', ',', ';', 'asm' or '__attribute__' before '{' token { ^ _configtest.c:5:5: warning: type of 'thread' defaults to 'int' [-Wimplicit-int] int __declspec(thread) foo; ^ _configtest.c:11:1: error: expected '{' at end of input } ^ _configtest.c:11:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'cosf' int cosf (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'coshf' int coshf (void); ^ _configtest.c:3:5: warning: conflicting types for built-in function 'rintf' int rintf (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'fabsf' int fabsf (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'floorf' int floorf (void); ^ _configtest.c:6:5: warning: conflicting types for built-in function 'nextafterf' int nextafterf (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'tanhf' int tanhf (void); ^ _configtest.c:8:5: warning: conflicting types for built-in function 'log10f' int log10f (void); ^ _configtest.c:9:5: warning: conflicting types for built-in function 'logf' int logf (void); ^ _configtest.c:10:5: warning: conflicting types for built-in function 'sinhf' int sinhf (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'acosf' int acosf (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'sqrtf' int sqrtf (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'ldexpf' int ldexpf (void); ^ _configtest.c:14:5: warning: conflicting types for built-in function 'hypotf' int hypotf (void); ^ _configtest.c:15:5: warning: conflicting types for built-in function 'log2f' int log2f (void); ^ _configtest.c:16:5: warning: conflicting types for built-in function 'exp2f' int exp2f (void); ^ _configtest.c:17:5: warning: conflicting types for built-in function 'atanf' int atanf (void); ^ _configtest.c:18:5: warning: conflicting types for built-in function 'fmodf' int fmodf (void); ^ _configtest.c:19:5: warning: conflicting types for built-in function 'atan2f' int atan2f (void); ^ _configtest.c:20:5: warning: conflicting types for built-in function 'cbrtf' int cbrtf (void); ^ _configtest.c:21:5: warning: conflicting types for built-in function 'modff' int modff (void); ^ _configtest.c:22:5: warning: conflicting types for built-in function 'ceilf' int ceilf (void); ^ _configtest.c:23:5: warning: conflicting types for built-in function 'log1pf' int log1pf (void); ^ _configtest.c:24:5: warning: conflicting types for built-in function 'asinf' int asinf (void); ^ _configtest.c:25:5: warning: conflicting types for built-in function 'copysignf' int copysignf (void); ^ _configtest.c:26:5: warning: conflicting types for built-in function 'acoshf' int acoshf (void); ^ _configtest.c:27:5: warning: conflicting types for built-in function 'sinf' int sinf (void); ^ _configtest.c:28:5: warning: conflicting types for built-in function 'tanf' int tanf (void); ^ _configtest.c:29:5: warning: conflicting types for built-in function 'atanhf' int atanhf (void); ^ _configtest.c:30:5: warning: conflicting types for built-in function 'truncf' int truncf (void); ^ _configtest.c:31:5: warning: conflicting types for built-in function 'asinhf' int asinhf (void); ^ _configtest.c:32:5: warning: conflicting types for built-in function 'frexpf' int frexpf (void); ^ _configtest.c:33:5: warning: conflicting types for built-in function 'powf' int powf (void); ^ _configtest.c:34:5: warning: conflicting types for built-in function 'expf' int expf (void); ^ _configtest.c:35:5: warning: conflicting types for built-in function 'expm1f' int expm1f (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'tanhl' int tanhl (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'log10l' int log10l (void); ^ _configtest.c:3:5: warning: conflicting types for built-in function 'nextafterl' int nextafterl (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'coshl' int coshl (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'cosl' int cosl (void); ^ _configtest.c:6:5: warning: conflicting types for built-in function 'floorl' int floorl (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'rintl' int rintl (void); ^ _configtest.c:8:5: warning: conflicting types for built-in function 'fabsl' int fabsl (void); ^ _configtest.c:9:5: warning: conflicting types for built-in function 'acosl' int acosl (void); ^ _configtest.c:10:5: warning: conflicting types for built-in function 'ldexpl' int ldexpl (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'sqrtl' int sqrtl (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'logl' int logl (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'expm1l' int expm1l (void); ^ _configtest.c:14:5: warning: conflicting types for built-in function 'hypotl' int hypotl (void); ^ _configtest.c:15:5: warning: conflicting types for built-in function 'log2l' int log2l (void); ^ _configtest.c:16:5: warning: conflicting types for built-in function 'copysignl' int copysignl (void); ^ _configtest.c:17:5: warning: conflicting types for built-in function 'exp2l' int exp2l (void); ^ _configtest.c:18:5: warning: conflicting types for built-in function 'atanl' int atanl (void); ^ _configtest.c:19:5: warning: conflicting types for built-in function 'frexpl' int frexpl (void); ^ _configtest.c:20:5: warning: conflicting types for built-in function 'atan2l' int atan2l (void); ^ _configtest.c:21:5: warning: conflicting types for built-in function 'sinhl' int sinhl (void); ^ _configtest.c:22:5: warning: conflicting types for built-in function 'fmodl' int fmodl (void); ^ _configtest.c:23:5: warning: conflicting types for built-in function 'log1pl' int log1pl (void); ^ _configtest.c:24:5: warning: conflicting types for built-in function 'asinl' int asinl (void); ^ _configtest.c:25:5: warning: conflicting types for built-in function 'ceill' int ceill (void); ^ _configtest.c:26:5: warning: conflicting types for built-in function 'sinl' int sinl (void); ^ _configtest.c:27:5: warning: conflicting types for built-in function 'cbrtl' int cbrtl (void); ^ _configtest.c:28:5: warning: conflicting types for built-in function 'acoshl' int acoshl (void); ^ _configtest.c:29:5: warning: conflicting types for built-in function 'atanhl' int atanhl (void); ^ _configtest.c:30:5: warning: conflicting types for built-in function 'tanl' int tanl (void); ^ _configtest.c:31:5: warning: conflicting types for built-in function 'truncl' int truncl (void); ^ _configtest.c:32:5: warning: conflicting types for built-in function 'powl' int powl (void); ^ _configtest.c:33:5: warning: conflicting types for built-in function 'expl' int expl (void); ^ _configtest.c:34:5: warning: conflicting types for built-in function 'modfl' int modfl (void); ^ _configtest.c:35:5: warning: conflicting types for built-in function 'asinhl' int asinhl (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c: In function 'main': _configtest.c:8:12: error: 'HAVE_DECL_SIGNBIT' undeclared (first use in this function) (void) HAVE_DECL_SIGNBIT; ^ _configtest.c:8:12: note: each undeclared identifier is reported only once for each function it appears in _configtest.c: In function 'main': _configtest.c:8:12: error: 'HAVE_DECL_SIGNBIT' undeclared (first use in this function) (void) HAVE_DECL_SIGNBIT; ^ _configtest.c:8:12: note: each undeclared identifier is reported only once for each function it appears in failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'clog' int clog (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'ctan' int ctan (void); ^ _configtest.c:3:5: warning: conflicting types for built-in function 'casinh' int casinh (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'cacosh' int cacosh (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'cabs' int cabs (void); ^ _configtest.c:6:5: warning: conflicting types for built-in function 'conj' int conj (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'csqrt' int csqrt (void); ^ _configtest.c:8:5: warning: conflicting types for built-in function 'creal' int creal (void); ^ _configtest.c:9:5: warning: conflicting types for built-in function 'cproj' int cproj (void); ^ _configtest.c:10:5: warning: conflicting types for built-in function 'cpow' int cpow (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'csinh' int csinh (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'catan' int catan (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'ctanh' int ctanh (void); ^ _configtest.c:14:5: warning: conflicting types for built-in function 'ccosh' int ccosh (void); ^ _configtest.c:15:5: warning: conflicting types for built-in function 'cimag' int cimag (void); ^ _configtest.c:16:5: warning: conflicting types for built-in function 'casin' int casin (void); ^ _configtest.c:17:5: warning: conflicting types for built-in function 'carg' int carg (void); ^ _configtest.c:18:5: warning: conflicting types for built-in function 'csin' int csin (void); ^ _configtest.c:19:5: warning: conflicting types for built-in function 'cexp' int cexp (void); ^ _configtest.c:20:5: warning: conflicting types for built-in function 'ccos' int ccos (void); ^ _configtest.c:21:5: warning: conflicting types for built-in function 'cacos' int cacos (void); ^ _configtest.c:22:5: warning: conflicting types for built-in function 'catanh' int catanh (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'ctanhf' int ctanhf (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'csinhf' int csinhf (void); ^ _configtest.c:3:5: warning: conflicting types for built-in function 'cprojf' int cprojf (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'cacoshf' int cacoshf (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'cacosf' int cacosf (void); ^ _configtest.c:6:5: warning: conflicting types for built-in function 'cargf' int cargf (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'cpowf' int cpowf (void); ^ _configtest.c:8:5: warning: conflicting types for built-in function 'csinf' int csinf (void); ^ _configtest.c:9:5: warning: conflicting types for built-in function 'clogf' int clogf (void); ^ _configtest.c:10:5: warning: conflicting types for built-in function 'ccoshf' int ccoshf (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'conjf' int conjf (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'casinhf' int casinhf (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'ccosf' int ccosf (void); ^ _configtest.c:14:5: warning: conflicting types for built-in function 'ctanf' int ctanf (void); ^ _configtest.c:15:5: warning: conflicting types for built-in function 'cexpf' int cexpf (void); ^ _configtest.c:16:5: warning: conflicting types for built-in function 'cimagf' int cimagf (void); ^ _configtest.c:17:5: warning: conflicting types for built-in function 'catanhf' int catanhf (void); ^ _configtest.c:18:5: warning: conflicting types for built-in function 'casinf' int casinf (void); ^ _configtest.c:19:5: warning: conflicting types for built-in function 'catanf' int catanf (void); ^ _configtest.c:20:5: warning: conflicting types for built-in function 'csqrtf' int csqrtf (void); ^ _configtest.c:21:5: warning: conflicting types for built-in function 'crealf' int crealf (void); ^ _configtest.c:22:5: warning: conflicting types for built-in function 'cabsf' int cabsf (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'csinhl' int csinhl (void); ^ _configtest.c:2:5: warning: conflicting types for built-in function 'ctanhl' int ctanhl (void); ^ _configtest.c:3:5: warning: conflicting types for built-in function 'cacosl' int cacosl (void); ^ _configtest.c:4:5: warning: conflicting types for built-in function 'cacoshl' int cacoshl (void); ^ _configtest.c:5:5: warning: conflicting types for built-in function 'cprojl' int cprojl (void); ^ _configtest.c:6:5: warning: conflicting types for built-in function 'cargl' int cargl (void); ^ _configtest.c:7:5: warning: conflicting types for built-in function 'ccoshl' int ccoshl (void); ^ _configtest.c:8:5: warning: conflicting types for built-in function 'conjl' int conjl (void); ^ _configtest.c:9:5: warning: conflicting types for built-in function 'csinl' int csinl (void); ^ _configtest.c:10:5: warning: conflicting types for built-in function 'clogl' int clogl (void); ^ _configtest.c:11:5: warning: conflicting types for built-in function 'cexpl' int cexpl (void); ^ _configtest.c:12:5: warning: conflicting types for built-in function 'ccosl' int ccosl (void); ^ _configtest.c:13:5: warning: conflicting types for built-in function 'ctanl' int ctanl (void); ^ _configtest.c:14:5: warning: conflicting types for built-in function 'cpowl' int cpowl (void); ^ _configtest.c:15:5: warning: conflicting types for built-in function 'casinhl' int casinhl (void); ^ _configtest.c:16:5: warning: conflicting types for built-in function 'csqrtl' int csqrtl (void); ^ _configtest.c:17:5: warning: conflicting types for built-in function 'casinl' int casinl (void); ^ _configtest.c:18:5: warning: conflicting types for built-in function 'catanl' int catanl (void); ^ _configtest.c:19:5: warning: conflicting types for built-in function 'catanhl' int catanhl (void); ^ _configtest.c:20:5: warning: conflicting types for built-in function 'creall' int creall (void); ^ _configtest.c:21:5: warning: conflicting types for built-in function 'cabsl' int cabsl (void); ^ _configtest.c:22:5: warning: conflicting types for built-in function 'cimagl' int cimagl (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:2:12: warning: 'static_func' defined but not used [-Wunused-function] static int static_func (char * restrict a) ^ success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c removing: _configtest.c _configtest.o File: build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h #define HAVE_ENDIAN_H 1 #define SIZEOF_PY_INTPTR_T 8 #define SIZEOF_OFF_T 8 #define SIZEOF_PY_LONG_LONG 8 #define MATHLIB m #define HAVE_SIN 1 #define HAVE_COS 1 #define HAVE_TAN 1 #define HAVE_SINH 1 #define HAVE_COSH 1 #define HAVE_TANH 1 #define HAVE_FABS 1 #define HAVE_FLOOR 1 #define HAVE_CEIL 1 #define HAVE_SQRT 1 #define HAVE_LOG10 1 #define HAVE_LOG 1 #define HAVE_EXP 1 #define HAVE_ASIN 1 #define HAVE_ACOS 1 #define HAVE_ATAN 1 #define HAVE_FMOD 1 #define HAVE_MODF 1 #define HAVE_FREXP 1 #define HAVE_LDEXP 1 #define HAVE_RINT 1 #define HAVE_TRUNC 1 #define HAVE_EXP2 1 #define HAVE_LOG2 1 #define HAVE_ATAN2 1 #define HAVE_POW 1 #define HAVE_NEXTAFTER 1 #define HAVE_STRTOLL 1 #define HAVE_STRTOULL 1 #define HAVE_CBRT 1 #define HAVE_STRTOLD_L 1 #define HAVE_FALLOCATE 1 #define HAVE_BACKTRACE 1 #define HAVE_XMMINTRIN_H 1 #define HAVE_EMMINTRIN_H 1 #define HAVE_FEATURES_H 1 #define HAVE_XLOCALE_H 1 #define HAVE_DLFCN_H 1 #define HAVE___BUILTIN_ISNAN 1 #define HAVE___BUILTIN_ISINF 1 #define HAVE___BUILTIN_ISFINITE 1 #define HAVE___BUILTIN_BSWAP32 1 #define HAVE___BUILTIN_BSWAP64 1 #define HAVE___BUILTIN_EXPECT 1 #define HAVE___BUILTIN_MUL_OVERFLOW 1 #define HAVE___BUILTIN_CPU_SUPPORTS 1 #define HAVE__M_FROM_INT64 1 #define HAVE__MM_LOAD_PS 1 #define HAVE__MM_PREFETCH 1 #define HAVE__MM_LOAD_PD 1 #define HAVE___BUILTIN_PREFETCH 1 #define HAVE_LINK_AVX 1 #define HAVE_LINK_AVX2 1 #define HAVE_ATTRIBUTE_OPTIMIZE_UNROLL_LOOPS 1 #define HAVE_ATTRIBUTE_OPTIMIZE_OPT_3 1 #define HAVE_ATTRIBUTE_NONNULL 1 #define HAVE_ATTRIBUTE_TARGET_AVX 1 #define HAVE_ATTRIBUTE_TARGET_AVX2 1 #define HAVE___THREAD 1 #define HAVE_SINF 1 #define HAVE_COSF 1 #define HAVE_TANF 1 #define HAVE_SINHF 1 #define HAVE_COSHF 1 #define HAVE_TANHF 1 #define HAVE_FABSF 1 #define HAVE_FLOORF 1 #define HAVE_CEILF 1 #define HAVE_RINTF 1 #define HAVE_TRUNCF 1 #define HAVE_SQRTF 1 #define HAVE_LOG10F 1 #define HAVE_LOGF 1 #define HAVE_LOG1PF 1 #define HAVE_EXPF 1 #define HAVE_EXPM1F 1 #define HAVE_ASINF 1 #define HAVE_ACOSF 1 #define HAVE_ATANF 1 #define HAVE_ASINHF 1 #define HAVE_ACOSHF 1 #define HAVE_ATANHF 1 #define HAVE_HYPOTF 1 #define HAVE_ATAN2F 1 #define HAVE_POWF 1 #define HAVE_FMODF 1 #define HAVE_MODFF 1 #define HAVE_FREXPF 1 #define HAVE_LDEXPF 1 #define HAVE_EXP2F 1 #define HAVE_LOG2F 1 #define HAVE_COPYSIGNF 1 #define HAVE_NEXTAFTERF 1 #define HAVE_CBRTF 1 #define HAVE_SINL 1 #define HAVE_COSL 1 #define HAVE_TANL 1 #define HAVE_SINHL 1 #define HAVE_COSHL 1 #define HAVE_TANHL 1 #define HAVE_FABSL 1 #define HAVE_FLOORL 1 #define HAVE_CEILL 1 #define HAVE_RINTL 1 #define HAVE_TRUNCL 1 #define HAVE_SQRTL 1 #define HAVE_LOG10L 1 #define HAVE_LOGL 1 #define HAVE_LOG1PL 1 #define HAVE_EXPL 1 #define HAVE_EXPM1L 1 #define HAVE_ASINL 1 #define HAVE_ACOSL 1 #define HAVE_ATANL 1 #define HAVE_ASINHL 1 #define HAVE_ACOSHL 1 #define HAVE_ATANHL 1 #define HAVE_HYPOTL 1 #define HAVE_ATAN2L 1 #define HAVE_POWL 1 #define HAVE_FMODL 1 #define HAVE_MODFL 1 #define HAVE_FREXPL 1 #define HAVE_LDEXPL 1 #define HAVE_EXP2L 1 #define HAVE_LOG2L 1 #define HAVE_COPYSIGNL 1 #define HAVE_NEXTAFTERL 1 #define HAVE_CBRTL 1 #define HAVE_DECL_SIGNBIT #define HAVE_COMPLEX_H 1 #define HAVE_CABS 1 #define HAVE_CACOS 1 #define HAVE_CACOSH 1 #define HAVE_CARG 1 #define HAVE_CASIN 1 #define HAVE_CASINH 1 #define HAVE_CATAN 1 #define HAVE_CATANH 1 #define HAVE_CCOS 1 #define HAVE_CCOSH 1 #define HAVE_CEXP 1 #define HAVE_CIMAG 1 #define HAVE_CLOG 1 #define HAVE_CONJ 1 #define HAVE_CPOW 1 #define HAVE_CPROJ 1 #define HAVE_CREAL 1 #define HAVE_CSIN 1 #define HAVE_CSINH 1 #define HAVE_CSQRT 1 #define HAVE_CTAN 1 #define HAVE_CTANH 1 #define HAVE_CABSF 1 #define HAVE_CACOSF 1 #define HAVE_CACOSHF 1 #define HAVE_CARGF 1 #define HAVE_CASINF 1 #define HAVE_CASINHF 1 #define HAVE_CATANF 1 #define HAVE_CATANHF 1 #define HAVE_CCOSF 1 #define HAVE_CCOSHF 1 #define HAVE_CEXPF 1 #define HAVE_CIMAGF 1 #define HAVE_CLOGF 1 #define HAVE_CONJF 1 #define HAVE_CPOWF 1 #define HAVE_CPROJF 1 #define HAVE_CREALF 1 #define HAVE_CSINF 1 #define HAVE_CSINHF 1 #define HAVE_CSQRTF 1 #define HAVE_CTANF 1 #define HAVE_CTANHF 1 #define HAVE_CABSL 1 #define HAVE_CACOSL 1 #define HAVE_CACOSHL 1 #define HAVE_CARGL 1 #define HAVE_CASINL 1 #define HAVE_CASINHL 1 #define HAVE_CATANL 1 #define HAVE_CATANHL 1 #define HAVE_CCOSL 1 #define HAVE_CCOSHL 1 #define HAVE_CEXPL 1 #define HAVE_CIMAGL 1 #define HAVE_CLOGL 1 #define HAVE_CONJL 1 #define HAVE_CPOWL 1 #define HAVE_CPROJL 1 #define HAVE_CREALL 1 #define HAVE_CSINL 1 #define HAVE_CSINHL 1 #define HAVE_CSQRTL 1 #define HAVE_CTANL 1 #define HAVE_CTANHL 1 #define NPY_RESTRICT restrict #define NPY_RELAXED_STRIDES_CHECKING 1 #define HAVE_LDOUBLE_INTEL_EXTENDED_16_BYTES_LE 1 #ifndef __cplusplus /* #undef inline */ #endif #ifndef _NPY_NPY_CONFIG_H_ #error config.h should never be included directly, include npy_config.h instead #endif EOF adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h' to sources. Generating build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -o _configtest /usr/bin/ld: _configtest.o: undefined reference to symbol 'exp@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status /usr/bin/ld: _configtest.o: undefined reference to symbol 'exp@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status failure. removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:1:5: warning: conflicting types for built-in function 'exp' int exp (void); ^ /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc _configtest.o -lm -o _configtest success! removing: _configtest.c _configtest.o _configtest C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c success! removing: _configtest.c _configtest.o C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -c' mpicc: _configtest.c _configtest.c:3:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] main() ^ success! removing: _configtest.c _configtest.o File: build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h #define NPY_HAVE_ENDIAN_H 1 #define NPY_SIZEOF_SHORT SIZEOF_SHORT #define NPY_SIZEOF_INT SIZEOF_INT #define NPY_SIZEOF_LONG SIZEOF_LONG #define NPY_SIZEOF_FLOAT 4 #define NPY_SIZEOF_COMPLEX_FLOAT 8 #define NPY_SIZEOF_DOUBLE 8 #define NPY_SIZEOF_COMPLEX_DOUBLE 16 #define NPY_SIZEOF_LONGDOUBLE 16 #define NPY_SIZEOF_COMPLEX_LONGDOUBLE 32 #define NPY_SIZEOF_PY_INTPTR_T 8 #define NPY_SIZEOF_OFF_T 8 #define NPY_SIZEOF_PY_LONG_LONG 8 #define NPY_SIZEOF_LONGLONG 8 #define NPY_NO_SMP 0 #define NPY_HAVE_DECL_ISNAN #define NPY_HAVE_DECL_ISINF #define NPY_HAVE_DECL_ISFINITE #define NPY_HAVE_DECL_SIGNBIT #define NPY_USE_C99_COMPLEX 1 #define NPY_HAVE_COMPLEX_DOUBLE 1 #define NPY_HAVE_COMPLEX_FLOAT 1 #define NPY_HAVE_COMPLEX_LONG_DOUBLE 1 #define NPY_RELAXED_STRIDES_CHECKING 1 #define NPY_USE_C99_FORMATS 1 #define NPY_VISIBILITY_HIDDEN __attribute__((visibility("hidden"))) #define NPY_ABI_VERSION 0x01000009 #define NPY_API_VERSION 0x0000000C #ifndef __STDC_FORMAT_MACROS #define __STDC_FORMAT_MACROS 1 #endif EOF adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h' to sources. executing numpy/core/code_generators/generate_numpy_api.py adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__multiarray_api.h' to sources. numpy.core - nothing done with h_files = ['build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__multiarray_api.h'] building extension "numpy.core.multiarray" sources adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h' to sources. adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h' to sources. executing numpy/core/code_generators/generate_numpy_api.py adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__multiarray_api.h' to sources. creating build/src.linux-x86_64-2.7/numpy/core/src/multiarray conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/multiarray/arraytypes.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/multiarray/einsum.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/multiarray/lowlevel_strided_loops.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/multiarray/nditer_templ.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/multiarray/scalartypes.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/private/templ_common.h adding 'build/src.linux-x86_64-2.7/numpy/core/src/private' to include_dirs. numpy.core - nothing done with h_files = ['build/src.linux-x86_64-2.7/numpy/core/src/private/templ_common.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__multiarray_api.h'] building extension "numpy.core.umath" sources adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h' to sources. adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h' to sources. executing numpy/core/code_generators/generate_ufunc_api.py adding 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__ufunc_api.h' to sources. creating build/src.linux-x86_64-2.7/numpy/core/src/umath conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/funcs.inc adding 'build/src.linux-x86_64-2.7/numpy/core/src/umath' to include_dirs. conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/simd.inc conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/loops.h conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/loops.c conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/scalarmath.c numpy.core - nothing done with h_files = ['build/src.linux-x86_64-2.7/numpy/core/src/umath/funcs.inc', 'build/src.linux-x86_64-2.7/numpy/core/src/umath/simd.inc', 'build/src.linux-x86_64-2.7/numpy/core/src/umath/loops.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/config.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__ufunc_api.h'] building extension "numpy.core.umath_tests" sources conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/umath_tests.c building extension "numpy.core.test_rational" sources conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/test_rational.c building extension "numpy.core.struct_ufunc_test" sources conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/struct_ufunc_test.c building extension "numpy.core.multiarray_tests" sources conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/multiarray/multiarray_tests.c building extension "numpy.core.operand_flag_tests" sources conv_template:> build/src.linux-x86_64-2.7/numpy/core/src/umath/operand_flag_tests.c building extension "numpy.fft.fftpack_lite" sources building extension "numpy.linalg.lapack_lite" sources creating build/src.linux-x86_64-2.7/numpy/linalg ### Warning: Using unoptimized lapack ### adding 'numpy/linalg/lapack_lite/python_xerbla.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_z_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_c_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_d_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_s_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_blas.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_config.c' to sources. adding 'numpy/linalg/lapack_lite/f2c.c' to sources. building extension "numpy.linalg._umath_linalg" sources ### Warning: Using unoptimized lapack ### adding 'numpy/linalg/lapack_lite/python_xerbla.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_z_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_c_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_d_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_s_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_lapack.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_blas.c' to sources. adding 'numpy/linalg/lapack_lite/f2c_config.c' to sources. adding 'numpy/linalg/lapack_lite/f2c.c' to sources. conv_template:> build/src.linux-x86_64-2.7/numpy/linalg/umath_linalg.c building extension "numpy.random.mtrand" sources creating build/src.linux-x86_64-2.7/numpy/random building data_files sources build_src: building npy-pkg config files creating numpy.egg-info writing numpy.egg-info/PKG-INFO writing top-level names to numpy.egg-info/top_level.txt writing dependency_links to numpy.egg-info/dependency_links.txt writing manifest file 'numpy.egg-info/SOURCES.txt' reading manifest file 'numpy.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*.swp' found anywhere in distribution warning: no previously-included files matching '*.bak' found anywhere in distribution warning: no previously-included files matching '*~' found anywhere in distribution writing manifest file 'numpy.egg-info/SOURCES.txt' installing library code to build/bdist.linux-x86_64/egg running build_clib customize UnixCCompiler customize UnixCCompiler using build_clib building 'npymath' library compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7 creating build/temp.linux-x86_64-2.7/numpy creating build/temp.linux-x86_64-2.7/numpy/core creating build/temp.linux-x86_64-2.7/numpy/core/src creating build/temp.linux-x86_64-2.7/numpy/core/src/npymath creating build/temp.linux-x86_64-2.7/build creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7 creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/npymath compile options: '-Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/core/src/npymath/halffloat.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npymath/ieee754.c mpicc: numpy/core/src/npymath/npy_math.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npymath/npy_math_complex.c numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_cacosf': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1331:5: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_casinhf': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1488:5: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src:1439:21: warning: unused variable 'pio2_hi' [-Wunused-variable] const @type@ pio2_hi = NPY_PI_2@c@; ^ numpy/core/src/npymath/npy_math_complex.c.src:1428:30: warning: unused variable 'pio2_lo' [-Wunused-variable] const volatile npy_float pio2_lo = 7.5497899549e-9f; ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_catanhf': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1729:9: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_cacos': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1331:5: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_casinh': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1488:5: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src:1439:22: warning: unused variable 'pio2_hi' [-Wunused-variable] const @type@ pio2_hi = NPY_PI_2@c@; ^ numpy/core/src/npymath/npy_math_complex.c.src:1432:31: warning: unused variable 'pio2_lo' [-Wunused-variable] const volatile npy_double pio2_lo = 6.1232339957367659e-17; ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_catanh': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1729:9: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_cacosl': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1331:5: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_casinhl': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1488:5: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ numpy/core/src/npymath/npy_math_complex.c.src:1439:26: warning: unused variable 'pio2_hi' [-Wunused-variable] const @type@ pio2_hi = NPY_PI_2@c@; ^ numpy/core/src/npymath/npy_math_complex.c.src:1436:35: warning: unused variable 'pio2_lo' [-Wunused-variable] const volatile npy_longdouble pio2_lo = 2.710505431213761085e-20l; ^ numpy/core/src/npymath/npy_math_complex.c.src: In function 'npy_catanhl': numpy/core/src/npymath/npy_math_complex.c.src:39:49: warning: unused variable 'junk' [-Wunused-variable] #define raise_inexact() do { volatile npy_float junk = 1 + tiny; } while(0) ^ numpy/core/src/npymath/npy_math_complex.c.src:1729:9: note: in expansion of macro 'raise_inexact' raise_inexact(); ^ ar: adding 4 object files to build/temp.linux-x86_64-2.7/libnpymath.a building 'npysort' library compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/npysort compile options: '-Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/selection.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/quicksort.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/mergesort.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/binsearch.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/heapsort.c ar: adding 5 object files to build/temp.linux-x86_64-2.7/libnpysort.a running install_lib running build_py creating build/lib.linux-x86_64-2.7 creating build/lib.linux-x86_64-2.7/numpy copying numpy/dual.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/matlib.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/add_newdocs.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/version.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/_import_tools.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/ctypeslib.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/_distributor_init.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/__init__.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/conftest.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/setup.py -> build/lib.linux-x86_64-2.7/numpy copying numpy/_globals.py -> build/lib.linux-x86_64-2.7/numpy copying build/src.linux-x86_64-2.7/numpy/__config__.py -> build/lib.linux-x86_64-2.7/numpy creating build/lib.linux-x86_64-2.7/numpy/compat copying numpy/compat/__init__.py -> build/lib.linux-x86_64-2.7/numpy/compat copying numpy/compat/_inspect.py -> build/lib.linux-x86_64-2.7/numpy/compat copying numpy/compat/setup.py -> build/lib.linux-x86_64-2.7/numpy/compat copying numpy/compat/py3k.py -> build/lib.linux-x86_64-2.7/numpy/compat creating build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/numerictypes.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/setup_common.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/__init__.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/numeric.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/_internal.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/cversions.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/_methods.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/function_base.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/fromnumeric.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/records.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/setup.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/getlimits.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/machar.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/einsumfunc.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/info.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/arrayprint.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/defchararray.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/shape_base.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/memmap.py -> build/lib.linux-x86_64-2.7/numpy/core copying numpy/core/code_generators/generate_numpy_api.py -> build/lib.linux-x86_64-2.7/numpy/core creating build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/conv_template.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/__init__.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/environment.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/extension.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/exec_command.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/numpy_distribution.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/from_template.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/pathccompiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/core.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/info.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/unixccompiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/intelccompiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/mingw32ccompiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/lib2def.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/setup.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/log.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/cpuinfo.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/line_endings.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/msvccompiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/__version__.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/ccompiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/system_info.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/misc_util.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/msvc9compiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/npy_pkg_config.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying numpy/distutils/compat.py -> build/lib.linux-x86_64-2.7/numpy/distutils copying build/src.linux-x86_64-2.7/numpy/distutils/__config__.py -> build/lib.linux-x86_64-2.7/numpy/distutils creating build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/sdist.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/build_ext.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/build_scripts.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/install_data.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/build_clib.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/__init__.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/config_compiler.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/build_py.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/build_src.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/install_headers.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/build.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/bdist_rpm.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/egg_info.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/autodist.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/config.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/develop.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/install_clib.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command copying numpy/distutils/command/install.py -> build/lib.linux-x86_64-2.7/numpy/distutils/command creating build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/mips.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/nag.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/none.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/gnu.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/g95.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/__init__.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/absoft.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/intel.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/sun.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/pathf95.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/pg.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/ibm.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/compaq.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/lahey.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/vast.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler copying numpy/distutils/fcompiler/hpux.py -> build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler creating build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/constants.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/broadcasting.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/creation.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/byteswapping.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/__init__.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/structured_arrays.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/indexing.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/misc.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/internals.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/ufuncs.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/basics.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/glossary.py -> build/lib.linux-x86_64-2.7/numpy/doc copying numpy/doc/subclassing.py -> build/lib.linux-x86_64-2.7/numpy/doc creating build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/setup.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/info.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/__init__.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/f2py2e.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/f90mod_rules.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/auxfuncs.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/crackfortran.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/cfuncs.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/__version__.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/func2subr.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/__main__.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/f2py_testing.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/rules.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/common_rules.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/capi_maps.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/diagnose.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/use_rules.py -> build/lib.linux-x86_64-2.7/numpy/f2py copying numpy/f2py/cb_rules.py -> build/lib.linux-x86_64-2.7/numpy/f2py creating build/lib.linux-x86_64-2.7/numpy/fft copying numpy/fft/fftpack.py -> build/lib.linux-x86_64-2.7/numpy/fft copying numpy/fft/info.py -> build/lib.linux-x86_64-2.7/numpy/fft copying numpy/fft/helper.py -> build/lib.linux-x86_64-2.7/numpy/fft copying numpy/fft/setup.py -> build/lib.linux-x86_64-2.7/numpy/fft copying numpy/fft/__init__.py -> build/lib.linux-x86_64-2.7/numpy/fft creating build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/setup.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/twodim_base.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/scimath.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/_datasource.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/npyio.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/nanfunctions.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/user_array.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/_version.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/recfunctions.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/function_base.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/arraypad.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/utils.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/polynomial.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/__init__.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/arraysetops.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/stride_tricks.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/type_check.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/format.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/mixins.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/_iotools.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/index_tricks.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/ufunclike.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/financial.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/arrayterator.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/shape_base.py -> build/lib.linux-x86_64-2.7/numpy/lib copying numpy/lib/info.py -> build/lib.linux-x86_64-2.7/numpy/lib creating build/lib.linux-x86_64-2.7/numpy/linalg copying numpy/linalg/__init__.py -> build/lib.linux-x86_64-2.7/numpy/linalg copying numpy/linalg/linalg.py -> build/lib.linux-x86_64-2.7/numpy/linalg copying numpy/linalg/info.py -> build/lib.linux-x86_64-2.7/numpy/linalg copying numpy/linalg/setup.py -> build/lib.linux-x86_64-2.7/numpy/linalg creating build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/setup.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/core.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/__init__.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/testutils.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/extras.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/mrecords.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/bench.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/version.py -> build/lib.linux-x86_64-2.7/numpy/ma copying numpy/ma/timer_comparison.py -> build/lib.linux-x86_64-2.7/numpy/ma creating build/lib.linux-x86_64-2.7/numpy/matrixlib copying numpy/matrixlib/__init__.py -> build/lib.linux-x86_64-2.7/numpy/matrixlib copying numpy/matrixlib/defmatrix.py -> build/lib.linux-x86_64-2.7/numpy/matrixlib copying numpy/matrixlib/setup.py -> build/lib.linux-x86_64-2.7/numpy/matrixlib creating build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/polynomial.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/hermite.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/polyutils.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/__init__.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/_polybase.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/setup.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/hermite_e.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/legendre.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/chebyshev.py -> build/lib.linux-x86_64-2.7/numpy/polynomial copying numpy/polynomial/laguerre.py -> build/lib.linux-x86_64-2.7/numpy/polynomial creating build/lib.linux-x86_64-2.7/numpy/random copying numpy/random/setup.py -> build/lib.linux-x86_64-2.7/numpy/random copying numpy/random/info.py -> build/lib.linux-x86_64-2.7/numpy/random copying numpy/random/__init__.py -> build/lib.linux-x86_64-2.7/numpy/random creating build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/setup.py -> build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/noseclasses.py -> build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/utils.py -> build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/decorators.py -> build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/print_coercion_tables.py -> build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/__init__.py -> build/lib.linux-x86_64-2.7/numpy/testing copying numpy/testing/nosetester.py -> build/lib.linux-x86_64-2.7/numpy/testing creating build/lib.linux-x86_64-2.7/numpy/testing/nose_tools copying numpy/testing/nose_tools/__init__.py -> build/lib.linux-x86_64-2.7/numpy/testing/nose_tools copying numpy/testing/nose_tools/parameterized.py -> build/lib.linux-x86_64-2.7/numpy/testing/nose_tools copying numpy/testing/nose_tools/utils.py -> build/lib.linux-x86_64-2.7/numpy/testing/nose_tools copying numpy/testing/nose_tools/noseclasses.py -> build/lib.linux-x86_64-2.7/numpy/testing/nose_tools copying numpy/testing/nose_tools/decorators.py -> build/lib.linux-x86_64-2.7/numpy/testing/nose_tools copying numpy/testing/nose_tools/nosetester.py -> build/lib.linux-x86_64-2.7/numpy/testing/nose_tools running build_ext customize UnixCCompiler customize UnixCCompiler using build_ext building 'numpy.core._dummy' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/core/src/dummymodule.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/numpy/core/src/dummymodule.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lm -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/_dummy.so building 'numpy.core.multiarray' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/numpy/core/src/multiarray creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray creating build/temp.linux-x86_64-2.7/numpy/core/src/private compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/core/src/multiarray/compiled_base.c mpicc: numpy/core/src/multiarray/sequence.c mpicc: numpy/core/src/multiarray/descriptor.c mpicc: numpy/core/src/multiarray/getset.c mpicc: numpy/core/src/multiarray/arrayobject.c mpicc: numpy/core/src/private/ufunc_override.c mpicc: numpy/core/src/multiarray/methods.c mpicc: numpy/core/src/multiarray/datetime_busdaycal.c mpicc: numpy/core/src/multiarray/vdot.c mpicc: numpy/core/src/multiarray/array_assign_array.c mpicc: numpy/core/src/multiarray/buffer.c mpicc: numpy/core/src/multiarray/refcount.c mpicc: numpy/core/src/multiarray/convert.c mpicc: numpy/core/src/multiarray/shape.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/multiarray/lowlevel_strided_loops.c mpicc: numpy/core/src/multiarray/multiarraymodule.c mpicc: numpy/core/src/multiarray/item_selection.c mpicc: numpy/core/src/multiarray/usertypes.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/multiarray/arraytypes.c mpicc: numpy/core/src/multiarray/calculation.c mpicc: numpy/core/src/multiarray/hashdescr.c mpicc: numpy/core/src/multiarray/scalarapi.c mpicc: numpy/core/src/multiarray/dtype_transfer.c mpicc: numpy/core/src/multiarray/mapping.c mpicc: numpy/core/src/multiarray/dragon4.c mpicc: numpy/core/src/multiarray/flagsobject.c mpicc: numpy/core/src/multiarray/nditer_constr.c mpicc: numpy/core/src/multiarray/convert_datatype.c mpicc: numpy/core/src/multiarray/array_assign_scalar.c mpicc: numpy/core/src/multiarray/conversion_utils.c mpicc: numpy/core/src/multiarray/common.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/multiarray/nditer_templ.c mpicc: numpy/core/src/multiarray/ucsnarrow.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/multiarray/einsum.c mpicc: numpy/core/src/multiarray/number.c mpicc: numpy/core/src/multiarray/numpyos.c mpicc: numpy/core/src/multiarray/datetime.c mpicc: numpy/core/src/multiarray/datetime_strings.c mpicc: numpy/core/src/multiarray/ctors.c mpicc: numpy/core/src/multiarray/temp_elide.c mpicc: numpy/core/src/multiarray/nditer_api.c mpicc: numpy/core/src/multiarray/iterators.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/multiarray/scalartypes.c mpicc: numpy/core/src/private/mem_overlap.c mpicc: numpy/core/src/private/npy_longdouble.c mpicc: numpy/core/src/multiarray/array_assign.c mpicc: numpy/core/src/multiarray/nditer_pywrap.c mpicc: numpy/core/src/multiarray/datetime_busday.c mpicc: numpy/core/src/multiarray/strfuncs.c mpicc: numpy/core/src/multiarray/alloc.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/alloc.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/arrayobject.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray/arraytypes.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/array_assign.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/array_assign_scalar.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/array_assign_array.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/buffer.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/calculation.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/compiled_base.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/common.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/convert.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/convert_datatype.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/conversion_utils.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/ctors.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/datetime.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/datetime_strings.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/datetime_busday.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/datetime_busdaycal.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/descriptor.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/dragon4.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/dtype_transfer.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray/einsum.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/flagsobject.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/getset.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/hashdescr.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/item_selection.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/iterators.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray/lowlevel_strided_loops.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/mapping.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/methods.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/multiarraymodule.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray/nditer_templ.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/nditer_api.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/nditer_constr.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/nditer_pywrap.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/number.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/numpyos.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/refcount.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/sequence.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/shape.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/scalarapi.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray/scalartypes.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/strfuncs.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/temp_elide.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/usertypes.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/ucsnarrow.o build/temp.linux-x86_64-2.7/numpy/core/src/multiarray/vdot.o build/temp.linux-x86_64-2.7/numpy/core/src/private/mem_overlap.o build/temp.linux-x86_64-2.7/numpy/core/src/private/npy_longdouble.o build/temp.linux-x86_64-2.7/numpy/core/src/private/ufunc_override.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lnpymath -lnpysort -lm -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/multiarray.so building 'numpy.core.umath' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/numpy/core/src/umath creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/umath -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/core/src/umath/ufunc_type_resolution.c mpicc: numpy/core/src/umath/ufunc_object.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/umath/scalarmath.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/umath/loops.c mpicc: numpy/core/src/umath/umathmodule.c mpicc: numpy/core/src/umath/reduction.c mpicc: numpy/core/src/umath/extobj.c mpicc: numpy/core/src/private/mem_overlap.c mpicc: numpy/core/src/private/npy_longdouble.c mpicc: numpy/core/src/private/ufunc_override.c mpicc: numpy/core/src/umath/override.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/numpy/core/src/umath/umathmodule.o build/temp.linux-x86_64-2.7/numpy/core/src/umath/reduction.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath/loops.o build/temp.linux-x86_64-2.7/numpy/core/src/umath/ufunc_object.o build/temp.linux-x86_64-2.7/numpy/core/src/umath/extobj.o build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath/scalarmath.o build/temp.linux-x86_64-2.7/numpy/core/src/umath/ufunc_type_resolution.o build/temp.linux-x86_64-2.7/numpy/core/src/umath/override.o build/temp.linux-x86_64-2.7/numpy/core/src/private/mem_overlap.o build/temp.linux-x86_64-2.7/numpy/core/src/private/npy_longdouble.o build/temp.linux-x86_64-2.7/numpy/core/src/private/ufunc_override.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lnpymath -lm -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/umath.so building 'numpy.core.umath_tests' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: build/src.linux-x86_64-2.7/numpy/core/src/umath/umath_tests.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath/umath_tests.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/umath_tests.so building 'numpy.core.test_rational' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: build/src.linux-x86_64-2.7/numpy/core/src/umath/test_rational.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath/test_rational.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/test_rational.so building 'numpy.core.struct_ufunc_test' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: build/src.linux-x86_64-2.7/numpy/core/src/umath/struct_ufunc_test.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath/struct_ufunc_test.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/struct_ufunc_test.so building 'numpy.core.multiarray_tests' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/core/src/private/mem_overlap.c mpicc: build/src.linux-x86_64-2.7/numpy/core/src/multiarray/multiarray_tests.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/multiarray/multiarray_tests.o build/temp.linux-x86_64-2.7/numpy/core/src/private/mem_overlap.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lnpymath -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/multiarray_tests.so building 'numpy.core.operand_flag_tests' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC compile options: '-DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: build/src.linux-x86_64-2.7/numpy/core/src/umath/operand_flag_tests.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/core/src/umath/operand_flag_tests.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/core/operand_flag_tests.so building 'numpy.fft.fftpack_lite' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/numpy/fft compile options: '-Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/fft/fftpack.c mpicc: numpy/fft/fftpack_litemodule.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/numpy/fft/fftpack_litemodule.o build/temp.linux-x86_64-2.7/numpy/fft/fftpack.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/fft/fftpack_lite.so building 'numpy.linalg.lapack_lite' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/numpy/linalg creating build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite compile options: '-Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/linalg/lapack_lite/python_xerbla.c mpicc: numpy/linalg/lapack_lite/f2c_blas.c numpy/linalg/lapack_lite/f2c_blas.c: In function 'cgemm_': numpy/linalg/lapack_lite/f2c_blas.c:383:20: warning: variable 'ncola' set but not used [-Wunused-but-set-variable] static integer ncola; ^ numpy/linalg/lapack_lite/f2c_blas.c: In function 'dgemm_': numpy/linalg/lapack_lite/f2c_blas.c:6853:20: warning: variable 'ncola' set but not used [-Wunused-but-set-variable] static integer ncola; ^ numpy/linalg/lapack_lite/f2c_blas.c: In function 'dnrm2_': numpy/linalg/lapack_lite/f2c_blas.c:7739:17: warning: implicit declaration of function 'sqrt' [-Wimplicit-function-declaration] norm = scale * sqrt(ssq); ^ numpy/linalg/lapack_lite/f2c_blas.c:7739:17: warning: incompatible implicit declaration of built-in function 'sqrt' numpy/linalg/lapack_lite/f2c_blas.c:7739:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_blas.c: In function 'dznrm2_': numpy/linalg/lapack_lite/f2c_blas.c:10657:17: warning: incompatible implicit declaration of built-in function 'sqrt' norm = scale * sqrt(ssq); ^ numpy/linalg/lapack_lite/f2c_blas.c:10657:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_blas.c: In function 'scnrm2_': numpy/linalg/lapack_lite/f2c_blas.c:11241:17: warning: incompatible implicit declaration of built-in function 'sqrt' norm = scale * sqrt(ssq); ^ numpy/linalg/lapack_lite/f2c_blas.c:11241:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_blas.c: In function 'sgemm_': numpy/linalg/lapack_lite/f2c_blas.c:11457:20: warning: variable 'ncola' set but not used [-Wunused-but-set-variable] static integer ncola; ^ numpy/linalg/lapack_lite/f2c_blas.c: In function 'snrm2_': numpy/linalg/lapack_lite/f2c_blas.c:12342:17: warning: incompatible implicit declaration of built-in function 'sqrt' norm = scale * sqrt(ssq); ^ numpy/linalg/lapack_lite/f2c_blas.c:12342:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_blas.c: In function 'zgemm_': numpy/linalg/lapack_lite/f2c_blas.c:15670:20: warning: variable 'ncola' set but not used [-Wunused-but-set-variable] static integer ncola; ^ mpicc: numpy/linalg/lapack_litemodule.c mpicc: numpy/linalg/lapack_lite/f2c_z_lapack.c numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zgeev_': numpy/linalg/lapack_lite/f2c_z_lapack.c:1568:14: warning: implicit declaration of function 'sqrt' [-Wimplicit-function-declaration] smlnum = sqrt(smlnum) / eps; ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:1568:14: warning: incompatible implicit declaration of built-in function 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c:1568:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zgelsd_': numpy/linalg/lapack_lite/f2c_z_lapack.c:2953:24: warning: implicit declaration of function 'log' [-Wimplicit-function-declaration] i__1 = (integer) (log((doublereal) minmn / (doublereal) (smlsiz + ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:2953:24: warning: incompatible implicit declaration of built-in function 'log' numpy/linalg/lapack_lite/f2c_z_lapack.c:2953:24: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zgesdd_': numpy/linalg/lapack_lite/f2c_z_lapack.c:4502:14: warning: incompatible implicit declaration of built-in function 'sqrt' smlnum = sqrt(SAFEMINIMUM) / eps; ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:4502:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zheevd_': numpy/linalg/lapack_lite/f2c_z_lapack.c:7237:12: warning: incompatible implicit declaration of built-in function 'sqrt' rmin = sqrt(smlnum); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:7237:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zlaed0_': numpy/linalg/lapack_lite/f2c_z_lapack.c:9630:12: warning: incompatible implicit declaration of built-in function 'log' temp = log((doublereal) (*n)) / log(2.); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:9630:12: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zlaed8_': numpy/linalg/lapack_lite/f2c_z_lapack.c:10293:14: warning: incompatible implicit declaration of built-in function 'sqrt' t = 1. / sqrt(2.); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:10293:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zlalsd_': numpy/linalg/lapack_lite/f2c_z_lapack.c:13165:23: warning: incompatible implicit declaration of built-in function 'log' nlvl = (integer) (log((doublereal) (*n) / (doublereal) (*smlsiz + 1)) / ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:13165:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zlange_': numpy/linalg/lapack_lite/f2c_z_lapack.c:13633:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:13633:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zlanhe_': numpy/linalg/lapack_lite/f2c_z_lapack.c:13865:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:13865:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zlartg_': numpy/linalg/lapack_lite/f2c_z_lapack.c:19894:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log(safmin / eps) / log(BASE) / 2.); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:19894:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_z_lapack.c:19977:8: warning: incompatible implicit declaration of built-in function 'sqrt' g2s = sqrt(g2); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:19977:8: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c:20030:8: warning: incompatible implicit declaration of built-in function 'sqrt' f2s = sqrt(g2 / f2 + 1.); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:20030:8: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zpotf2_': numpy/linalg/lapack_lite/f2c_z_lapack.c:23464:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:23464:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c:23507:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:23507:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zstedc_': numpy/linalg/lapack_lite/f2c_z_lapack.c:24370:23: warning: incompatible implicit declaration of built-in function 'log' lgn = (integer) (log((doublereal) (*n)) / log(2.)); ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:24370:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_z_lapack.c:24507:16: warning: incompatible implicit declaration of built-in function 'sqrt' tiny = eps * sqrt((d__1 = d__[finish], abs(d__1))) * sqrt(( ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:24507:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_z_lapack.c: In function 'zsteqr_': numpy/linalg/lapack_lite/f2c_z_lapack.c:24783:14: warning: incompatible implicit declaration of built-in function 'sqrt' ssfmax = sqrt(safmax) / 3.; ^ numpy/linalg/lapack_lite/f2c_z_lapack.c:24783:14: note: include '' or provide a declaration of 'sqrt' mpicc: numpy/linalg/lapack_lite/f2c_config.c mpicc: numpy/linalg/lapack_lite/f2c_d_lapack.c numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dbdsdc_': numpy/linalg/lapack_lite/f2c_d_lapack.c:390:23: warning: implicit declaration of function 'log' [-Wimplicit-function-declaration] mlvl = (integer) (log((doublereal) (*n) / (doublereal) (smlsiz + 1)) / ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:390:23: warning: incompatible implicit declaration of built-in function 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c:390:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dbdsqr_': numpy/linalg/lapack_lite/f2c_d_lapack.c:891:12: warning: implicit declaration of function 'sqrt' [-Wimplicit-function-declaration] sminoa /= sqrt((doublereal) (*n)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:891:12: warning: incompatible implicit declaration of built-in function 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:891:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dgeev_': numpy/linalg/lapack_lite/f2c_d_lapack.c:2947:14: warning: incompatible implicit declaration of built-in function 'sqrt' smlnum = sqrt(smlnum) / eps; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:2947:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dgelsd_': numpy/linalg/lapack_lite/f2c_d_lapack.c:4281:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log((doublereal) minmn / (doublereal) (smlsiz + 1)) / ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:4281:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dgesdd_': numpy/linalg/lapack_lite/f2c_d_lapack.c:5718:14: warning: incompatible implicit declaration of built-in function 'sqrt' smlnum = sqrt(SAFEMINIMUM) / eps; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:5718:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlabad_': numpy/linalg/lapack_lite/f2c_d_lapack.c:8011:11: warning: incompatible implicit declaration of built-in function 'sqrt' *small = sqrt(*small); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:8011:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlae2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:8666:13: warning: incompatible implicit declaration of built-in function 'sqrt' rt = adf * sqrt(d__1 * d__1 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:8666:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:8670:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(d__1 * d__1 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:8670:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:8675:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:8675:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed0_': numpy/linalg/lapack_lite/f2c_d_lapack.c:8941:9: warning: incompatible implicit declaration of built-in function 'log' temp = log((doublereal) (*n)) / log(2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:8941:9: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:9558:14: warning: incompatible implicit declaration of built-in function 'sqrt' t = 1. / sqrt(2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:9558:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed3_': numpy/linalg/lapack_lite/f2c_d_lapack.c:10112:9: warning: incompatible implicit declaration of built-in function 'sqrt' d__1 = sqrt(-w[i__]); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10112:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed4_': numpy/linalg/lapack_lite/f2c_d_lapack.c:10361:23: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2. / (sqrt(a * a + b * 4. * c__) - a); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10361:23: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10363:18: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (a + sqrt(a * a + b * 4. * c__)) / (c__ * 2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10363:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10379:19: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2. / (sqrt(a * a + b * 4. * c__) - a); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10379:19: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10381:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (a + sqrt(a * a + b * 4. * c__)) / (c__ * 2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10381:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10454:17: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a + sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) / (c__ ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10454:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10457:26: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2. / (a - sqrt((d__1 = a * a - b * 4. * c__, abs(d__1))) ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10457:26: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10539:14: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a + sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10539:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10542:23: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2. / (a - sqrt((d__1 = a * a - b * 4. * c__, abs( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10542:23: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10654:23: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2. / (a + sqrt((d__1 = a * a - b * 4. * c__, abs( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10654:23: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10657:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (a - sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10657:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10674:23: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2. / (a - sqrt((d__1 = a * a + b * 4. * c__, abs( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10674:23: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10677:15: warning: incompatible implicit declaration of built-in function 'sqrt' tau = -(a + sqrt((d__1 = a * a + b * 4. * c__, abs(d__1)))) / ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10677:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10808:14: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a - sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10808:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10811:23: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2. / (a + sqrt((d__1 = a * a - b * 4. * c__, abs( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10811:23: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10984:18: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a - sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10984:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:10987:27: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2. / (a + sqrt((d__1 = a * a - b * 4. * c__, ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:10987:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed5_': numpy/linalg/lapack_lite/f2c_d_lapack.c:11194:28: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2. / (b + sqrt((d__1 = b * b - c__ * 4., abs(d__1)))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11194:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11202:26: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * -2. / (b + sqrt(b * b + c__ * 4.)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11202:26: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11204:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b - sqrt(b * b + c__ * 4.)) / 2.; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11204:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11210:9: warning: incompatible implicit declaration of built-in function 'sqrt' temp = sqrt(delta[1] * delta[1] + delta[2] * delta[2]); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11210:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11220:17: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b + sqrt(b * b + c__ * 4.)) / 2.; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11220:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11222:29: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2. / (-b + sqrt(b * b + c__ * 4.)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11222:29: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11227:9: warning: incompatible implicit declaration of built-in function 'sqrt' temp = sqrt(delta[1] * delta[1] + delta[2] * delta[2]); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11227:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed6_': numpy/linalg/lapack_lite/f2c_d_lapack.c:11375:18: warning: incompatible implicit declaration of built-in function 'sqrt' *tau = (a - sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11375:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11378:27: warning: incompatible implicit declaration of built-in function 'sqrt' *tau = b * 2. / (a + sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)) ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11378:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11411:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log(SAFEMINIMUM) / log(base) / 3.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11411:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c:11531:17: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a - sqrt((d__1 = a * a - b * 4. * c__, abs(d__1)))) / (c__ ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11531:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:11534:26: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2. / (a + sqrt((d__1 = a * a - b * 4. * c__, abs(d__1))) ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:11534:26: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed8_': numpy/linalg/lapack_lite/f2c_d_lapack.c:12143:14: warning: incompatible implicit declaration of built-in function 'sqrt' t = 1. / sqrt(2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:12143:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaed9_': numpy/linalg/lapack_lite/f2c_d_lapack.c:12586:9: warning: incompatible implicit declaration of built-in function 'sqrt' d__1 = sqrt(-w[i__]); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:12586:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaeda_': numpy/linalg/lapack_lite/f2c_d_lapack.c:12775:24: warning: incompatible implicit declaration of built-in function 'sqrt' bsiz1 = (integer) (sqrt((doublereal) (qptr[curr + 1] - qptr[curr])) + .5); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:12775:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaev2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:12968:13: warning: incompatible implicit declaration of built-in function 'sqrt' rt = adf * sqrt(d__1 * d__1 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:12968:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:12972:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(d__1 * d__1 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:12972:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:12977:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:12977:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:13022:14: warning: incompatible implicit declaration of built-in function 'sqrt' *sn1 = 1. / sqrt(ct * ct + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:13022:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:13030:18: warning: incompatible implicit declaration of built-in function 'sqrt' *cs1 = 1. / sqrt(tn * tn + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:13030:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlahqr_': numpy/linalg/lapack_lite/f2c_d_lapack.c:13840:15: warning: incompatible implicit declaration of built-in function 'sqrt' rtdisc = sqrt((abs(det))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:13840:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlalsd_': numpy/linalg/lapack_lite/f2c_d_lapack.c:16202:23: warning: incompatible implicit declaration of built-in function 'log' nlvl = (integer) (log((doublereal) (*n) / (doublereal) (*smlsiz + 1)) / ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:16202:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlange_': numpy/linalg/lapack_lite/f2c_d_lapack.c:16666:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:16666:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlanst_': numpy/linalg/lapack_lite/f2c_d_lapack.c:16799:18: warning: incompatible implicit declaration of built-in function 'sqrt' anorm = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:16799:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlansy_': numpy/linalg/lapack_lite/f2c_d_lapack.c:17005:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:17005:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlanv2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:17129:13: warning: incompatible implicit declaration of built-in function 'sqrt' d__1 = sqrt(scale) * sqrt(z__); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:17129:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:17150:12: warning: incompatible implicit declaration of built-in function 'sqrt' *cs = sqrt((abs(sigma) / tau + 1.) * .5); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:17150:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:17220:10: warning: incompatible implicit declaration of built-in function 'sqrt' *rt1i = sqrt((abs(*b))) * sqrt((abs(*c__))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:17220:10: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlapy2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:17271:16: warning: incompatible implicit declaration of built-in function 'sqrt' ret_val = w * sqrt(d__1 * d__1 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:17271:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlapy3_': numpy/linalg/lapack_lite/f2c_d_lapack.c:17333:16: warning: incompatible implicit declaration of built-in function 'sqrt' ret_val = w * sqrt(d__1 * d__1 + d__2 * d__2 + d__3 * d__3); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:17333:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaqr2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:18614:56: warning: incompatible implicit declaration of built-in function 'sqrt' foo = (d__3 = t[*ns + *ns * t_dim1], abs(d__3)) + sqrt((d__1 = t[* ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:18614:56: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:18686:53: warning: incompatible implicit declaration of built-in function 'sqrt' evi = (d__3 = t[i__ + i__ * t_dim1], abs(d__3)) + sqrt((d__1 = ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:18686:53: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:18696:49: warning: incompatible implicit declaration of built-in function 'sqrt' evk = (d__3 = t[k + k * t_dim1], abs(d__3)) + sqrt((d__1 = t[ ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:18696:49: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlaqr3_': numpy/linalg/lapack_lite/f2c_d_lapack.c:19309:56: warning: incompatible implicit declaration of built-in function 'sqrt' foo = (d__3 = t[*ns + *ns * t_dim1], abs(d__3)) + sqrt((d__1 = t[* ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:19309:56: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:19381:53: warning: incompatible implicit declaration of built-in function 'sqrt' evi = (d__3 = t[i__ + i__ * t_dim1], abs(d__3)) + sqrt((d__1 = ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:19381:53: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:19391:49: warning: incompatible implicit declaration of built-in function 'sqrt' evk = (d__3 = t[k + k * t_dim1], abs(d__3)) + sqrt((d__1 = t[ ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:19391:49: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlartg_': numpy/linalg/lapack_lite/f2c_d_lapack.c:23558:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log(safmin / eps) / log(BASE) / 2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23558:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c:23595:13: warning: incompatible implicit declaration of built-in function 'sqrt' *r__ = sqrt(d__1 * d__1 + d__2 * d__2); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23595:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:23619:13: warning: incompatible implicit declaration of built-in function 'sqrt' *r__ = sqrt(d__1 * d__1 + d__2 * d__2); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23619:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:23632:13: warning: incompatible implicit declaration of built-in function 'sqrt' *r__ = sqrt(d__1 * d__1 + d__2 * d__2); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23632:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlas2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:23727:30: warning: incompatible implicit declaration of built-in function 'sqrt' *ssmax = max(fhmx,ga) * sqrt(d__1 * d__1 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23727:30: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:23736:18: warning: incompatible implicit declaration of built-in function 'sqrt' c__ = 2. / (sqrt(as * as + au) + sqrt(at * at + au)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23736:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:23758:15: warning: incompatible implicit declaration of built-in function 'sqrt' c__ = 1. / (sqrt(d__1 * d__1 + 1.) + sqrt(d__2 * d__2 + 1.)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:23758:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasd3_': numpy/linalg/lapack_lite/f2c_d_lapack.c:25528:9: warning: incompatible implicit declaration of built-in function 'sqrt' d__2 = sqrt((d__1 = z__[i__], abs(d__1))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:25528:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasd4_': numpy/linalg/lapack_lite/f2c_d_lapack.c:25790:11: warning: incompatible implicit declaration of built-in function 'sqrt' *sigma = sqrt(d__[1] * d__[1] + *rho * z__[1] * z__[1]); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:25790:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:25823:28: warning: incompatible implicit declaration of built-in function 'sqrt' temp1 = temp / (d__[*n] + sqrt(d__[*n] * d__[*n] + temp)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:25823:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26110:31: warning: incompatible implicit declaration of built-in function 'sqrt' temp = delsq2 / (d__[*i__] + sqrt(d__[*i__] * d__[*i__] + delsq2)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26110:31: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasd5_': numpy/linalg/lapack_lite/f2c_d_lapack.c:26749:28: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2. / (b + sqrt((d__1 = b * b - c__ * 4., abs(d__1)))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26749:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26770:26: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * -2. / (b + sqrt(b * b + c__ * 4.)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26770:26: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26772:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b - sqrt(b * b + c__ * 4.)) / 2.; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26772:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26777:22: warning: incompatible implicit declaration of built-in function 'sqrt' tau /= d__[2] + sqrt((d__1 = d__[2] * d__[2] + tau, abs(d__1))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26777:22: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26803:17: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b + sqrt(b * b + c__ * 4.)) / 2.; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26803:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26805:29: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2. / (-b + sqrt(b * b + c__ * 4.)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26805:29: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:26810:18: warning: incompatible implicit declaration of built-in function 'sqrt' tau /= d__[2] + sqrt(d__[2] * d__[2] + tau); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:26810:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasd8_': numpy/linalg/lapack_lite/f2c_d_lapack.c:27917:9: warning: incompatible implicit declaration of built-in function 'sqrt' d__2 = sqrt((d__1 = work[iwk3i + i__], abs(d__1))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:27917:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasdt_': numpy/linalg/lapack_lite/f2c_d_lapack.c:28856:12: warning: incompatible implicit declaration of built-in function 'log' temp = log((doublereal) maxn / (doublereal) (*msub + 1)) / log(2.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:28856:12: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasq1_': numpy/linalg/lapack_lite/f2c_d_lapack.c:29179:13: warning: incompatible implicit declaration of built-in function 'sqrt' scale = sqrt(eps / safmin); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:29179:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasq2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:29375:32: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[3] * (z__[2] / (t * (sqrt(s / t + 1.) + 1.))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:29375:32: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:29377:31: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[3] * (z__[2] / (t + sqrt(t) * sqrt(t + s))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:29377:31: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:29672:27: warning: incompatible implicit declaration of built-in function 'sqrt' d__1 = 0., d__2 = qmin - sqrt(qmin) * 2. * sqrt(emax); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:29672:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasq3_': numpy/linalg/lapack_lite/f2c_d_lapack.c:29963:45: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[nn - 3] * (z__[nn - 5] / (t * (sqrt(s / t + 1.) + 1.))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:29963:45: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:29965:44: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[nn - 3] * (z__[nn - 5] / (t + sqrt(t) * sqrt(t + s))); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:29965:44: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasq4_': numpy/linalg/lapack_lite/f2c_d_lapack.c:30226:11: warning: incompatible implicit declaration of built-in function 'sqrt' b1 = sqrt(z__[nn - 3]) * sqrt(z__[nn - 5]); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:30226:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:30360:19: warning: incompatible implicit declaration of built-in function 'sqrt' s = gam * (1. - sqrt(a2)) / (a2 + 1.); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:30360:19: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:30409:11: warning: incompatible implicit declaration of built-in function 'sqrt' b2 = sqrt(b2 * 1.05); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:30409:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:30467:11: warning: incompatible implicit declaration of built-in function 'sqrt' b2 = sqrt(b2 * 1.05); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:30467:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dlasv2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:31865:10: warning: incompatible implicit declaration of built-in function 'sqrt' s = sqrt(tt + mm); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:31865:10: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dpotf2_': numpy/linalg/lapack_lite/f2c_d_lapack.c:36929:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:36929:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:36962:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:36962:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dstedc_': numpy/linalg/lapack_lite/f2c_d_lapack.c:37661:23: warning: incompatible implicit declaration of built-in function 'log' lgn = (integer) (log((doublereal) (*n)) / log(2.)); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:37661:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_d_lapack.c:37781:16: warning: incompatible implicit declaration of built-in function 'sqrt' tiny = eps * sqrt((d__1 = d__[finish], abs(d__1))) * sqrt(( ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:37781:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dsteqr_': numpy/linalg/lapack_lite/f2c_d_lapack.c:38088:14: warning: incompatible implicit declaration of built-in function 'sqrt' ssfmax = sqrt(safmax) / 3.; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:38088:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dsterf_': numpy/linalg/lapack_lite/f2c_d_lapack.c:38615:14: warning: incompatible implicit declaration of built-in function 'sqrt' ssfmax = sqrt(safmax) / 3.; ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:38615:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dsyevd_': numpy/linalg/lapack_lite/f2c_d_lapack.c:39197:12: warning: incompatible implicit declaration of built-in function 'sqrt' rmin = sqrt(smlnum); ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:39197:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c: In function 'dtrevc_': numpy/linalg/lapack_lite/f2c_d_lapack.c:40254:8: warning: incompatible implicit declaration of built-in function 'sqrt' wi = sqrt((d__1 = t[ki + (ki - 1) * t_dim1], abs(d__1))) * ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:40254:8: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_d_lapack.c:40672:8: warning: incompatible implicit declaration of built-in function 'sqrt' wi = sqrt((d__1 = t[ki + (ki + 1) * t_dim1], abs(d__1))) * ^ numpy/linalg/lapack_lite/f2c_d_lapack.c:40672:8: note: include '' or provide a declaration of 'sqrt' mpicc: numpy/linalg/lapack_lite/f2c_s_lapack.c numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'sbdsdc_': numpy/linalg/lapack_lite/f2c_s_lapack.c:385:23: warning: implicit declaration of function 'log' [-Wimplicit-function-declaration] mlvl = (integer) (log((real) (*n) / (real) (smlsiz + 1)) / log(2.f)) + 1; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:385:23: warning: incompatible implicit declaration of built-in function 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c:385:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'sbdsqr_': numpy/linalg/lapack_lite/f2c_s_lapack.c:885:12: warning: implicit declaration of function 'sqrt' [-Wimplicit-function-declaration] sminoa /= sqrt((real) (*n)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:885:12: warning: incompatible implicit declaration of built-in function 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:885:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'sgeev_': numpy/linalg/lapack_lite/f2c_s_lapack.c:2928:14: warning: incompatible implicit declaration of built-in function 'sqrt' smlnum = sqrt(smlnum) / eps; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:2928:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'sgesdd_': numpy/linalg/lapack_lite/f2c_s_lapack.c:4999:14: warning: incompatible implicit declaration of built-in function 'sqrt' smlnum = sqrt(slamch_("S")) / eps; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:4999:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slabad_': numpy/linalg/lapack_lite/f2c_s_lapack.c:7286:11: warning: incompatible implicit declaration of built-in function 'sqrt' *small = sqrt(*small); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:7286:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slae2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:7938:13: warning: incompatible implicit declaration of built-in function 'sqrt' rt = adf * sqrt(r__1 * r__1 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:7938:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:7942:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(r__1 * r__1 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:7942:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:7947:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:7947:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed0_': numpy/linalg/lapack_lite/f2c_s_lapack.c:8208:9: warning: incompatible implicit declaration of built-in function 'log' temp = log((real) (*n)) / log(2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:8208:9: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:8820:15: warning: incompatible implicit declaration of built-in function 'sqrt' t = 1.f / sqrt(2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:8820:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed3_': numpy/linalg/lapack_lite/f2c_s_lapack.c:9372:9: warning: incompatible implicit declaration of built-in function 'sqrt' r__1 = sqrt(-w[i__]); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9372:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed4_': numpy/linalg/lapack_lite/f2c_s_lapack.c:9619:24: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2.f / (sqrt(a * a + b * 4.f * c__) - a); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9619:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9621:18: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (a + sqrt(a * a + b * 4.f * c__)) / (c__ * 2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9621:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9637:20: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2.f / (sqrt(a * a + b * 4.f * c__) - a); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9637:20: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9639:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (a + sqrt(a * a + b * 4.f * c__)) / (c__ * 2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9639:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9712:17: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a + sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9712:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9715:27: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2.f / (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9715:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9797:14: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a + sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)))) / ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9797:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9800:24: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2.f / (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9800:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9912:24: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2.f / (a + sqrt((r__1 = a * a - b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9912:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9915:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)))) / ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9915:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9932:24: warning: incompatible implicit declaration of built-in function 'sqrt' tau = b * 2.f / (a - sqrt((r__1 = a * a + b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9932:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:9935:15: warning: incompatible implicit declaration of built-in function 'sqrt' tau = -(a + sqrt((r__1 = a * a + b * 4.f * c__, dabs(r__1)))) ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:9935:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10066:14: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)))) / ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10066:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10069:24: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2.f / (a + sqrt((r__1 = a * a - b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10069:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10242:18: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)) ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10242:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10245:28: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2.f / (a + sqrt((r__1 = a * a - b * 4.f * c__, ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10245:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed5_': numpy/linalg/lapack_lite/f2c_s_lapack.c:10452:29: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2.f / (b + sqrt((r__1 = b * b - c__ * 4.f, dabs(r__1)) ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10452:29: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10461:27: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * -2.f / (b + sqrt(b * b + c__ * 4.f)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10461:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10463:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b - sqrt(b * b + c__ * 4.f)) / 2.f; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10463:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10469:9: warning: incompatible implicit declaration of built-in function 'sqrt' temp = sqrt(delta[1] * delta[1] + delta[2] * delta[2]); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10469:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10479:17: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b + sqrt(b * b + c__ * 4.f)) / 2.f; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10479:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10481:30: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2.f / (-b + sqrt(b * b + c__ * 4.f)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10481:30: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10486:9: warning: incompatible implicit declaration of built-in function 'sqrt' temp = sqrt(delta[1] * delta[1] + delta[2] * delta[2]); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10486:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed6_': numpy/linalg/lapack_lite/f2c_s_lapack.c:10634:18: warning: incompatible implicit declaration of built-in function 'sqrt' *tau = (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10634:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10637:28: warning: incompatible implicit declaration of built-in function 'sqrt' *tau = b * 2.f / (a + sqrt((r__1 = a * a - b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10637:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10670:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log(slamch_("SafMin")) / log(base) / 3.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10670:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c:10791:17: warning: incompatible implicit declaration of built-in function 'sqrt' eta = (a - sqrt((r__1 = a * a - b * 4.f * c__, dabs(r__1)))) / ( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10791:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:10794:27: warning: incompatible implicit declaration of built-in function 'sqrt' eta = b * 2.f / (a + sqrt((r__1 = a * a - b * 4.f * c__, dabs( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:10794:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed8_': numpy/linalg/lapack_lite/f2c_s_lapack.c:11402:15: warning: incompatible implicit declaration of built-in function 'sqrt' t = 1.f / sqrt(2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:11402:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaed9_': numpy/linalg/lapack_lite/f2c_s_lapack.c:11843:9: warning: incompatible implicit declaration of built-in function 'sqrt' r__1 = sqrt(-w[i__]); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:11843:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaeda_': numpy/linalg/lapack_lite/f2c_s_lapack.c:12030:24: warning: incompatible implicit declaration of built-in function 'sqrt' bsiz1 = (integer) (sqrt((real) (qptr[curr + 1] - qptr[curr])) + .5f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:12030:24: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaev2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:12221:13: warning: incompatible implicit declaration of built-in function 'sqrt' rt = adf * sqrt(r__1 * r__1 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:12221:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:12225:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(r__1 * r__1 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:12225:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:12230:12: warning: incompatible implicit declaration of built-in function 'sqrt' rt = ab * sqrt(2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:12230:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:12275:15: warning: incompatible implicit declaration of built-in function 'sqrt' *sn1 = 1.f / sqrt(ct * ct + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:12275:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:12283:19: warning: incompatible implicit declaration of built-in function 'sqrt' *cs1 = 1.f / sqrt(tn * tn + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:12283:19: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slahqr_': numpy/linalg/lapack_lite/f2c_s_lapack.c:13092:15: warning: incompatible implicit declaration of built-in function 'sqrt' rtdisc = sqrt((dabs(det))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:13092:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slange_': numpy/linalg/lapack_lite/f2c_s_lapack.c:14520:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:14520:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slanst_': numpy/linalg/lapack_lite/f2c_s_lapack.c:14653:18: warning: incompatible implicit declaration of built-in function 'sqrt' anorm = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:14653:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slansy_': numpy/linalg/lapack_lite/f2c_s_lapack.c:14859:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:14859:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slanv2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:14982:13: warning: incompatible implicit declaration of built-in function 'sqrt' r__1 = sqrt(scale) * sqrt(z__); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:14982:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:15003:12: warning: incompatible implicit declaration of built-in function 'sqrt' *cs = sqrt((dabs(sigma) / tau + 1.f) * .5f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:15003:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:15073:10: warning: incompatible implicit declaration of built-in function 'sqrt' *rt1i = sqrt((dabs(*b))) * sqrt((dabs(*c__))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:15073:10: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slapy2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:15124:16: warning: incompatible implicit declaration of built-in function 'sqrt' ret_val = w * sqrt(r__1 * r__1 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:15124:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slapy3_': numpy/linalg/lapack_lite/f2c_s_lapack.c:15186:16: warning: incompatible implicit declaration of built-in function 'sqrt' ret_val = w * sqrt(r__1 * r__1 + r__2 * r__2 + r__3 * r__3); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:15186:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaqr2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:16457:57: warning: incompatible implicit declaration of built-in function 'sqrt' foo = (r__3 = t[*ns + *ns * t_dim1], dabs(r__3)) + sqrt((r__1 = t[ ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:16457:57: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:16529:54: warning: incompatible implicit declaration of built-in function 'sqrt' evi = (r__3 = t[i__ + i__ * t_dim1], dabs(r__3)) + sqrt((r__1 ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:16529:54: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:16539:50: warning: incompatible implicit declaration of built-in function 'sqrt' evk = (r__3 = t[k + k * t_dim1], dabs(r__3)) + sqrt((r__1 = t[ ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:16539:50: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slaqr3_': numpy/linalg/lapack_lite/f2c_s_lapack.c:17147:57: warning: incompatible implicit declaration of built-in function 'sqrt' foo = (r__3 = t[*ns + *ns * t_dim1], dabs(r__3)) + sqrt((r__1 = t[ ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:17147:57: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:17219:54: warning: incompatible implicit declaration of built-in function 'sqrt' evi = (r__3 = t[i__ + i__ * t_dim1], dabs(r__3)) + sqrt((r__1 ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:17219:54: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:17229:50: warning: incompatible implicit declaration of built-in function 'sqrt' evk = (r__3 = t[k + k * t_dim1], dabs(r__3)) + sqrt((r__1 = t[ ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:17229:50: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slartg_': numpy/linalg/lapack_lite/f2c_s_lapack.c:21386:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log(safmin / eps) / log(slamch_("B")) / 2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21386:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c:21423:13: warning: incompatible implicit declaration of built-in function 'sqrt' *r__ = sqrt(r__1 * r__1 + r__2 * r__2); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21423:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:21447:13: warning: incompatible implicit declaration of built-in function 'sqrt' *r__ = sqrt(r__1 * r__1 + r__2 * r__2); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21447:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:21460:13: warning: incompatible implicit declaration of built-in function 'sqrt' *r__ = sqrt(r__1 * r__1 + r__2 * r__2); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21460:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slas2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:21555:31: warning: incompatible implicit declaration of built-in function 'sqrt' *ssmax = dmax(fhmx,ga) * sqrt(r__1 * r__1 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21555:31: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:21564:19: warning: incompatible implicit declaration of built-in function 'sqrt' c__ = 2.f / (sqrt(as * as + au) + sqrt(at * at + au)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21564:19: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:21586:16: warning: incompatible implicit declaration of built-in function 'sqrt' c__ = 1.f / (sqrt(r__1 * r__1 + 1.f) + sqrt(r__2 * r__2 + 1.f) ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:21586:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasd3_': numpy/linalg/lapack_lite/f2c_s_lapack.c:23347:9: warning: incompatible implicit declaration of built-in function 'sqrt' r__2 = sqrt((r__1 = z__[i__], dabs(r__1))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:23347:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasd4_': numpy/linalg/lapack_lite/f2c_s_lapack.c:23608:11: warning: incompatible implicit declaration of built-in function 'sqrt' *sigma = sqrt(d__[1] * d__[1] + *rho * z__[1] * z__[1]); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:23608:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:23641:28: warning: incompatible implicit declaration of built-in function 'sqrt' temp1 = temp / (d__[*n] + sqrt(d__[*n] * d__[*n] + temp)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:23641:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:23928:31: warning: incompatible implicit declaration of built-in function 'sqrt' temp = delsq2 / (d__[*i__] + sqrt(d__[*i__] * d__[*i__] + delsq2)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:23928:31: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasd5_': numpy/linalg/lapack_lite/f2c_s_lapack.c:24566:29: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2.f / (b + sqrt((r__1 = b * b - c__ * 4.f, dabs(r__1)) ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24566:29: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:24588:27: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * -2.f / (b + sqrt(b * b + c__ * 4.f)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24588:27: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:24590:14: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b - sqrt(b * b + c__ * 4.f)) / 2.f; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24590:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:24595:22: warning: incompatible implicit declaration of built-in function 'sqrt' tau /= d__[2] + sqrt((r__1 = d__[2] * d__[2] + tau, dabs(r__1))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24595:22: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:24621:17: warning: incompatible implicit declaration of built-in function 'sqrt' tau = (b + sqrt(b * b + c__ * 4.f)) / 2.f; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24621:17: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:24623:30: warning: incompatible implicit declaration of built-in function 'sqrt' tau = c__ * 2.f / (-b + sqrt(b * b + c__ * 4.f)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24623:30: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:24628:18: warning: incompatible implicit declaration of built-in function 'sqrt' tau /= d__[2] + sqrt(d__[2] * d__[2] + tau); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:24628:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasd8_': numpy/linalg/lapack_lite/f2c_s_lapack.c:25727:9: warning: incompatible implicit declaration of built-in function 'sqrt' r__2 = sqrt((r__1 = work[iwk3i + i__], dabs(r__1))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:25727:9: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasdt_': numpy/linalg/lapack_lite/f2c_s_lapack.c:26660:12: warning: incompatible implicit declaration of built-in function 'log' temp = log((real) maxn / (real) (*msub + 1)) / log(2.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:26660:12: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasq1_': numpy/linalg/lapack_lite/f2c_s_lapack.c:26980:13: warning: incompatible implicit declaration of built-in function 'sqrt' scale = sqrt(eps / safmin); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:26980:13: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasq2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:27172:32: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[3] * (z__[2] / (t * (sqrt(s / t + 1.f) + 1.f))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:27172:32: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:27174:31: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[3] * (z__[2] / (t + sqrt(t) * sqrt(t + s))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:27174:31: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:27475:28: warning: incompatible implicit declaration of built-in function 'sqrt' r__1 = 0.f, r__2 = qmin - sqrt(qmin) * 2.f * sqrt(emax); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:27475:28: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasq3_': numpy/linalg/lapack_lite/f2c_s_lapack.c:27762:45: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[nn - 3] * (z__[nn - 5] / (t * (sqrt(s / t + 1.f) + 1.f))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:27762:45: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:27764:44: warning: incompatible implicit declaration of built-in function 'sqrt' s = z__[nn - 3] * (z__[nn - 5] / (t + sqrt(t) * sqrt(t + s))); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:27764:44: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasq4_': numpy/linalg/lapack_lite/f2c_s_lapack.c:28024:11: warning: incompatible implicit declaration of built-in function 'sqrt' b1 = sqrt(z__[nn - 3]) * sqrt(z__[nn - 5]); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:28024:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:28158:20: warning: incompatible implicit declaration of built-in function 'sqrt' s = gam * (1.f - sqrt(a2)) / (a2 + 1.f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:28158:20: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:28207:11: warning: incompatible implicit declaration of built-in function 'sqrt' b2 = sqrt(b2 * 1.05f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:28207:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:28265:11: warning: incompatible implicit declaration of built-in function 'sqrt' b2 = sqrt(b2 * 1.05f); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:28265:11: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'slasv2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:29659:10: warning: incompatible implicit declaration of built-in function 'sqrt' s = sqrt(tt + mm); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:29659:10: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'spotf2_': numpy/linalg/lapack_lite/f2c_s_lapack.c:34703:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:34703:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:34736:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:34736:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'sstedc_': numpy/linalg/lapack_lite/f2c_s_lapack.c:35426:23: warning: incompatible implicit declaration of built-in function 'log' lgn = (integer) (log((real) (*n)) / log(2.f)); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:35426:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_s_lapack.c:35546:16: warning: incompatible implicit declaration of built-in function 'sqrt' tiny = eps * sqrt((r__1 = d__[finish], dabs(r__1))) * sqrt(( ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:35546:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'ssteqr_': numpy/linalg/lapack_lite/f2c_s_lapack.c:35849:14: warning: incompatible implicit declaration of built-in function 'sqrt' ssfmax = sqrt(safmax) / 3.f; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:35849:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'ssterf_': numpy/linalg/lapack_lite/f2c_s_lapack.c:36375:14: warning: incompatible implicit declaration of built-in function 'sqrt' ssfmax = sqrt(safmax) / 3.f; ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:36375:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'ssyevd_': numpy/linalg/lapack_lite/f2c_s_lapack.c:36954:12: warning: incompatible implicit declaration of built-in function 'sqrt' rmin = sqrt(smlnum); ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:36954:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c: In function 'strevc_': numpy/linalg/lapack_lite/f2c_s_lapack.c:37993:8: warning: incompatible implicit declaration of built-in function 'sqrt' wi = sqrt((r__1 = t[ki + (ki - 1) * t_dim1], dabs(r__1))) * ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:37993:8: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_s_lapack.c:38411:8: warning: incompatible implicit declaration of built-in function 'sqrt' wi = sqrt((r__1 = t[ki + (ki + 1) * t_dim1], dabs(r__1))) * ^ numpy/linalg/lapack_lite/f2c_s_lapack.c:38411:8: note: include '' or provide a declaration of 'sqrt' mpicc: numpy/linalg/lapack_lite/f2c_lapack.c numpy/linalg/lapack_lite/f2c_lapack.c: In function 'iparmq_': numpy/linalg/lapack_lite/f2c_lapack.c:1567:13: warning: implicit declaration of function 'log' [-Wimplicit-function-declaration] r__1 = log((real) nh) / log(2.f); ^ numpy/linalg/lapack_lite/f2c_lapack.c:1567:13: warning: incompatible implicit declaration of built-in function 'log' numpy/linalg/lapack_lite/f2c_lapack.c:1567:13: note: include '' or provide a declaration of 'log' mpicc: numpy/linalg/lapack_lite/f2c_c_lapack.c numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'cgeev_': numpy/linalg/lapack_lite/f2c_c_lapack.c:1561:14: warning: implicit declaration of function 'sqrt' [-Wimplicit-function-declaration] smlnum = sqrt(smlnum) / eps; ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:1561:14: warning: incompatible implicit declaration of built-in function 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c:1561:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'cgesdd_': numpy/linalg/lapack_lite/f2c_c_lapack.c:3731:14: warning: incompatible implicit declaration of built-in function 'sqrt' smlnum = sqrt(slamch_("S")) / eps; ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:3731:14: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'cheevd_': numpy/linalg/lapack_lite/f2c_c_lapack.c:6459:12: warning: incompatible implicit declaration of built-in function 'sqrt' rmin = sqrt(smlnum); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:6459:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'claed0_': numpy/linalg/lapack_lite/f2c_c_lapack.c:8842:12: warning: implicit declaration of function 'log' [-Wimplicit-function-declaration] temp = log((real) (*n)) / log(2.f); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:8842:12: warning: incompatible implicit declaration of built-in function 'log' numpy/linalg/lapack_lite/f2c_c_lapack.c:8842:12: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'claed8_': numpy/linalg/lapack_lite/f2c_c_lapack.c:9503:15: warning: incompatible implicit declaration of built-in function 'sqrt' t = 1.f / sqrt(2.f); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:9503:15: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'clange_': numpy/linalg/lapack_lite/f2c_c_lapack.c:10905:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:10905:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'clanhe_': numpy/linalg/lapack_lite/f2c_c_lapack.c:11137:18: warning: incompatible implicit declaration of built-in function 'sqrt' value = scale * sqrt(sum); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:11137:18: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'clartg_': numpy/linalg/lapack_lite/f2c_c_lapack.c:17129:23: warning: incompatible implicit declaration of built-in function 'log' i__1 = (integer) (log(safmin / eps) / log(slamch_("B")) / 2.f); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:17129:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_c_lapack.c:17212:8: warning: incompatible implicit declaration of built-in function 'sqrt' g2s = sqrt(g2); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:17212:8: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c:17266:8: warning: incompatible implicit declaration of built-in function 'sqrt' f2s = sqrt(g2 / f2 + 1.f); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:17266:8: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'cpotf2_': numpy/linalg/lapack_lite/f2c_c_lapack.c:20694:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:20694:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c:20737:12: warning: incompatible implicit declaration of built-in function 'sqrt' ajj = sqrt(ajj); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:20737:12: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'cstedc_': numpy/linalg/lapack_lite/f2c_c_lapack.c:21598:23: warning: incompatible implicit declaration of built-in function 'log' lgn = (integer) (log((real) (*n)) / log(2.f)); ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:21598:23: note: include '' or provide a declaration of 'log' numpy/linalg/lapack_lite/f2c_c_lapack.c:21735:16: warning: incompatible implicit declaration of built-in function 'sqrt' tiny = eps * sqrt((r__1 = d__[finish], dabs(r__1))) * sqrt(( ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:21735:16: note: include '' or provide a declaration of 'sqrt' numpy/linalg/lapack_lite/f2c_c_lapack.c: In function 'csteqr_': numpy/linalg/lapack_lite/f2c_c_lapack.c:22010:14: warning: incompatible implicit declaration of built-in function 'sqrt' ssfmax = sqrt(safmax) / 3.f; ^ numpy/linalg/lapack_lite/f2c_c_lapack.c:22010:14: note: include '' or provide a declaration of 'sqrt' mpicc: numpy/linalg/lapack_lite/f2c.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/numpy/linalg/lapack_litemodule.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/python_xerbla.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_z_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_c_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_d_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_s_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_blas.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_config.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/linalg/lapack_lite.so building 'numpy.linalg._umath_linalg' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/linalg compile options: '-Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: build/src.linux-x86_64-2.7/numpy/linalg/umath_linalg.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/numpy/linalg/umath_linalg.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/python_xerbla.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_z_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_c_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_d_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_s_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_lapack.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_blas.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c_config.o build/temp.linux-x86_64-2.7/numpy/linalg/lapack_lite/f2c.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lnpymath -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/linalg/_umath_linalg.so building 'numpy.random.mtrand' extension compiling C sources C compiler: /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-x86_64-2.7/numpy/random creating build/temp.linux-x86_64-2.7/numpy/random/mtrand compile options: '-D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -Inumpy/core/include -Ibuild/src.linux-x86_64-2.7/numpy/core/include/numpy -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/gcheng6/pylith/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/npymath -c' mpicc: numpy/random/mtrand/distributions.c mpicc: numpy/random/mtrand/mtrand.c mpicc: numpy/random/mtrand/initarray.c mpicc: numpy/random/mtrand/randomkit.c /usr/share/apps/2020.2/base_arch/gcc-5.4.0/openmpi-3.1.6/bin/mpicc -shared -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib build/temp.linux-x86_64-2.7/numpy/random/mtrand/mtrand.o build/temp.linux-x86_64-2.7/numpy/random/mtrand/randomkit.o build/temp.linux-x86_64-2.7/numpy/random/mtrand/initarray.o build/temp.linux-x86_64-2.7/numpy/random/mtrand/distributions.o -L/Users/gcheng6/pylith/lib -Lbuild/temp.linux-x86_64-2.7 -lpython2.7 -o build/lib.linux-x86_64-2.7/numpy/random/mtrand.so creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/add_newdocs.py -> build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/ctypeslib.py -> build/bdist.linux-x86_64/egg/numpy creating build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/chebyshev.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/legendre.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/laguerre.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/hermite_e.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/hermite.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/_polybase.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/__init__.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/polynomial.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/setup.py -> build/bdist.linux-x86_64/egg/numpy/polynomial copying build/lib.linux-x86_64-2.7/numpy/polynomial/polyutils.py -> build/bdist.linux-x86_64/egg/numpy/polynomial creating build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/index_tricks.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/polynomial.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/_iotools.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/arrayterator.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/user_array.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/setup.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/shape_base.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/__init__.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/financial.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/stride_tricks.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/scimath.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/npyio.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/nanfunctions.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/function_base.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/arraypad.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/recfunctions.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/arraysetops.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/mixins.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/_version.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/type_check.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/format.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/twodim_base.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/utils.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/ufunclike.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/info.py -> build/bdist.linux-x86_64/egg/numpy/lib copying build/lib.linux-x86_64-2.7/numpy/lib/_datasource.py -> build/bdist.linux-x86_64/egg/numpy/lib creating build/bdist.linux-x86_64/egg/numpy/compat copying build/lib.linux-x86_64-2.7/numpy/compat/py3k.py -> build/bdist.linux-x86_64/egg/numpy/compat copying build/lib.linux-x86_64-2.7/numpy/compat/setup.py -> build/bdist.linux-x86_64/egg/numpy/compat copying build/lib.linux-x86_64-2.7/numpy/compat/__init__.py -> build/bdist.linux-x86_64/egg/numpy/compat copying build/lib.linux-x86_64-2.7/numpy/compat/_inspect.py -> build/bdist.linux-x86_64/egg/numpy/compat creating build/bdist.linux-x86_64/egg/numpy/matrixlib copying build/lib.linux-x86_64-2.7/numpy/matrixlib/setup.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib copying build/lib.linux-x86_64-2.7/numpy/matrixlib/defmatrix.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib copying build/lib.linux-x86_64-2.7/numpy/matrixlib/__init__.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib creating build/bdist.linux-x86_64/egg/numpy/random copying build/lib.linux-x86_64-2.7/numpy/random/info.py -> build/bdist.linux-x86_64/egg/numpy/random copying build/lib.linux-x86_64-2.7/numpy/random/setup.py -> build/bdist.linux-x86_64/egg/numpy/random copying build/lib.linux-x86_64-2.7/numpy/random/mtrand.so -> build/bdist.linux-x86_64/egg/numpy/random copying build/lib.linux-x86_64-2.7/numpy/random/__init__.py -> build/bdist.linux-x86_64/egg/numpy/random copying build/lib.linux-x86_64-2.7/numpy/dual.py -> build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/__config__.py -> build/bdist.linux-x86_64/egg/numpy creating build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/linalg/__init__.py -> build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/linalg/setup.py -> build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/linalg/linalg.py -> build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/linalg/_umath_linalg.so -> build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/linalg/info.py -> build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/linalg/lapack_lite.so -> build/bdist.linux-x86_64/egg/numpy/linalg copying build/lib.linux-x86_64-2.7/numpy/setup.py -> build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/version.py -> build/bdist.linux-x86_64/egg/numpy creating build/bdist.linux-x86_64/egg/numpy/testing copying build/lib.linux-x86_64-2.7/numpy/testing/__init__.py -> build/bdist.linux-x86_64/egg/numpy/testing copying build/lib.linux-x86_64-2.7/numpy/testing/nosetester.py -> build/bdist.linux-x86_64/egg/numpy/testing copying build/lib.linux-x86_64-2.7/numpy/testing/decorators.py -> build/bdist.linux-x86_64/egg/numpy/testing copying build/lib.linux-x86_64-2.7/numpy/testing/utils.py -> build/bdist.linux-x86_64/egg/numpy/testing copying build/lib.linux-x86_64-2.7/numpy/testing/noseclasses.py -> build/bdist.linux-x86_64/egg/numpy/testing creating build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/nose_tools/utils.py -> build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/nose_tools/parameterized.py -> build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/nose_tools/noseclasses.py -> build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/nose_tools/nosetester.py -> build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/nose_tools/__init__.py -> build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/nose_tools/decorators.py -> build/bdist.linux-x86_64/egg/numpy/testing/nose_tools copying build/lib.linux-x86_64-2.7/numpy/testing/setup.py -> build/bdist.linux-x86_64/egg/numpy/testing copying build/lib.linux-x86_64-2.7/numpy/testing/print_coercion_tables.py -> build/bdist.linux-x86_64/egg/numpy/testing creating build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/structured_arrays.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/glossary.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/constants.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/ufuncs.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/misc.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/__init__.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/indexing.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/creation.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/byteswapping.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/subclassing.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/internals.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/broadcasting.py -> build/bdist.linux-x86_64/egg/numpy/doc copying build/lib.linux-x86_64-2.7/numpy/doc/basics.py -> build/bdist.linux-x86_64/egg/numpy/doc creating build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/core.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/setup.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/mrecords.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/timer_comparison.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/extras.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/__init__.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/version.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/testutils.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/ma/bench.py -> build/bdist.linux-x86_64/egg/numpy/ma copying build/lib.linux-x86_64-2.7/numpy/matlib.py -> build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/__init__.py -> build/bdist.linux-x86_64/egg/numpy creating build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/umath.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/defchararray.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/struct_ufunc_test.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/einsumfunc.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/umath_tests.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/memmap.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/setup.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/generate_numpy_api.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/numeric.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/operand_flag_tests.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/arrayprint.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/shape_base.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/_dummy.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/multiarray_tests.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/machar.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/info.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/records.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/getlimits.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/_methods.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/test_rational.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/cversions.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/fromnumeric.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/_internal.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/numerictypes.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/multiarray.so -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/setup_common.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/function_base.py -> build/bdist.linux-x86_64/egg/numpy/core copying build/lib.linux-x86_64-2.7/numpy/core/__init__.py -> build/bdist.linux-x86_64/egg/numpy/core creating build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/core.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/from_template.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/conv_template.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/info.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/npy_pkg_config.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/unixccompiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/exec_command.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/log.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/ccompiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/misc_util.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/system_info.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/compat.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/__init__.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/__version__.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/pathccompiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/extension.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/numpy_distribution.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/setup.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/mingw32ccompiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/intelccompiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils creating build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/ibm.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/sun.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/none.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/mips.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/__init__.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/absoft.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/lahey.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/nag.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/intel.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/pg.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/compaq.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/vast.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/pathf95.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/gnu.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/hpux.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler copying build/lib.linux-x86_64-2.7/numpy/distutils/fcompiler/g95.py -> build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler creating build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/sdist.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/autodist.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/egg_info.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/bdist_rpm.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/build.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/install_data.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/build_scripts.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/config_compiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/install_clib.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/config.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/build_clib.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/build_src.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/install.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/install_headers.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/build_ext.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/build_py.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/develop.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/command/__init__.py -> build/bdist.linux-x86_64/egg/numpy/distutils/command copying build/lib.linux-x86_64-2.7/numpy/distutils/environment.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/__config__.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/lib2def.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/line_endings.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/msvc9compiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/msvccompiler.py -> build/bdist.linux-x86_64/egg/numpy/distutils copying build/lib.linux-x86_64-2.7/numpy/distutils/cpuinfo.py -> build/bdist.linux-x86_64/egg/numpy/distutils creating build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/fft/fftpack_lite.so -> build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/fft/__init__.py -> build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/fft/info.py -> build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/fft/setup.py -> build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/fft/fftpack.py -> build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/fft/helper.py -> build/bdist.linux-x86_64/egg/numpy/fft copying build/lib.linux-x86_64-2.7/numpy/_globals.py -> build/bdist.linux-x86_64/egg/numpy creating build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/__version__.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/__main__.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/f2py_testing.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/func2subr.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/use_rules.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/common_rules.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/setup.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/cb_rules.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/capi_maps.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/diagnose.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/__init__.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/f90mod_rules.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/cfuncs.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/crackfortran.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/f2py2e.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/info.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/auxfuncs.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/f2py/rules.py -> build/bdist.linux-x86_64/egg/numpy/f2py copying build/lib.linux-x86_64-2.7/numpy/_distributor_init.py -> build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/conftest.py -> build/bdist.linux-x86_64/egg/numpy copying build/lib.linux-x86_64-2.7/numpy/_import_tools.py -> build/bdist.linux-x86_64/egg/numpy byte-compiling build/bdist.linux-x86_64/egg/numpy/add_newdocs.py to add_newdocs.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ctypeslib.py to ctypeslib.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/chebyshev.py to chebyshev.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/legendre.py to legendre.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/laguerre.py to laguerre.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/hermite_e.py to hermite_e.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/hermite.py to hermite.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/_polybase.py to _polybase.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/polynomial.py to polynomial.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/polynomial/polyutils.py to polyutils.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/index_tricks.py to index_tricks.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/polynomial.py to polynomial.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/_iotools.py to _iotools.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/arrayterator.py to arrayterator.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/user_array.py to user_array.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/shape_base.py to shape_base.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/financial.py to financial.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/stride_tricks.py to stride_tricks.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/scimath.py to scimath.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/npyio.py to npyio.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/nanfunctions.py to nanfunctions.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/function_base.py to function_base.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/arraypad.py to arraypad.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/recfunctions.py to recfunctions.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/arraysetops.py to arraysetops.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/mixins.py to mixins.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/_version.py to _version.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/type_check.py to type_check.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/format.py to format.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/twodim_base.py to twodim_base.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/utils.py to utils.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/ufunclike.py to ufunclike.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/lib/_datasource.py to _datasource.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/compat/py3k.py to py3k.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/compat/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/compat/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/compat/_inspect.py to _inspect.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/matrixlib/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/matrixlib/defmatrix.py to defmatrix.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/matrixlib/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/random/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/random/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/random/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/dual.py to dual.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/__config__.py to __config__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/linalg/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/linalg/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/linalg/linalg.py to linalg.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/linalg/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/version.py to version.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nosetester.py to nosetester.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/decorators.py to decorators.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/utils.py to utils.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/noseclasses.py to noseclasses.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nose_tools/utils.py to utils.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nose_tools/parameterized.py to parameterized.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nose_tools/noseclasses.py to noseclasses.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nose_tools/nosetester.py to nosetester.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nose_tools/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/nose_tools/decorators.py to decorators.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/testing/print_coercion_tables.py to print_coercion_tables.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/structured_arrays.py to structured_arrays.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/glossary.py to glossary.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/constants.py to constants.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/ufuncs.py to ufuncs.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/misc.py to misc.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/indexing.py to indexing.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/creation.py to creation.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/byteswapping.py to byteswapping.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/subclassing.py to subclassing.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/internals.py to internals.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/broadcasting.py to broadcasting.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/doc/basics.py to basics.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/core.py to core.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/mrecords.py to mrecords.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/timer_comparison.py to timer_comparison.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/extras.py to extras.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/version.py to version.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/testutils.py to testutils.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/ma/bench.py to bench.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/matlib.py to matlib.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/defchararray.py to defchararray.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/einsumfunc.py to einsumfunc.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/memmap.py to memmap.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/generate_numpy_api.py to generate_numpy_api.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/numeric.py to numeric.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/arrayprint.py to arrayprint.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/shape_base.py to shape_base.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/machar.py to machar.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/records.py to records.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/getlimits.py to getlimits.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/_methods.py to _methods.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/cversions.py to cversions.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/fromnumeric.py to fromnumeric.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/_internal.py to _internal.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/numerictypes.py to numerictypes.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/setup_common.py to setup_common.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/function_base.py to function_base.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/core.py to core.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/from_template.py to from_template.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/conv_template.py to conv_template.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/npy_pkg_config.py to npy_pkg_config.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/unixccompiler.py to unixccompiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/exec_command.py to exec_command.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/log.py to log.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/ccompiler.py to ccompiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/misc_util.py to misc_util.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/system_info.py to system_info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/compat.py to compat.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/__version__.py to __version__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/pathccompiler.py to pathccompiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/extension.py to extension.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/numpy_distribution.py to numpy_distribution.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/mingw32ccompiler.py to mingw32ccompiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/intelccompiler.py to intelccompiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/ibm.py to ibm.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/sun.py to sun.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/none.py to none.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/mips.py to mips.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/absoft.py to absoft.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/lahey.py to lahey.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/nag.py to nag.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/intel.py to intel.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/pg.py to pg.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/compaq.py to compaq.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/vast.py to vast.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/pathf95.py to pathf95.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/gnu.py to gnu.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/hpux.py to hpux.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/fcompiler/g95.py to g95.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/sdist.py to sdist.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/autodist.py to autodist.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/egg_info.py to egg_info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/bdist_rpm.py to bdist_rpm.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/build.py to build.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/install_data.py to install_data.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/build_scripts.py to build_scripts.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/config_compiler.py to config_compiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/install_clib.py to install_clib.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/config.py to config.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/build_clib.py to build_clib.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/build_src.py to build_src.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/install.py to install.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/install_headers.py to install_headers.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/build_ext.py to build_ext.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/build_py.py to build_py.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/develop.py to develop.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/command/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/environment.py to environment.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/__config__.py to __config__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/lib2def.py to lib2def.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/line_endings.py to line_endings.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/msvc9compiler.py to msvc9compiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/msvccompiler.py to msvccompiler.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/distutils/cpuinfo.py to cpuinfo.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/fft/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/fft/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/fft/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/fft/fftpack.py to fftpack.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/fft/helper.py to helper.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/_globals.py to _globals.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/__version__.py to __version__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/__main__.py to __main__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/f2py_testing.py to f2py_testing.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/func2subr.py to func2subr.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/use_rules.py to use_rules.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/common_rules.py to common_rules.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/setup.py to setup.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/cb_rules.py to cb_rules.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/capi_maps.py to capi_maps.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/diagnose.py to diagnose.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/__init__.py to __init__.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/f90mod_rules.py to f90mod_rules.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/cfuncs.py to cfuncs.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/crackfortran.py to crackfortran.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/f2py2e.py to f2py2e.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/info.py to info.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/auxfuncs.py to auxfuncs.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/f2py/rules.py to rules.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/_distributor_init.py to _distributor_init.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/conftest.py to conftest.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/_import_tools.py to _import_tools.pyc creating stub loader for numpy/core/_dummy.so creating stub loader for numpy/core/multiarray.so creating stub loader for numpy/core/umath.so creating stub loader for numpy/core/umath_tests.so creating stub loader for numpy/core/test_rational.so creating stub loader for numpy/core/struct_ufunc_test.so creating stub loader for numpy/core/multiarray_tests.so creating stub loader for numpy/core/operand_flag_tests.so creating stub loader for numpy/fft/fftpack_lite.so creating stub loader for numpy/linalg/lapack_lite.so creating stub loader for numpy/linalg/_umath_linalg.so creating stub loader for numpy/random/mtrand.so byte-compiling build/bdist.linux-x86_64/egg/numpy/core/_dummy.py to _dummy.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/multiarray.py to multiarray.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/umath.py to umath.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/umath_tests.py to umath_tests.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/test_rational.py to test_rational.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/struct_ufunc_test.py to struct_ufunc_test.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/multiarray_tests.py to multiarray_tests.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/core/operand_flag_tests.py to operand_flag_tests.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/fft/fftpack_lite.py to fftpack_lite.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/linalg/lapack_lite.py to lapack_lite.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/linalg/_umath_linalg.py to _umath_linalg.pyc byte-compiling build/bdist.linux-x86_64/egg/numpy/random/mtrand.py to mtrand.pyc installing package data to build/bdist.linux-x86_64/egg running install_data creating build/bdist.linux-x86_64/egg/numpy/fft/tests copying numpy/fft/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/fft/tests/ copying numpy/fft/tests/test_helper.py -> build/bdist.linux-x86_64/egg/numpy/fft/tests/ copying numpy/fft/tests/test_fftpack.py -> build/bdist.linux-x86_64/egg/numpy/fft/tests/ creating build/bdist.linux-x86_64/egg/numpy/f2py/tests creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/regression copying numpy/f2py/tests/src/regression/inout.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/regression creating build/bdist.linux-x86_64/egg/numpy/f2py/src copying numpy/f2py/src/fortranobject.h -> build/bdist.linux-x86_64/egg/numpy/f2py/src copying numpy/f2py/src/fortranobject.c -> build/bdist.linux-x86_64/egg/numpy/f2py/src creating build/bdist.linux-x86_64/egg/numpy/matrixlib/tests copying numpy/matrixlib/tests/test_numeric.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib/tests/ copying numpy/matrixlib/tests/test_defmatrix.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib/tests/ copying numpy/matrixlib/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib/tests/ copying numpy/matrixlib/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib/tests/ copying numpy/matrixlib/tests/test_multiarray.py -> build/bdist.linux-x86_64/egg/numpy/matrixlib/tests/ creating build/bdist.linux-x86_64/egg/numpy/random/tests copying numpy/random/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/random/tests/ copying numpy/random/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/random/tests/ copying numpy/random/tests/test_random.py -> build/bdist.linux-x86_64/egg/numpy/random/tests/ creating build/bdist.linux-x86_64/egg/numpy/tests copying numpy/tests/test_ctypeslib.py -> build/bdist.linux-x86_64/egg/numpy/tests/ copying numpy/tests/test_numpy_version.py -> build/bdist.linux-x86_64/egg/numpy/tests/ copying numpy/tests/test_reloading.py -> build/bdist.linux-x86_64/egg/numpy/tests/ copying numpy/tests/test_scripts.py -> build/bdist.linux-x86_64/egg/numpy/tests/ copying numpy/tests/test_matlib.py -> build/bdist.linux-x86_64/egg/numpy/tests/ copying numpy/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/tests/ copying numpy/tests/test_warnings.py -> build/bdist.linux-x86_64/egg/numpy/tests/ creating build/bdist.linux-x86_64/egg/numpy/core/tests creating build/bdist.linux-x86_64/egg/numpy/core/tests/data copying numpy/core/tests/data/recarray_from_file.fits -> build/bdist.linux-x86_64/egg/numpy/core/tests/data/ copying numpy/core/tests/data/astype_copy.pkl -> build/bdist.linux-x86_64/egg/numpy/core/tests/data/ copying numpy/random/mtrand/randomkit.h -> build/bdist.linux-x86_64/egg/numpy/random/. creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/size copying numpy/f2py/tests/src/size/foo.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/size creating build/bdist.linux-x86_64/egg/numpy/lib/tests creating build/bdist.linux-x86_64/egg/numpy/lib/tests/data copying numpy/lib/tests/data/python3.npy -> build/bdist.linux-x86_64/egg/numpy/lib/tests/data copying numpy/lib/tests/data/win64python2.npy -> build/bdist.linux-x86_64/egg/numpy/lib/tests/data copying numpy/lib/tests/data/py2-objarr.npy -> build/bdist.linux-x86_64/egg/numpy/lib/tests/data copying numpy/lib/tests/data/py2-objarr.npz -> build/bdist.linux-x86_64/egg/numpy/lib/tests/data copying numpy/lib/tests/data/py3-objarr.npz -> build/bdist.linux-x86_64/egg/numpy/lib/tests/data copying numpy/lib/tests/data/py3-objarr.npy -> build/bdist.linux-x86_64/egg/numpy/lib/tests/data creating build/bdist.linux-x86_64/egg/numpy/core/include creating build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_interrupt.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_no_deprecated_api.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/halffloat.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/ufuncobject.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/oldnumeric.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_common.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_math.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/noprefix.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/arrayobject.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_os.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/ndarrayobject.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/arrayscalars.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/numpyconfig.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_cpu.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_endian.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_1_7_deprecated_api.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/old_defines.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/utils.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/npy_3kcompat.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/ndarraytypes.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying numpy/core/include/numpy/_neighborhood_iterator_imp.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/mixed copying numpy/f2py/tests/src/mixed/foo_fixed.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/mixed copying numpy/f2py/tests/src/mixed/foo_free.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/mixed copying numpy/f2py/tests/src/mixed/foo.f -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/mixed copying LICENSE.txt -> build/bdist.linux-x86_64/egg/numpy creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/kind copying numpy/f2py/tests/src/kind/foo.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/kind copying numpy/lib/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_type_check.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test__datasource.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_nanfunctions.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_ufunclike.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test__version.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_stride_tricks.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_function_base.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_index_tricks.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_io.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_arrayterator.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_shape_base.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_twodim_base.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_utils.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_polynomial.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_recfunctions.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_financial.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_arraypad.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test__iotools.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_mixins.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_packbits.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_format.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ copying numpy/lib/tests/test_arraysetops.py -> build/bdist.linux-x86_64/egg/numpy/lib/tests/ creating build/bdist.linux-x86_64/egg/numpy/distutils/mingw copying numpy/distutils/mingw/gfortran_vs2003_hack.c -> build/bdist.linux-x86_64/egg/numpy/distutils/mingw copying numpy/f2py/tests/test_size.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_common.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_mixed.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/util.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_kind.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_return_complex.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_parameter.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_assumed_shape.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_return_real.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_callback.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_return_character.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_return_logical.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_string.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_array_from_pyobj.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_block_docstring.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ copying numpy/f2py/tests/test_return_integer.py -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/ creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/string copying numpy/f2py/tests/src/string/char.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/string creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/parameter copying numpy/f2py/tests/src/parameter/constant_both.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/parameter copying numpy/f2py/tests/src/parameter/constant_integer.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/parameter copying numpy/f2py/tests/src/parameter/constant_non_compound.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/parameter copying numpy/f2py/tests/src/parameter/constant_real.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/parameter copying numpy/f2py/tests/src/parameter/constant_compound.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/parameter creating build/bdist.linux-x86_64/egg/numpy/distutils/tests copying numpy/distutils/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_npy_pkg_config.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_fcompiler_nagfor.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_fcompiler_gnu.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_misc_util.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_system_info.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_exec_command.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ copying numpy/distutils/tests/test_fcompiler_intel.py -> build/bdist.linux-x86_64/egg/numpy/distutils/tests/ creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/assumed_shape copying numpy/f2py/tests/src/assumed_shape/foo_use.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/assumed_shape copying numpy/f2py/tests/src/assumed_shape/foo_mod.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/assumed_shape copying numpy/f2py/tests/src/assumed_shape/foo_free.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/assumed_shape copying numpy/f2py/tests/src/assumed_shape/.f2py_f2cmap -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/assumed_shape copying numpy/f2py/tests/src/assumed_shape/precision.f90 -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/assumed_shape copying numpy/core/tests/test_abc.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_unicode.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_arrayprint.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_machar.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_scalarinherit.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_longdouble.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_ufunc.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_deprecations.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_einsum.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_api.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_scalar_ctors.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_function_base.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_item_selection.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_umath_complex.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_nditer.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_multiarray.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_memmap.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_shape_base.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_extint128.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_datetime.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_dtype.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_numerictypes.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_mem_overlap.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_getlimits.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_print.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_records.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_scalarprint.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_indexing.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_defchararray.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_indexerrors.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_umath.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_errstate.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_half.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_scalarmath.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ copying numpy/core/tests/test_numeric.py -> build/bdist.linux-x86_64/egg/numpy/core/tests/ creating build/bdist.linux-x86_64/egg/numpy/testing/tests copying numpy/testing/tests/test_decorators.py -> build/bdist.linux-x86_64/egg/numpy/testing/tests/ copying numpy/testing/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/testing/tests/ copying numpy/testing/tests/test_utils.py -> build/bdist.linux-x86_64/egg/numpy/testing/tests/ copying numpy/testing/tests/test_doctesting.py -> build/bdist.linux-x86_64/egg/numpy/testing/tests/ creating build/bdist.linux-x86_64/egg/numpy/ma/tests copying numpy/ma/tests/test_core.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/test_deprecations.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/test_mrecords.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/test_old_ma.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/test_extras.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ copying numpy/ma/tests/test_subclassing.py -> build/bdist.linux-x86_64/egg/numpy/ma/tests/ creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/array_from_pyobj copying numpy/f2py/tests/src/array_from_pyobj/wrapmodule.c -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/array_from_pyobj creating build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/common copying numpy/f2py/tests/src/common/block.f -> build/bdist.linux-x86_64/egg/numpy/f2py/tests/src/common creating build/bdist.linux-x86_64/egg/numpy/linalg/tests copying numpy/linalg/tests/test_regression.py -> build/bdist.linux-x86_64/egg/numpy/linalg/tests/ copying numpy/linalg/tests/test_linalg.py -> build/bdist.linux-x86_64/egg/numpy/linalg/tests/ copying numpy/linalg/tests/test_deprecations.py -> build/bdist.linux-x86_64/egg/numpy/linalg/tests/ copying numpy/linalg/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/linalg/tests/ copying numpy/linalg/tests/test_build.py -> build/bdist.linux-x86_64/egg/numpy/linalg/tests/ creating build/bdist.linux-x86_64/egg/numpy/polynomial/tests copying numpy/polynomial/tests/test_polyutils.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_legendre.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_laguerre.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_polynomial.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/__init__.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_printing.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_hermite.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_chebyshev.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_classes.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying numpy/polynomial/tests/test_hermite_e.py -> build/bdist.linux-x86_64/egg/numpy/polynomial/tests/ copying build/src.linux-x86_64-2.7/numpy/core/include/numpy/_numpyconfig.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying build/src.linux-x86_64-2.7/numpy/core/include/numpy/__multiarray_api.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying build/src.linux-x86_64-2.7/numpy/core/include/numpy/multiarray_api.txt -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying build/src.linux-x86_64-2.7/numpy/core/include/numpy/__ufunc_api.h -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy copying build/src.linux-x86_64-2.7/numpy/core/include/numpy/ufunc_api.txt -> build/bdist.linux-x86_64/egg/numpy/core/include/numpy creating build/bdist.linux-x86_64/egg/numpy/core/lib creating build/bdist.linux-x86_64/egg/numpy/core/lib/npy-pkg-config copying build/src.linux-x86_64-2.7/numpy/core/lib/npy-pkg-config/npymath.ini -> build/bdist.linux-x86_64/egg/numpy/core/lib/npy-pkg-config copying build/src.linux-x86_64-2.7/numpy/core/lib/npy-pkg-config/mlib.ini -> build/bdist.linux-x86_64/egg/numpy/core/lib/npy-pkg-config running install_clib copying build/temp.linux-x86_64-2.7/libnpymath.a -> build/bdist.linux-x86_64/egg/numpy/core/lib creating build/bdist.linux-x86_64/egg/EGG-INFO installing scripts to build/bdist.linux-x86_64/egg/EGG-INFO/scripts running install_scripts running build_scripts creating build/scripts.linux-x86_64-2.7 Creating build/scripts.linux-x86_64-2.7/f2py adding 'build/scripts.linux-x86_64-2.7/f2py' to scripts changing mode of build/scripts.linux-x86_64-2.7/f2py from 644 to 755 creating build/bdist.linux-x86_64/egg/EGG-INFO/scripts copying build/scripts.linux-x86_64-2.7/f2py -> build/bdist.linux-x86_64/egg/EGG-INFO/scripts changing mode of build/bdist.linux-x86_64/egg/EGG-INFO/scripts/f2py to 755 copying numpy.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying numpy.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying numpy.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying numpy.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO writing build/bdist.linux-x86_64/egg/EGG-INFO/native_libs.txt zip_safe flag not set; analyzing archive contents... numpy.__config__: module references __file__ numpy._import_tools: module references __file__ numpy._import_tools: module references __path__ numpy.core.cversions: module references __file__ numpy.core.generate_numpy_api: module references __file__ numpy.core.setup: module references __file__ numpy.core.setup_common: module references __file__ numpy.distutils.__config__: module references __file__ numpy.distutils.exec_command: module references __file__ numpy.distutils.misc_util: module references __file__ numpy.distutils.npy_pkg_config: module references __file__ numpy.distutils.system_info: module references __file__ numpy.distutils.command.build_src: module references __file__ numpy.distutils.fcompiler.__init__: module references __file__ numpy.distutils.fcompiler.compaq: module references __file__ numpy.doc.__init__: module references __file__ numpy.f2py.diagnose: module references __file__ numpy.f2py.f2py2e: module references __file__ numpy.f2py.setup: module references __file__ numpy.lib.utils: module references __file__ numpy.lib.utils: module references __path__ numpy.lib.utils: module MAY be using inspect.getsource numpy.lib.utils: module MAY be using inspect.getsourcefile numpy.testing.nose_tools.noseclasses: module references __file__ numpy.testing.nose_tools.nosetester: module references __file__ numpy.testing.nose_tools.parameterized: module MAY be using inspect.stack numpy.testing.nose_tools.utils: module references __file__ creating dist creating 'dist/numpy-1.14.3-py2.7-linux-x86_64.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Processing numpy-1.14.3-py2.7-linux-x86_64.egg creating /Users/gcheng6/pylith/lib/python2.7/site-packages/numpy-1.14.3-py2.7-linux-x86_64.egg Extracting numpy-1.14.3-py2.7-linux-x86_64.egg to /Users/gcheng6/pylith/lib/python2.7/site-packages Adding numpy 1.14.3 to easy-install.pth file Installing f2py script to /Users/gcheng6/pylith/bin Installed /Users/gcheng6/pylith/lib/python2.7/site-packages/numpy-1.14.3-py2.7-linux-x86_64.egg Processing dependencies for numpy==1.14.3 Finished processing dependencies for numpy==1.14.3 make[3]: Leaving directory `/Users/gcheng6/build/pylith' make six make[3]: Entering directory `/Users/gcheng6/build/pylith' six already installed. Skipping installation. touch /Users/gcheng6/build/pylith/installed_six make[3]: Leaving directory `/Users/gcheng6/build/pylith' /Users/gcheng6/src/pylith/pylith-installer-2.2.2-0/bin/fetch.sh "/usr/bin/wget -nd -r -O" h5py-2.9.0.tar.gz http://geoweb.cse.ucdavis.edu/~buildbot/deps Downloading h5py-2.9.0.tar.gz from http://geoweb.cse.ucdavis.edu/~buildbot/deps. WARNING: combining -O with -r or -p will mean that all downloaded content will be placed in the single file you specified. --2021-04-06 13:58:44-- http://geoweb.cse.ucdavis.edu/~buildbot/deps/h5py-2.9.0.tar.gz Resolving geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)... 128.120.246.36 Connecting to geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)|128.120.246.36|:80... connected. HTTP request sent, awaiting response... 200 OK Length: 287853 (281K) [application/x-gzip] Saving to: ‘h5py-2.9.0.tar.gz’ 100%[========================================================================================================================================================================>] 287,853 1.11MB/s in 0.2s 2021-04-06 13:58:45 (1.11 MB/s) - ‘h5py-2.9.0.tar.gz’ saved [287853/287853] FINISHED --2021-04-06 13:58:45-- Total wall clock time: 0.6s Downloaded: 1 files, 281K in 0.2s (1.11 MB/s) /usr/bin/tar -zxf h5py-2.9.0.tar.gz cd h5py-2.9.0 && \ python setup.py configure --hdf5=/Users/gcheng6/pylith && \ CC=mpicc CPPFLAGS="-I/Users/gcheng6/pylith/include -I/Users/gcheng6/pylith/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/include" LDFLAGS="-L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib" CFLAGS="-g -O2" CXXFLAGS="-g -O2 -DMPICH_IGNORE_CXX_SEEK" FCFLAGS="" python setup.py build && \ python setup.py install --prefix=/Users/gcheng6/pylith && \ touch /Users/gcheng6/build/pylith/installed_h5py running configure Autodetected HDF5 1.10.6 ******************************************************************************** Summary of the h5py configuration Path to HDF5: '/Users/gcheng6/pylith' HDF5 Version: '1.10.6' MPI Enabled: False Rebuild Required: True ******************************************************************************** running build running build_py creating build creating build/lib.linux-x86_64-2.7 creating build/lib.linux-x86_64-2.7/h5py copying h5py/h5py_warnings.py -> build/lib.linux-x86_64-2.7/h5py copying h5py/__init__.py -> build/lib.linux-x86_64-2.7/h5py copying h5py/ipy_completer.py -> build/lib.linux-x86_64-2.7/h5py copying h5py/version.py -> build/lib.linux-x86_64-2.7/h5py copying h5py/highlevel.py -> build/lib.linux-x86_64-2.7/h5py creating build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/__init__.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/compat.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/selections.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/files.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/filters.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/dataset.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/group.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/dims.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/vds.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/attrs.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/base.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/selections2.py -> build/lib.linux-x86_64-2.7/h5py/_hl copying h5py/_hl/datatype.py -> build/lib.linux-x86_64-2.7/h5py/_hl creating build/lib.linux-x86_64-2.7/h5py/tests copying h5py/tests/common.py -> build/lib.linux-x86_64-2.7/h5py/tests copying h5py/tests/__init__.py -> build/lib.linux-x86_64-2.7/h5py/tests creating build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_objects.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/__init__.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_file_image.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_dataset.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_base.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_h5t.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_attrs.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_h5d_direct_chunk_write.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_file.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_h5p.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_h5f.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_slicing.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_h5.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_attrs_data.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_dimension_scales.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_group.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_selections.py -> build/lib.linux-x86_64-2.7/h5py/tests/old copying h5py/tests/old/test_datatype.py -> build/lib.linux-x86_64-2.7/h5py/tests/old creating build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/__init__.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_dataset_swmr.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_file.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_filters.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_deprecation.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_dims_dimensionproxy.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_attribute_create.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_datatype.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_dataset_getitem.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl copying h5py/tests/hl/test_threads.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl creating build/lib.linux-x86_64-2.7/h5py/tests/hl/test_vds copying h5py/tests/hl/test_vds/test_virtual_source.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl/test_vds copying h5py/tests/hl/test_vds/test_highlevel_vds.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl/test_vds copying h5py/tests/hl/test_vds/__init__.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl/test_vds copying h5py/tests/hl/test_vds/test_lowlevel_vds.py -> build/lib.linux-x86_64-2.7/h5py/tests/hl/test_vds running build_ext Autodetected HDF5 1.10.6 ******************************************************************************** Summary of the h5py configuration Path to HDF5: '/Users/gcheng6/pylith' HDF5 Version: '1.10.6' MPI Enabled: False Rebuild Required: True ******************************************************************************** Executing api_gen rebuild of defs Executing cythonize() [ 1/22] Cythonizing /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pyx /Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Compiler/Main.py:344: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pxd tree = Parsing.p_module(s, pxd, full_module_name) Error compiling Cython file: ------------------------------------------------------------ ... # Copyright 2008-2013 Andrew Collette and contributors # # License: Standard 3-clause BSD; see "license.txt" for full license terms # and contributor agreement. from defs cimport * ^ ------------------------------------------------------------ h5py/_conv.pxd:10:0: 'defs.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/Reference.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/RegionReference.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/hobj_ref_t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/hdset_reg_ref_t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/H5PY_OBJ.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/typewrap.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/py_create.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/TypeID.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:9: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:46: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:30: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:58: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, conv_operator_t op, ^ ------------------------------------------------------------ h5py/_conv.pyx:74:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, conv_operator_t op, init_operator_t initop, H5T_bkg_t need_bkg) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:75:44: 'H5T_bkg_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:36: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:28: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:28: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:442:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:448:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:23: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:37: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:51: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:454:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:23: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:37: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:51: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:460:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:466:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:472:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:478:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:484:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, ^ ------------------------------------------------------------ h5py/_conv.pyx:495:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, ^ ------------------------------------------------------------ h5py/_conv.pyx:495:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: ^ ------------------------------------------------------------ h5py/_conv.pyx:496:33: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) info[0].src_size = H5Tget_size(src) info[0].dst_size = H5Tget_size(dst) cdef void enum_int_converter_free(H5T_cdata_t *cdata): ^ ------------------------------------------------------------ h5py/_conv.pyx:504:34: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:55: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, int forward) except -1 with gil: ^ ------------------------------------------------------------ h5py/_conv.pyx:514:46: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:31: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:42: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, int forward) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:579:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:598:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:604:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:613:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct vlen_t: size_t len void* ptr cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:677:8: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct vlen_t: size_t len void* ptr cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:677:23: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:711:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:780:8: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:780:23: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 references to Python instances of h5r.Reference cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:349:9: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() ^ ------------------------------------------------------------ h5py/_conv.pyx:351:9: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2objref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:368:9: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt cdef object obj cdef Reference ref ^ ------------------------------------------------------------ h5py/_conv.pyx:371:9: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_regref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:392:9: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt cdef RegionReference ref = RegionReference() ^ ------------------------------------------------------------ h5py/_conv.pyx:394:9: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2regref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:416:9: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt cdef object obj cdef RegionReference ref ^ ------------------------------------------------------------ h5py/_conv.pyx:419:9: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t nalloc cdef int i cdef char* cbuf = NULL cdef char* buf = buf_i cdef int identical cdef hid_t supertype = -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:521:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype ^ ------------------------------------------------------------ h5py/_conv.pyx:617:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype cdef TypeID outtype ^ ------------------------------------------------------------ h5py/_conv.pyx:618:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype ^ ------------------------------------------------------------ h5py/_conv.pyx:715:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype cdef TypeID outtype ^ ------------------------------------------------------------ h5py/_conv.pyx:716:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= cpdef int register_converters() except -1: cdef hid_t vlstring ^ ------------------------------------------------------------ h5py/_conv.pyx:811:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype ^ ------------------------------------------------------------ h5py/_conv.pyx:812:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj ^ ------------------------------------------------------------ h5py/_conv.pyx:813:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum ^ ------------------------------------------------------------ h5py/_conv.pyx:814:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int i cdef char* buf = buf_i cdef char* bkg = bkg_i if command == H5T_CONV_INIT: ^ ------------------------------------------------------------ h5py/_conv.pyx:84:18: undeclared name not builtin: H5T_CONV_INIT Error compiling Cython file: ------------------------------------------------------------ ... cdef char* bkg = bkg_i if command == H5T_CONV_INIT: cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) ^ ------------------------------------------------------------ h5py/_conv.pyx:87:38: Cannot take address of Python object attribute 'priv' Error compiling Cython file: ------------------------------------------------------------ ... if command == H5T_CONV_INIT: cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: ^ ------------------------------------------------------------ h5py/_conv.pyx:89:20: undeclared name not builtin: H5T_CONV_FREE Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: free(cdata[0].priv) ^ ------------------------------------------------------------ h5py/_conv.pyx:91:8: undeclared name not builtin: free Error compiling Cython file: ------------------------------------------------------------ ... return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: free(cdata[0].priv) cdata[0].priv = NULL ^ ------------------------------------------------------------ h5py/_conv.pyx:92:24: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_FREE: free(cdata[0].priv) cdata[0].priv = NULL elif command == H5T_CONV_CONV: ^ ------------------------------------------------------------ h5py/_conv.pyx:94:20: undeclared name not builtin: H5T_CONV_CONV Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: sizes = cdata[0].priv if H5Tis_variable_str(src_id): ^ ------------------------------------------------------------ h5py/_conv.pyx:98:11: undeclared name not builtin: H5Tis_variable_str Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: sizes = cdata[0].priv if H5Tis_variable_str(src_id): sizes.cset = H5Tget_cset(src_id) ^ ------------------------------------------------------------ h5py/_conv.pyx:99:25: undeclared name not builtin: H5Tget_cset Error compiling Cython file: ------------------------------------------------------------ ... if sizes[0].src_size >= sizes[0].dst_size: for i from 0<=ii>=0: op( buf + (i*sizes[0].src_size), buf + (i*sizes[0].dst_size), bkg + (i*bkg_stride), cdata[0].priv) ^ ------------------------------------------------------------ h5py/_conv.pyx:122:32: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... # offsets exclusively. for i from 0<=imalloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:26: undeclared name not builtin: malloc Error compiling Cython file: ------------------------------------------------------------ ... int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) priv[0] = sizes sizes[0].src_size = H5Tget_size(src) ^ ------------------------------------------------------------ h5py/_conv.pyx:150:24: undeclared name not builtin: H5Tget_size Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:4: undeclared name not builtin: memcpy Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:169:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:169:26: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) # When reading we identify H5T_CSET_ASCII as a byte string and # H5T_CSET_UTF8 as a utf8-encoded unicode string if sizes.cset == H5T_CSET_ASCII: ^ ------------------------------------------------------------ h5py/_conv.pyx:173:21: undeclared name not builtin: H5T_CSET_ASCII Error compiling Cython file: ------------------------------------------------------------ ... if sizes.cset == H5T_CSET_ASCII: if buf_cstring0 == NULL: temp_obj = PyBytes_FromString("") else: temp_obj = PyBytes_FromString(buf_cstring0) elif sizes.cset == H5T_CSET_UTF8: ^ ------------------------------------------------------------ h5py/_conv.pyx:178:23: undeclared name not builtin: H5T_CSET_UTF8 Error compiling Cython file: ------------------------------------------------------------ ... temp_obj = PyBytes_FromString(buf_cstring0) elif sizes.cset == H5T_CSET_UTF8: if buf_cstring0 == NULL: temp_obj = PyUnicode_DecodeUTF8("", 0, NULL) else: temp_obj = PyUnicode_DecodeUTF8(buf_cstring0, strlen(buf_cstring0), NULL) ^ ------------------------------------------------------------ h5py/_conv.pyx:182:58: undeclared name not builtin: strlen Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 will eventually overwrite this target location, so we # make sure to decref the object there. Py_XDECREF(bkg_obj0) # Write the new string object to the buffer in-place memcpy(buf_obj, &temp_obj, sizeof(temp_obj)); ^ ------------------------------------------------------------ h5py/_conv.pyx:193:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 will eventually overwrite this target location, so we # make sure to decref the object there. Py_XDECREF(bkg_obj0) # Write the new string object to the buffer in-place memcpy(buf_obj, &temp_obj, sizeof(temp_obj)); ^ ------------------------------------------------------------ h5py/_conv.pyx:193:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t temp_string_len = 0 # Not including null term cdef PyObject* buf_obj0 cdef char* buf_cstring0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:212:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t temp_string_len = 0 # Not including null term cdef PyObject* buf_obj0 cdef char* buf_cstring0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:212:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... raise TypeError("Unrecognized dataset encoding") if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:261:23: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... raise TypeError("Unrecognized dataset encoding") if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:261:23: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) memcpy(buf_cstring0, temp_string, temp_string_len+1) memcpy(buf_cstring, &buf_cstring0, sizeof(buf_cstring0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:263:15: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) memcpy(buf_cstring0, temp_string, temp_string_len+1) memcpy(buf_cstring, &buf_cstring0, sizeof(buf_cstring0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:263:28: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(src) and (not H5Tis_variable_str(dst))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:280:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(src) and (not H5Tis_variable_str(dst))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:280:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(dst) and (not H5Tis_variable_str(src))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:294:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(dst) and (not H5Tis_variable_str(src))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:294:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef char* temp_string = NULL cdef size_t temp_string_len = 0 # Without null term cdef conv_size_t *sizes = priv cdef char* buf_vlen0 memcpy(&buf_vlen0, buf_vlen, sizeof(buf_vlen0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:310:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef char* temp_string = NULL cdef size_t temp_string_len = 0 # Without null term cdef conv_size_t *sizes = priv cdef char* buf_vlen0 memcpy(&buf_vlen0, buf_vlen, sizeof(buf_vlen0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:310:23: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... temp_string_len = strlen(temp_string) if temp_string_len <= sizes[0].dst_size: # Pad with zeros memcpy(buf_fixed, temp_string, temp_string_len) memset(buf_fixed + temp_string_len, c'\0', sizes[0].dst_size - temp_string_len) ^ ------------------------------------------------------------ h5py/_conv.pyx:319:12: undeclared name not builtin: memset Error compiling Cython file: ------------------------------------------------------------ ... cdef char** buf_vlen = opt cdef char* buf_fixed = ipt cdef char* temp_string = NULL cdef conv_size_t *sizes = priv temp_string = malloc(sizes[0].src_size+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:335:18: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef char** buf_vlen = opt cdef char* buf_fixed = ipt cdef char* temp_string = NULL cdef conv_size_t *sizes = priv temp_string = malloc(sizes[0].src_size+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:335:18: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... temp_string = malloc(sizes[0].src_size+1) memcpy(temp_string, buf_fixed, sizes[0].src_size) temp_string[sizes[0].src_size] = c'\0' memcpy(buf_vlen, &temp_string, sizeof(temp_string)); ^ ------------------------------------------------------------ h5py/_conv.pyx:339:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... temp_string = malloc(sizes[0].src_size+1) memcpy(temp_string, buf_fixed, sizes[0].src_size) temp_string[sizes[0].src_size] = c'\0' memcpy(buf_vlen, &temp_string, sizeof(temp_string)); ^ ------------------------------------------------------------ h5py/_conv.pyx:339:21: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 references to Python instances of h5r.Reference cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:349:32: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() ^ ------------------------------------------------------------ h5py/_conv.pyx:351:25: 'Reference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() cdef PyObject* ref_ptr = NULL memcpy(&ref.ref.obj_ref, buf_ref, sizeof(ref.ref.obj_ref)) ^ ------------------------------------------------------------ h5py/_conv.pyx:354:11: Cannot take address of Python object attribute 'obj_ref' Error compiling Cython file: ------------------------------------------------------------ ... cdef Reference ref = Reference() cdef PyObject* ref_ptr = NULL memcpy(&ref.ref.obj_ref, buf_ref, sizeof(ref.ref.obj_ref)) ref.typecode = H5R_OBJECT ^ ------------------------------------------------------------ h5py/_conv.pyx:355:19: undeclared name not builtin: H5R_OBJECT Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:361:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:361:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2objref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:368:32: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef Reference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:375:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef Reference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:375:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): ^ ------------------------------------------------------------ h5py/_conv.pyx:379:31: 'Reference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) ^ ------------------------------------------------------------ h5py/_conv.pyx:381:15: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) memcpy(buf_ref, &ref.ref.obj_ref, sizeof(ref.ref.obj_ref)) ^ ------------------------------------------------------------ h5py/_conv.pyx:382:24: Cannot take address of Python object attribute 'obj_ref' Error compiling Cython file: ------------------------------------------------------------ ... if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) memcpy(buf_ref, &ref.ref.obj_ref, sizeof(ref.ref.obj_ref)) else: memset(buf_ref, c'\0', sizeof(hobj_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:384:48: 'hobj_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_regref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:392:37: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt cdef RegionReference ref = RegionReference() ^ ------------------------------------------------------------ h5py/_conv.pyx:394:31: 'RegionReference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef RegionReference ref = RegionReference() cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:399:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef RegionReference ref = RegionReference() cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:399:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); memcpy(ref.ref.reg_ref, buf_ref, sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:400:59: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); memcpy(ref.ref.reg_ref, buf_ref, sizeof(hdset_reg_ref_t)) ref.typecode = H5R_DATASET_REGION ^ ------------------------------------------------------------ h5py/_conv.pyx:402:19: undeclared name not builtin: H5R_DATASET_REGION Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits Py_XDECREF(bkg_obj0) memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:409:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits Py_XDECREF(bkg_obj0) memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:409:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2regref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:416:37: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef RegionReference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:423:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef RegionReference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:423:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): ^ ------------------------------------------------------------ h5py/_conv.pyx:427:31: 'RegionReference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) ^ ------------------------------------------------------------ h5py/_conv.pyx:429:15: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) memcpy(buf_ref, ref.ref.reg_ref, sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:430:63: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) memcpy(buf_ref, ref.ref.reg_ref, sizeof(hdset_reg_ref_t)) else: memset(buf_ref, c'\0', sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:432:53: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) ^ ------------------------------------------------------------ h5py/_conv.pyx:444:63: undeclared name not builtin: H5T_BKG_YES Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) ^ ------------------------------------------------------------ h5py/_conv.pyx:450:62: undeclared name not builtin: H5T_BKG_NO Error compiling Cython file: ------------------------------------------------------------ ... cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: cdef conv_enum_t *info cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:500:27: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: cdef conv_enum_t *info cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:500:27: Cannot convert 'conv_enum_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void enum_int_converter_free(H5T_cdata_t *cdata): cdef conv_enum_t *info info = cdata[0].priv free(info) ^ ------------------------------------------------------------ h5py/_conv.pyx:508:9: Cannot convert 'conv_enum_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void enum_int_converter_free(H5T_cdata_t *cdata): cdef conv_enum_t *info info = cdata[0].priv free(info) cdata[0].priv = NULL ^ ------------------------------------------------------------ h5py/_conv.pyx:509:20: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv try: if forward: supertype = H5Tget_super(src) ^ ------------------------------------------------------------ h5py/_conv.pyx:527:24: undeclared name not builtin: H5Tget_super Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv try: if forward: supertype = H5Tget_super(src) identical = H5Tequal(supertype, dst) ^ ------------------------------------------------------------ h5py/_conv.pyx:528:24: undeclared name not builtin: H5Tequal Error compiling Cython file: ------------------------------------------------------------ ... return 0 if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:540:16: undeclared name not builtin: H5Tconvert Error compiling Cython file: ------------------------------------------------------------ ... return 0 if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:540:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) else: H5Tconvert(src, supertype, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:542:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if info[0].src_size > info[0].dst_size: nalloc = info[0].src_size*nl else: nalloc = info[0].dst_size*nl cbuf = malloc(nalloc) ^ ------------------------------------------------------------ h5py/_conv.pyx:550:19: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... if info[0].src_size > info[0].dst_size: nalloc = info[0].src_size*nl else: nalloc = info[0].dst_size*nl cbuf = malloc(nalloc) ^ ------------------------------------------------------------ h5py/_conv.pyx:550:19: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... for i from 0<=i 0: H5Tclose(supertype) ^ ------------------------------------------------------------ h5py/_conv.pyx:571:12: undeclared name not builtin: H5Tclose Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:11: undeclared name not builtin: H5Tget_class Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:35: undeclared name not builtin: H5T_VLEN Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:71: undeclared name not builtin: H5T_OPAQUE Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter supertype = typewrap(H5Tget_super(src_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:637:20: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter supertype = typewrap(H5Tget_super(src_id)) dt = supertype.dtype outtype = py_create(dt) ^ ------------------------------------------------------------ h5py/_conv.pyx:639:18: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef PyObject* ndarray_obj cdef vlen_t in_vlen0 memcpy(&in_vlen0, in_vlen, sizeof(in_vlen0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:688:11: Cannot convert 'vlen_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef PyObject* ndarray_obj cdef vlen_t in_vlen0 memcpy(&in_vlen0, in_vlen, sizeof(in_vlen0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:688:22: Cannot convert 'vlen_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:64: undeclared name not builtin: H5P_DEFAULT Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:58: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ndarray_obj = ndarray Py_INCREF(ndarray_obj) # Write the new object to the buffer in-place in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) ^ ------------------------------------------------------------ h5py/_conv.pyx:705:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ndarray_obj = ndarray Py_INCREF(ndarray_obj) # Write the new object to the buffer in-place in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) ^ ------------------------------------------------------------ h5py/_conv.pyx:705:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: ^ ------------------------------------------------------------ h5py/_conv.pyx:727:32: 'H5PY_OBJ' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:729:20: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:731:19: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:731:37: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) if supertype != py_create(( pdata_elem).dtype, 1): ^ ------------------------------------------------------------ h5py/_conv.pyx:732:28: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:744:15: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:744:28: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) supertype = py_create(( pdata_elem).dtype) ^ ------------------------------------------------------------ h5py/_conv.pyx:745:20: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) supertype = py_create(( pdata_elem).dtype) outtype = typewrap(H5Tget_super(dst_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:746:18: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef size_t len cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:791:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef size_t len cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:791:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ndarray = buf_obj0 len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:796:21: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ndarray = buf_obj0 len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:796:21: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:798:21: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:798:21: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:799:11: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:800:43: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:800:49: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) ^ ------------------------------------------------------------ h5py/_conv.pyx:802:11: Cannot convert 'size_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) ^ ------------------------------------------------------------ h5py/_conv.pyx:802:28: Cannot convert 'size_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) memcpy(&in_vlen[0].ptr, &data, sizeof(data)) ^ ------------------------------------------------------------ h5py/_conv.pyx:803:11: Cannot convert 'void **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) memcpy(&in_vlen[0].ptr, &data, sizeof(data)) ^ ------------------------------------------------------------ h5py/_conv.pyx:803:28: Cannot convert 'void **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) ^ ------------------------------------------------------------ h5py/_conv.pyx:816:15: undeclared name not builtin: H5Tcopy Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) ^ ------------------------------------------------------------ h5py/_conv.pyx:816:23: undeclared name not builtin: H5T_C_S1 Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) ^ ------------------------------------------------------------ h5py/_conv.pyx:817:4: undeclared name not builtin: H5Tset_size Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) ^ ------------------------------------------------------------ h5py/_conv.pyx:817:26: undeclared name not builtin: H5T_VARIABLE Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:819:11: undeclared name not builtin: H5Tenum_create Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:819:26: undeclared name not builtin: H5T_STD_I32LE Error compiling Cython file: ------------------------------------------------------------ ... vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) vlentype = H5Tvlen_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:821:15: undeclared name not builtin: H5Tvlen_create Error compiling Cython file: ------------------------------------------------------------ ... enum = H5Tenum_create(H5T_STD_I32LE) vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ ^ ------------------------------------------------------------ h5py/_conv.pyx:823:12: 'H5PY_OBJ' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:4: undeclared name not builtin: H5Tregister Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:16: undeclared name not builtin: H5T_PERS_HARD Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:60: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:826:60: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:828:16: undeclared name not builtin: H5T_PERS_SOFT Error compiling Cython file: ------------------------------------------------------------ ... pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:828:65: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:829:65: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:831:47: undeclared name not builtin: H5T_STD_REF_OBJ Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:831:71: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) ^ ------------------------------------------------------------ h5py/_conv.pyx:832:71: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:834:47: undeclared name not builtin: H5T_STD_REF_DSETREG Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:834:75: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) ^ ------------------------------------------------------------ h5py/_conv.pyx:835:75: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) ^ ------------------------------------------------------------ h5py/_conv.pyx:837:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) ^ ------------------------------------------------------------ h5py/_conv.pyx:838:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) H5Tregister(H5T_PERS_SOFT, "vlen2ndarray", vlentype, pyobj, vlen2ndarray) ^ ------------------------------------------------------------ h5py/_conv.pyx:840:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) H5Tregister(H5T_PERS_SOFT, "vlen2ndarray", vlentype, pyobj, vlen2ndarray) H5Tregister(H5T_PERS_SOFT, "ndarray2vlen", pyobj, vlentype, ndarray2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:841:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:851:4: undeclared name not builtin: H5Tunregister Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:851:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:852:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:854:55: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:855:55: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:857:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) ^ ------------------------------------------------------------ h5py/_conv.pyx:858:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:860:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) ^ ------------------------------------------------------------ h5py/_conv.pyx:861:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) ^ ------------------------------------------------------------ h5py/_conv.pyx:863:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) ^ ------------------------------------------------------------ h5py/_conv.pyx:864:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) H5Tunregister(H5T_PERS_SOFT, "vlen2ndarray", -1, -1, vlen2ndarray) ^ ------------------------------------------------------------ h5py/_conv.pyx:866:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) H5Tunregister(H5T_PERS_SOFT, "vlen2ndarray", -1, -1, vlen2ndarray) H5Tunregister(H5T_PERS_SOFT, "ndarray2vlen", -1, -1, ndarray2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:867:57: Cannot convert '' to Python object Traceback (most recent call last): File "setup.py", line 168, in cmdclass = CMDCLASS, File "build/bdist.linux-x86_64/egg/setuptools/__init__.py", line 129, in setup File "/Users/gcheng6/pylith/lib/python2.7/distutils/core.py", line 151, in setup dist.run_commands() File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 953, in run_commands self.run_command(cmd) File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 972, in run_command cmd_obj.run() File "/Users/gcheng6/pylith/lib/python2.7/distutils/command/build.py", line 127, in run self.run_command(cmd_name) File "/Users/gcheng6/pylith/lib/python2.7/distutils/cmd.py", line 326, in run_command self.distribution.run_command(command) File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 972, in run_command cmd_obj.run() File "/Users/gcheng6/build/pylith/h5py-2.9.0/setup_build.py", line 203, in run force=config.rebuild_required or self.force) File "/Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Build/Dependencies.py", line 1110, in cythonize cythonize_one(*args) File "/Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Build/Dependencies.py", line 1277, in cythonize_one raise CompileError(None, pyx_file) Cython.Compiler.Errors.CompileError: /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pyx make[2]: *** [h5py] Error 1 make[2]: Leaving directory `/Users/gcheng6/build/pylith' make[1]: *** [installed_h5py] Error 2 make[1]: Leaving directory `/Users/gcheng6/build/pylith' make: *** [installed_pylith] Error 2 [gcheng6@argon-itf-login-3 pylith]$ [gcheng6@argon-itf-login-3 pylith]$ module list Currently Loaded Modules: 1) stack/2020.2-base_arch 5) libxml2/2.9.10_gcc-5.4.0 9) rdma-core/20_gcc-5.4.0 13) zlib/1.2.11_gcc-5.4.0 17) openssl/1.1.1g_gcc-5.4.0 21) parallel-netcdf/1.12.1_gcc-5.4.0 2) libpciaccess/0.16_gcc-5.4.0 6) hwloc/1.11.11_gcc-5.4.0 10) ucx/1.8.1_gcc-5.4.0 14) openmpi/3.1.6_gcc-5.4.0 18) krb5/1.18.2_gcc-5.4.0 22) netcdf-c/4.7.4_gcc-5.4.0 3) libiconv/1.16_gcc-5.4.0 7) opa-psm2/11.2.77_gcc-5.4.0 11) libfabric/1.11.0_gcc-5.4.0 15) hdf5/1.10.6_gcc-5.4.0 19) libtirpc/1.2.6_gcc-5.4.0 23) netcdf-cxx/4.2_gcc-5.4.0 4) xz/5.2.5_gcc-5.4.0 8) psm/3.3_gcc-5.4.0 12) numactl/2.0.12_gcc-5.4.0 16) libjpeg-turbo/2.0.4_gcc-5.4.0 20) hdf/4.2.15_gcc-5.4.0 [gcheng6@argon-itf-login-3 pylith]$ make pylith make h5py make[1]: Entering directory `/Users/gcheng6/build/pylith' /Users/gcheng6/src/pylith/pylith-installer-2.2.2-0/bin/fetch.sh "/usr/bin/wget -nd -r -O" h5py-2.9.0.tar.gz http://geoweb.cse.ucdavis.edu/~buildbot/deps Found local copy of h5py-2.9.0.tar.gz. /usr/bin/tar -zxf h5py-2.9.0.tar.gz th' make numpy make[3]: Entering directory `/Users/gcheng6/build/pylith' make setuptools make[4]: Entering directory `/Users/gcheng6/build/pylith' /Users/gcheng6/src/pylith/pylith-installer-2.2.2-0/bin/fetch.sh "/usr/bin/wget -nd -r -O" setuptools-39.1.0.zip http://geoweb.cse.ucdavis.edu/~buildbot/deps Downloading setuptools-39.1.0.zip from http://geoweb.cse.ucdavis.edu/~buildbot/deps. WARNING: combining -O with -r or -p will mean that all downloaded content will be placed in the single file you specified. --2021-04-06 13:47:22-- http://geoweb.cse.ucdavis.edu/~buildbot/deps/setuptools-39.1.0.zip Resolving geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)... 128.120.246.36 Connecting to geoweb.cse.ucdavis.edu (geoweb.cse.ucdavis.edu)|128.120.246.36|:80... connected. HTTP request sent, awaiting response... 200 OK Length: 845300 (825K) [application/zip] Saving to: ‘setuptools-39.1.0.zip’ 100%[========================================================================================================================================================================>] 845,300 1.45MB/s in 0.6s 2021-04-06 13:47:24 (1.45 MB/s) - ‘setuptools-39.1.0.zip’ saved [845300/845300] FINISHED --2021-04-06 13:47:24-- Total wall clock time: 1.7s Downloaded: 1 files, 825K in 0.6s (1.45 MB/s) /usr/bin/unzip setuptools-39.1.0.zip Archive: setuptools-39.1.0.zip inflating: setuptools-39.1.0/CHANGES.rst inflating: setuptools-39.1.0/LICENSE inflating: setuptools-39.1.0/MANIFEST.in inflating: setuptools-39.1.0/README.rst inflating: setuptools-39.1.0/bootstrap.py inflating: setuptools-39.1.0/conftest.py inflating: setuptools-39.1.0/easy_install.py inflating: setuptools-39.1.0/launcher.c inflating: setuptools-39.1.0/msvc-build-launcher.cmd inflating: setuptools-39.1.0/pavement.py inflating: setuptools-39.1.0/pytest.ini inflating: setuptools-39.1.0/setup.cfg inflating: setuptools-39.1.0/setup.py inflating: setuptools-39.1.0/tox.ini inflating: setuptools-39.1.0/PKG-INFO inflating: setuptools-39.1.0/docs/Makefile inflating: setuptools-39.1.0/docs/conf.py inflating: setuptools-39.1.0/docs/developer-guide.txt inflating: setuptools-39.1.0/docs/development.txt inflating: setuptools-39.1.0/docs/easy_install.txt inflating: setuptools-39.1.0/docs/formats.txt inflating: setuptools-39.1.0/docs/history.txt inflating: setuptools-39.1.0/docs/index.txt inflating: setuptools-39.1.0/docs/pkg_resources.txt inflating: setuptools-39.1.0/docs/python3.txt inflating: setuptools-39.1.0/docs/releases.txt inflating: setuptools-39.1.0/docs/requirements.txt inflating: setuptools-39.1.0/docs/roadmap.txt inflating: setuptools-39.1.0/docs/setuptools.txt inflating: setuptools-39.1.0/docs/_templates/indexsidebar.html inflating: setuptools-39.1.0/docs/_theme/nature/theme.conf inflating: setuptools-39.1.0/docs/_theme/nature/static/nature.css_t inflating: setuptools-39.1.0/docs/_theme/nature/static/pygments.css inflating: setuptcd h5py-2.9.0 && \ python setup.py configure --hdf5=/Users/gcheng6/pylith && \ CC=mpicc CPPFLAGS="-I/Users/gcheng6/pylith/include -I/Users/gcheng6/pylith/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/include" LDFLAGS="-L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib" CFLAGS="-g -O2" CXXFLAGS="-g -O2 -DMPICH_IGNORE_CXX_SEEK" FCFLAGS="" python setup.py build && \ python setup.py install --prefix=/Users/gcheng6/pylith && \ touch /Users/gcheng6/build/pylith/installed_h5py ools-39.1.0/pkg_resorunning configure Autodetected HDF5 1.10.6 ******************************************************************************** Summary of the h5py configuration Path to HDF5: '/Users/gcheng6/pylith' HDF5 Version: '1.10.6' MPI Enabled: False Rebuild Required: True ******************************************************************************** running build running build_py running build_ext Autodetected HDF5 1.10.6 ******************************************************************************** Summary of the h5py configuration Path to HDF5: '/Users/gcheng6/pylith' HDF5 Version: '1.10.6' MPI Enabled: False Rebuild Required: True ******************************************************************************** Executing cythonize() [ 1/22] Cythonizing /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pyx /Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Compiler/Main.py:344: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pxd tree = Parsing.p_module(s, pxd, full_module_name) Error compiling Cython file: ------------------------------------------------------------ ... # Copyright 2008-2013 Andrew Collette and contributors # # License: Standard 3-clause BSD; see "license.txt" for full license terms # and contributor agreement. from defs cimport * ^ ------------------------------------------------------------ h5py/_conv.pxd:10:0: 'defs.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/Reference.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/RegionReference.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/hobj_ref_t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/hdset_reg_ref_t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/H5PY_OBJ.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/typewrap.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/py_create.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/TypeID.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:9: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:46: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:30: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:58: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, conv_operator_t op, ^ ------------------------------------------------------------ h5py/_conv.pyx:74:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, conv_operator_t op, init_operator_t initop, H5T_bkg_t need_bkg) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:75:44: 'H5T_bkg_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:36: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:28: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:28: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:442:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:448:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:23: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:37: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:51: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:454:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:23: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:37: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:51: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:460:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:466:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:472:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:478:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:484:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, ^ ------------------------------------------------------------ h5py/_conv.pyx:495:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, ^ ------------------------------------------------------------ h5py/_conv.pyx:495:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: ^ ------------------------------------------------------------ h5py/_conv.pyx:496:33: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) info[0].src_size = H5Tget_size(src) info[0].dst_size = H5Tget_size(dst) cdef void enum_int_converter_free(H5T_cdata_t *cdata): ^ ------------------------------------------------------------ h5py/_conv.pyx:504:34: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:55: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, int forward) except -1 with gil: ^ ------------------------------------------------------------ h5py/_conv.pyx:514:46: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:31: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:42: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, int forward) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:579:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:598:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:604:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:613:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct vlen_t: size_t len void* ptr cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:677:8: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct vlen_t: size_t len void* ptr cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:677:23: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:711:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:780:8: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:780:23: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 references to Python instances of h5r.Reference cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:349:9: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() ^ ------------------------------------------------------------ h5py/_conv.pyx:351:9: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2objref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:368:9: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt cdef object obj cdef Reference ref ^ ------------------------------------------------------------ h5py/_conv.pyx:371:9: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_regref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:392:9: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt cdef RegionReference ref = RegionReference() ^ ------------------------------------------------------------ h5py/_conv.pyx:394:9: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2regref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:416:9: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt cdef object obj cdef RegionReference ref ^ ------------------------------------------------------------ h5py/_conv.pyx:419:9: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t nalloc cdef int i cdef char* cbuf = NULL cdef char* buf = buf_i cdef int identical cdef hid_t supertype = -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:521:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype ^ ------------------------------------------------------------ h5py/_conv.pyx:617:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype cdef TypeID outtype ^ ------------------------------------------------------------ h5py/_conv.pyx:618:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype ^ ------------------------------------------------------------ h5py/_conv.pyx:715:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype cdef TypeID outtype ^ ------------------------------------------------------------ h5py/_conv.pyx:716:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= cpdef int register_converters() except -1: cdef hid_t vlstring ^ ------------------------------------------------------------ h5py/_conv.pyx:811:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype ^ ------------------------------------------------------------ h5py/_conv.pyx:812:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj ^ ------------------------------------------------------------ h5py/_conv.pyx:813:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum ^ ------------------------------------------------------------ h5py/_conv.pyx:814:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int i cdef char* buf = buf_i cdef char* bkg = bkg_i if command == H5T_CONV_INIT: ^ ------------------------------------------------------------ h5py/_conv.pyx:84:18: undeclared name not builtin: H5T_CONV_INIT Error compiling Cython file: ------------------------------------------------------------ ... cdef char* bkg = bkg_i if command == H5T_CONV_INIT: cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) ^ ------------------------------------------------------------ h5py/_conv.pyx:87:38: Cannot take address of Python object attribute 'priv' Error compiling Cython file: ------------------------------------------------------------ ... if command == H5T_CONV_INIT: cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: ^ ------------------------------------------------------------ h5py/_conv.pyx:89:20: undeclared name not builtin: H5T_CONV_FREE Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: free(cdata[0].priv) ^ ------------------------------------------------------------ h5py/_conv.pyx:91:8: undeclared name not builtin: free Error compiling Cython file: ------------------------------------------------------------ ... return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: free(cdata[0].priv) cdata[0].priv = NULL ^ ------------------------------------------------------------ h5py/_conv.pyx:92:24: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_FREE: free(cdata[0].priv) cdata[0].priv = NULL elif command == H5T_CONV_CONV: ^ ------------------------------------------------------------ h5py/_conv.pyx:94:20: undeclared name not builtin: H5T_CONV_CONV Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: sizes = cdata[0].priv if H5Tis_variable_str(src_id): ^ ------------------------------------------------------------ h5py/_conv.pyx:98:11: undeclared name not builtin: H5Tis_variable_str Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: sizes = cdata[0].priv if H5Tis_variable_str(src_id): sizes.cset = H5Tget_cset(src_id) ^ ------------------------------------------------------------ h5py/_conv.pyx:99:25: undeclared name not builtin: H5Tget_cset Error compiling Cython file: ------------------------------------------------------------ ... if sizes[0].src_size >= sizes[0].dst_size: for i from 0<=ii>=0: op( buf + (i*sizes[0].src_size), buf + (i*sizes[0].dst_size), bkg + (i*bkg_stride), cdata[0].priv) ^ ------------------------------------------------------------ h5py/_conv.pyx:122:32: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... # offsets exclusively. for i from 0<=imalloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:26: undeclared name not builtin: malloc Error compiling Cython file: ------------------------------------------------------------ ... int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) priv[0] = sizes sizes[0].src_size = H5Tget_size(src) ^ ------------------------------------------------------------ h5py/_conv.pyx:150:24: undeclared name not builtin: H5Tget_size Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:4: undeclared name not builtin: memcpy Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:169:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:169:26: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) # When reading we identify H5T_CSET_ASCII as a byte string and # H5T_CSET_UTF8 as a utf8-encoded unicode string if sizes.cset == H5T_CSET_ASCII: ^ ------------------------------------------------------------ h5py/_conv.pyx:173:21: undeclared name not builtin: H5T_CSET_ASCII Error compiling Cython file: ------------------------------------------------------------ ... if sizes.cset == H5T_CSET_ASCII: if buf_cstring0 == NULL: temp_obj = PyBytes_FromString("") else: temp_obj = PyBytes_FromString(buf_cstring0) elif sizes.cset == H5T_CSET_UTF8: ^ ------------------------------------------------------------ h5py/_conv.pyx:178:23: undeclared name not builtin: H5T_CSET_UTF8 Error compiling Cython file: ------------------------------------------------------------ ... temp_obj = PyBytes_FromString(buf_cstring0) elif sizes.cset == H5T_CSET_UTF8: if buf_cstring0 == NULL: temp_obj = PyUnicode_DecodeUTF8("", 0, NULL) else: temp_obj = PyUnicode_DecodeUTF8(buf_cstring0, strlen(buf_cstring0), NULL) ^ ------------------------------------------------------------ h5py/_conv.pyx:182:58: undeclared name not builtin: strlen Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 will eventually overwrite this target location, so we # make sure to decref the object there. Py_XDECREF(bkg_obj0) # Write the new string object to the buffer in-place memcpy(buf_obj, &temp_obj, sizeof(temp_obj)); ^ ------------------------------------------------------------ h5py/_conv.pyx:193:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 will eventually overwrite this target location, so we # make sure to decref the object there. Py_XDECREF(bkg_obj0) # Write the new string object to the buffer in-place memcpy(buf_obj, &temp_obj, sizeof(temp_obj)); ^ ------------------------------------------------------------ h5py/_conv.pyx:193:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t temp_string_len = 0 # Not including null term cdef PyObject* buf_obj0 cdef char* buf_cstring0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:212:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t temp_string_len = 0 # Not including null term cdef PyObject* buf_obj0 cdef char* buf_cstring0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:212:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... raise TypeError("Unrecognized dataset encoding") if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:261:23: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... raise TypeError("Unrecognized dataset encoding") if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:261:23: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) memcpy(buf_cstring0, temp_string, temp_string_len+1) memcpy(buf_cstring, &buf_cstring0, sizeof(buf_cstring0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:263:15: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) memcpy(buf_cstring0, temp_string, temp_string_len+1) memcpy(buf_cstring, &buf_cstring0, sizeof(buf_cstring0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:263:28: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(src) and (not H5Tis_variable_str(dst))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:280:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(src) and (not H5Tis_variable_str(dst))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:280:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(dst) and (not H5Tis_variable_str(src))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:294:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(dst) and (not H5Tis_variable_str(src))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:294:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef char* temp_string = NULL cdef size_t temp_string_len = 0 # Without null term cdef conv_size_t *sizes = priv cdef char* buf_vlen0 memcpy(&buf_vlen0, buf_vlen, sizeof(buf_vlen0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:310:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef char* temp_string = NULL cdef size_t temp_string_len = 0 # Without null term cdef conv_size_t *sizes = priv cdef char* buf_vlen0 memcpy(&buf_vlen0, buf_vlen, sizeof(buf_vlen0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:310:23: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... temp_string_len = strlen(temp_string) if temp_string_len <= sizes[0].dst_size: # Pad with zeros memcpy(buf_fixed, temp_string, temp_string_len) memset(buf_fixed + temp_string_len, c'\0', sizes[0].dst_size - temp_string_len) ^ ------------------------------------------------------------ h5py/_conv.pyx:319:12: undeclared name not builtin: memset Error compiling Cython file: ------------------------------------------------------------ ... cdef char** buf_vlen = opt cdef char* buf_fixed = ipt cdef char* temp_string = NULL cdef conv_size_t *sizes = priv temp_string = malloc(sizes[0].src_size+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:335:18: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef char** buf_vlen = opt cdef char* buf_fixed = ipt cdef char* temp_string = NULL cdef conv_size_t *sizes = priv temp_string = malloc(sizes[0].src_size+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:335:18: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... temp_string = malloc(sizes[0].src_size+1) memcpy(temp_string, buf_fixed, sizes[0].src_size) temp_string[sizes[0].src_size] = c'\0' memcpy(buf_vlen, &temp_string, sizeof(temp_string)); ^ ------------------------------------------------------------ h5py/_conv.pyx:339:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... temp_string = malloc(sizes[0].src_size+1) memcpy(temp_string, buf_fixed, sizes[0].src_size) temp_string[sizes[0].src_size] = c'\0' memcpy(buf_vlen, &temp_string, sizeof(temp_string)); ^ ------------------------------------------------------------ h5py/_conv.pyx:339:21: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 references to Python instances of h5r.Reference cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:349:32: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() ^ ------------------------------------------------------------ h5py/_conv.pyx:351:25: 'Reference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() cdef PyObject* ref_ptr = NULL memcpy(&ref.ref.obj_ref, buf_ref, sizeof(ref.ref.obj_ref)) ^ ------------------------------------------------------------ h5py/_conv.pyx:354:11: Cannot take address of Python object attribute 'obj_ref' Error compiling Cython file: ------------------------------------------------------------ ... cdef Reference ref = Reference() cdef PyObject* ref_ptr = NULL memcpy(&ref.ref.obj_ref, buf_ref, sizeof(ref.ref.obj_ref)) ref.typecode = H5R_OBJECT ^ ------------------------------------------------------------ h5py/_conv.pyx:355:19: undeclared name not builtin: H5R_OBJECT Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:361:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:361:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2objref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:368:32: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef Reference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:375:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef Reference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:375:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): ^ ------------------------------------------------------------ h5py/_conv.pyx:379:31: 'Reference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) ^ ------------------------------------------------------------ h5py/_conv.pyx:381:15: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) memcpy(buf_ref, &ref.ref.obj_ref, sizeof(ref.ref.obj_ref)) ^ ------------------------------------------------------------ h5py/_conv.pyx:382:24: Cannot take address of Python object attribute 'obj_ref' Error compiling Cython file: ------------------------------------------------------------ ... if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) memcpy(buf_ref, &ref.ref.obj_ref, sizeof(ref.ref.obj_ref)) else: memset(buf_ref, c'\0', sizeof(hobj_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:384:48: 'hobj_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_regref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:392:37: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt cdef RegionReference ref = RegionReference() ^ ------------------------------------------------------------ h5py/_conv.pyx:394:31: 'RegionReference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef RegionReference ref = RegionReference() cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:399:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef RegionReference ref = RegionReference() cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:399:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); memcpy(ref.ref.reg_ref, buf_ref, sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:400:59: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); memcpy(ref.ref.reg_ref, buf_ref, sizeof(hdset_reg_ref_t)) ref.typecode = H5R_DATASET_REGION ^ ------------------------------------------------------------ h5py/_conv.pyx:402:19: undeclared name not builtin: H5R_DATASET_REGION Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits Py_XDECREF(bkg_obj0) memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:409:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits Py_XDECREF(bkg_obj0) memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:409:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2regref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:416:37: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef RegionReference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:423:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef RegionReference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:423:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): ^ ------------------------------------------------------------ h5py/_conv.pyx:427:31: 'RegionReference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) ^ ------------------------------------------------------------ h5py/_conv.pyx:429:15: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) memcpy(buf_ref, ref.ref.reg_ref, sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:430:63: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) memcpy(buf_ref, ref.ref.reg_ref, sizeof(hdset_reg_ref_t)) else: memset(buf_ref, c'\0', sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:432:53: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) ^ ------------------------------------------------------------ h5py/_conv.pyx:444:63: undeclared name not builtin: H5T_BKG_YES Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) ^ ------------------------------------------------------------ h5py/_conv.pyx:450:62: undeclared name not builtin: H5T_BKG_NO Error compiling Cython file: ------------------------------------------------------------ ... cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: cdef conv_enum_t *info cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:500:27: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: cdef conv_enum_t *info cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:500:27: Cannot convert 'conv_enum_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void enum_int_converter_free(H5T_cdata_t *cdata): cdef conv_enum_t *info info = cdata[0].priv free(info) ^ ------------------------------------------------------------ h5py/_conv.pyx:508:9: Cannot convert 'conv_enum_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void enum_int_converter_free(H5T_cdata_t *cdata): cdef conv_enum_t *info info = cdata[0].priv free(info) cdata[0].priv = NULL ^ ------------------------------------------------------------ h5py/_conv.pyx:509:20: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv try: if forward: supertype = H5Tget_super(src) ^ ------------------------------------------------------------ h5py/_conv.pyx:527:24: undeclared name not builtin: H5Tget_super Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv try: if forward: supertype = H5Tget_super(src) identical = H5Tequal(supertype, dst) ^ ------------------------------------------------------------ h5py/_conv.pyx:528:24: undeclared name not builtin: H5Tequal Error compiling Cython file: ------------------------------------------------------------ ... return 0 if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:540:16: undeclared name not builtin: H5Tconvert Error compiling Cython file: ------------------------------------------------------------ ... return 0 if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:540:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) else: H5Tconvert(src, supertype, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:542:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if info[0].src_size > info[0].dst_size: nalloc = info[0].src_size*nl else: nalloc = info[0].dst_size*nl cbuf = malloc(nalloc) ^ ------------------------------------------------------------ h5py/_conv.pyx:550:19: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... if info[0].src_size > info[0].dst_size: nalloc = info[0].src_size*nl else: nalloc = info[0].dst_size*nl cbuf = malloc(nalloc) ^ ------------------------------------------------------------ h5py/_conv.pyx:550:19: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... for i from 0<=i 0: H5Tclose(supertype) ^ ------------------------------------------------------------ h5py/_conv.pyx:571:12: undeclared name not builtin: H5Tclose Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:11: undeclared name not builtin: H5Tget_class Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:35: undeclared name not builtin: H5T_VLEN Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:71: undeclared name not builtin: H5T_OPAQUE Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter supertype = typewrap(H5Tget_super(src_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:637:20: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter supertype = typewrap(H5Tget_super(src_id)) dt = supertype.dtype outtype = py_create(dt) ^ ------------------------------------------------------------ h5py/_conv.pyx:639:18: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef PyObject* ndarray_obj cdef vlen_t in_vlen0 memcpy(&in_vlen0, in_vlen, sizeof(in_vlen0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:688:11: Cannot convert 'vlen_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef PyObject* ndarray_obj cdef vlen_t in_vlen0 memcpy(&in_vlen0, in_vlen, sizeof(in_vlen0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:688:22: Cannot convert 'vlen_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:64: undeclared name not builtin: H5P_DEFAULT Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:58: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ndarray_obj = ndarray Py_INCREF(ndarray_obj) # Write the new object to the buffer in-place in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) ^ ------------------------------------------------------------ h5py/_conv.pyx:705:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ndarray_obj = ndarray Py_INCREF(ndarray_obj) # Write the new object to the buffer in-place in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) ^ ------------------------------------------------------------ h5py/_conv.pyx:705:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: ^ ------------------------------------------------------------ h5py/_conv.pyx:727:32: 'H5PY_OBJ' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:729:20: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:731:19: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:731:37: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) if supertype != py_create(( pdata_elem).dtype, 1): ^ ------------------------------------------------------------ h5py/_conv.pyx:732:28: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:744:15: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:744:28: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) supertype = py_create(( pdata_elem).dtype) ^ ------------------------------------------------------------ h5py/_conv.pyx:745:20: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) supertype = py_create(( pdata_elem).dtype) outtype = typewrap(H5Tget_super(dst_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:746:18: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef size_t len cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:791:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef size_t len cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:791:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ndarray = buf_obj0 len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:796:21: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ndarray = buf_obj0 len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:796:21: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:798:21: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:798:21: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:799:11: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:800:43: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:800:49: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) ^ ------------------------------------------------------------ h5py/_conv.pyx:802:11: Cannot convert 'size_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) ^ ------------------------------------------------------------ h5py/_conv.pyx:802:28: Cannot convert 'size_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) memcpy(&in_vlen[0].ptr, &data, sizeof(data)) ^ ------------------------------------------------------------ h5py/_conv.pyx:803:11: Cannot convert 'void **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) memcpy(&in_vlen[0].ptr, &data, sizeof(data)) ^ ------------------------------------------------------------ h5py/_conv.pyx:803:28: Cannot convert 'void **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) ^ ------------------------------------------------------------ h5py/_conv.pyx:816:15: undeclared name not builtin: H5Tcopy Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) ^ ------------------------------------------------------------ h5py/_conv.pyx:816:23: undeclared name not builtin: H5T_C_S1 Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) ^ ------------------------------------------------------------ h5py/_conv.pyx:817:4: undeclared name not builtin: H5Tset_size Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) ^ ------------------------------------------------------------ h5py/_conv.pyx:817:26: undeclared name not builtin: H5T_VARIABLE Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:819:11: undeclared name not builtin: H5Tenum_create Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:819:26: undeclared name not builtin: H5T_STD_I32LE Error compiling Cython file: ------------------------------------------------------------ ... vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) vlentype = H5Tvlen_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:821:15: undeclared name not builtin: H5Tvlen_create Error compiling Cython file: ------------------------------------------------------------ ... enum = H5Tenum_create(H5T_STD_I32LE) vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ ^ ------------------------------------------------------------ h5py/_conv.pyx:823:12: 'H5PY_OBJ' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:4: undeclared name not builtin: H5Tregister Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:16: undeclared name not builtin: H5T_PERS_HARD Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:60: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:826:60: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:828:16: undeclared name not builtin: H5T_PERS_SOFT Error compiling Cython file: ------------------------------------------------------------ ... pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:828:65: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:829:65: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:831:47: undeclared name not builtin: H5T_STD_REF_OBJ Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:831:71: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) ^ ------------------------------------------------------------ h5py/_conv.pyx:832:71: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:834:47: undeclared name not builtin: H5T_STD_REF_DSETREG Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:834:75: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) ^ ------------------------------------------------------------ h5py/_conv.pyx:835:75: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) ^ ------------------------------------------------------------ h5py/_conv.pyx:837:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) ^ ------------------------------------------------------------ h5py/_conv.pyx:838:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) H5Tregister(H5T_PERS_SOFT, "vlen2ndarray", vlentype, pyobj, vlen2ndarray) ^ ------------------------------------------------------------ h5py/_conv.pyx:840:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) H5Tregister(H5T_PERS_SOFT, "vlen2ndarray", vlentype, pyobj, vlen2ndarray) H5Tregister(H5T_PERS_SOFT, "ndarray2vlen", pyobj, vlentype, ndarray2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:841:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:851:4: undeclared name not builtin: H5Tunregister Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:851:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:852:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:854:55: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:855:55: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:857:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) ^ ------------------------------------------------------------ h5py/_conv.pyx:858:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:860:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) ^ ------------------------------------------------------------ h5py/_conv.pyx:861:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) ^ ------------------------------------------------------------ h5py/_conv.pyx:863:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) ^ ------------------------------------------------------------ h5py/_conv.pyx:864:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) H5Tunregister(H5T_PERS_SOFT, "vlen2ndarray", -1, -1, vlen2ndarray) ^ ------------------------------------------------------------ h5py/_conv.pyx:866:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) H5Tunregister(H5T_PERS_SOFT, "vlen2ndarray", -1, -1, vlen2ndarray) H5Tunregister(H5T_PERS_SOFT, "ndarray2vlen", -1, -1, ndarray2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:867:57: Cannot convert '' to Python object Traceback (most recent call last): File "setup.py", line 168, in cmdclass = CMDCLASS, File "build/bdist.linux-x86_64/egg/setuptools/__init__.py", line 129, in setup File "/Users/gcheng6/pylith/lib/python2.7/distutils/core.py", line 151, in setup dist.run_commands() File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 953, in run_commands self.run_command(cmd) File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 972, in run_command cmd_obj.run() File "/Users/gcheng6/pylith/lib/python2.7/distutils/command/build.py", line 127, in run self.run_command(cmd_name) File "/Users/gcheng6/pylith/lib/python2.7/distutils/cmd.py", line 326, in run_command self.distribution.run_command(command) File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 972, in run_command cmd_obj.run() File "/Users/gcheng6/build/pylith/h5py-2.9.0/setup_build.py", line 203, in run force=config.rebuild_required or self.force) File "/Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Build/Dependencies.py", line 1110, in cythonize cythonize_one(*args) File "/Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Build/Dependencies.py", line 1277, in cythonize_one raise CompileError(None, pyx_file) Cython.Compiler.Errors.CompileError: /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pyx make[1]: *** [h5py] Error 1 make[1]: Leaving directory `/Users/gcheng6/build/pylith' make: *** [installed_h5py] Error 2 [gcheng6@argon-itf-login-3 pylith]$ make[1]: Entering directory `/Users/gcheng6/build/pylith' > make swig > make[2]: Entering directory `/Users/gcheng6/build/pylith' > swig not required. Skipping installation. > touch /Users/gcheng6/build/pylith/installed_swig > make[2]: Leaving directory `/Users/gcheng6/build/pylith' -bash: command substitution: line 1: unexpected EOF while looking for matching `'' -bash: command substitution: line 4: syntax error: unexpected end of file bash: make[1]:: command not found... [gcheng6@argon-itf-login-3 pylith]$ make netcdf netcdf already installed. Skipping installation. touch /Users/gcheng6/build/pylith/installed_netcdf [gcheng6@argon-itf-login-3 pylith]$ make[2]: Entering directory `/Users/gcheng6/build/pylith' > make hdf5 > make[3]: Entering directory `/Users/gcheng6/build/pylith' > make mpi > make[4]: Entering directory `/Users/gcheng6/build/pylith' -bash: command substitution: line 1: unexpected EOF while looking for matching `'' -bash: command substitution: line 4: syntax error: unexpected end of file bash: make[2]:: command not found... [gcheng6@argon-itf-login-3 pylith]$ mpi already installed. Skipping installation. bash: mpi: command not found... [gcheng6@argon-itf-login-3 pylith]$ touch /Users/gcheng6/build/pylith/installed_mpi [gcheng6@argon-itf-login-3 pylith]$ make[4]: Leaving directory `/Users/gcheng6/build/pylith' > hdf5 already installed. Skipping installation. > touch /Users/gcheng6/build/pylith/installed_hdf5 > make[3]: Leaving directory `/Users/gcheng6/build/pylith' > netcdf already installed. Skipping installation. > touch /Users/gcheng6/build/pylith/installed_netcdf > make[2]: Leaving directory `/Users/gcheng6/build/pylith' -bash: command substitution: line 1: unexpected EOF while looking for matching `'' -bash: command substitution: line 5: syntax error: unexpected end of file bash: make[4]:: command not found... [gcheng6@argon-itf-login-3 pylith]$ make h5py /Users/gcheng6/src/pylith/pylith-installer-2.2.2-0/bin/fetch.sh "/usr/bin/wget -nd -r -O" h5py-2.9.0.tar.gz http://geoweb.cse.ucdavis.edu/~buildbot/deps Found local copy of h5py-2.9.0.tar.gz. /usr/bin/tar -zxf h5py-2.9.0.tar.gz cd h5py-2.9.0 && \ python setup.py configure --hdf5=/Users/gcheng6/pylith && \ CC=mpicc CPPFLAGS="-I/Users/gcheng6/pylith/include -I/Users/gcheng6/pylith/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/include -I/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/include" LDFLAGS="-L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/Users/gcheng6/pylith/lib -L/Users/gcheng6/pylith/lib64 -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/hdf5-1.10.6/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/netcdf-cxx-4.2/lib -L/usr/share/apps/2020.2/base_arch/gcc-5.4.0/openssl-1.1.1g/lib" CFLAGS="-g -O2" CXXFLAGS="-g -O2 -DMPICH_IGNORE_CXX_SEEK" FCFLAGS="" python setup.py build && \ python setup.py install --prefix=/Users/gcheng6/pylith && \ touch /Users/gcheng6/build/pylith/installed_h5py running configure Autodetected HDF5 1.10.6 ******************************************************************************** Summary of the h5py configuration Path to HDF5: '/Users/gcheng6/pylith' HDF5 Version: '1.10.6' MPI Enabled: False Rebuild Required: True ******************************************************************************** running build running build_py running build_ext Autodetected HDF5 1.10.6 ******************************************************************************** Summary of the h5py configuration Path to HDF5: '/Users/gcheng6/pylith' HDF5 Version: '1.10.6' MPI Enabled: False Rebuild Required: True ******************************************************************************** Executing cythonize() [ 1/22] Cythonizing /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pyx /Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Compiler/Main.py:344: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pxd tree = Parsing.p_module(s, pxd, full_module_name) Error compiling Cython file: ------------------------------------------------------------ ... # Copyright 2008-2013 Andrew Collette and contributors # # License: Standard 3-clause BSD; see "license.txt" for full license terms # and contributor agreement. from defs cimport * ^ ------------------------------------------------------------ h5py/_conv.pxd:10:0: 'defs.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/Reference.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/RegionReference.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/hobj_ref_t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t ^ ------------------------------------------------------------ h5py/_conv.pyx:16:0: 'h5r/hdset_reg_ref_t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/H5PY_OBJ.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/typewrap.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/py_create.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... """ Low-level type-conversion routines. """ from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^ ------------------------------------------------------------ h5py/_conv.pyx:17:0: 'h5t/TypeID.pxd' not found Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:9: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... PyTypeObject PyArray_Type object PyArray_NewFromDescr(PyTypeObject* subtype, np.dtype descr, int nd, np.npy_intp* dims, np.npy_intp* strides, void* data, int flags, object obj) ctypedef int (*conv_operator_t)(void* ipt, void* opt, void* bkg, void* priv) except -1 ctypedef herr_t (*init_operator_t)(hid_t src, hid_t dst, void** priv) except -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:61:46: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:30: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # repeat all the conversion boilerplate for every single callback. # # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:72:58: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # While this is somewhat slower than a custom function, the added overhead is # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, conv_operator_t op, ^ ------------------------------------------------------------ h5py/_conv.pyx:74:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # likely small compared to the cost of the Python-side API calls required to # implement the conversions. cdef herr_t generic_converter(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, conv_operator_t op, init_operator_t initop, H5T_bkg_t need_bkg) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:75:44: 'H5T_bkg_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... ctypedef struct conv_size_t: size_t src_size size_t dst_size int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:145:36: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:28: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... Py_XDECREF(temp_encoded) # ============================================================================= # VLEN to fixed-width strings cdef herr_t init_vlen2fixed(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:273:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:28: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... sizes[0].src_size = H5Tget_size(src) sizes[0].dst_size = H5Tget_size(dst) return 0 cdef herr_t init_fixed2vlen(hid_t src, hid_t dst, void** priv) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:287:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:440:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # Conversion functions cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:442:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:446:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:448:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:23: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:37: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:452:51: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) cdef herr_t vlen2fixed(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:454:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:23: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:37: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:458:51: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2fixed, init_vlen2fixed, H5T_BKG_NO) cdef herr_t fixed2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:460:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:464:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_fixed2vlen, init_fixed2vlen, H5T_BKG_NO) cdef herr_t objref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:466:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:470:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_objref2pyref, init_generic, H5T_BKG_NO) cdef herr_t pyref2objref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:472:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:476:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_pyref2objref, init_generic, H5T_BKG_NO) cdef herr_t regref2pyref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:478:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:482:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_regref2pyref, init_generic, H5T_BKG_YES) cdef herr_t pyref2regref(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:484:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, ^ ------------------------------------------------------------ h5py/_conv.pyx:495:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, ^ ------------------------------------------------------------ h5py/_conv.pyx:495:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct conv_enum_t: size_t src_size size_t dst_size cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: ^ ------------------------------------------------------------ h5py/_conv.pyx:496:33: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) info[0].src_size = H5Tget_size(src) info[0].dst_size = H5Tget_size(dst) cdef void enum_int_converter_free(H5T_cdata_t *cdata): ^ ------------------------------------------------------------ h5py/_conv.pyx:504:34: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv free(info) cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:512:55: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].priv = NULL cdef int enum_int_converter_conv(hid_t src, hid_t dst, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, int forward) except -1 with gil: ^ ------------------------------------------------------------ h5py/_conv.pyx:514:46: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:31: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:42: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:577:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # Direction ("forward"): 1 = enum to int, 0 = int to enum cdef herr_t enum_int_converter(hid_t src, hid_t dst, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl, int forward) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:579:44: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return -2 return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:596:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef herr_t enum2int(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:598:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:21: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:35: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:602:49: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return enum_int_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, 1) cdef herr_t int2enum(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:604:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... buf_i, bkg_i, dxpl, 0) # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:611:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= # ndarray to VLEN routines cdef herr_t vlen2ndarray(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:613:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct vlen_t: size_t len void* ptr cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:677:8: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef struct vlen_t: size_t len void* ptr cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:677:23: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:5: 'herr_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:25: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:39: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, ^ ------------------------------------------------------------ h5py/_conv.pyx:709:53: 'H5T_cdata_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef herr_t ndarray2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:711:33: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:780:8: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^ ------------------------------------------------------------ h5py/_conv.pyx:780:23: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 references to Python instances of h5r.Reference cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:349:9: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() ^ ------------------------------------------------------------ h5py/_conv.pyx:351:9: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2objref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:368:9: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt cdef object obj cdef Reference ref ^ ------------------------------------------------------------ h5py/_conv.pyx:371:9: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_regref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:392:9: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt cdef RegionReference ref = RegionReference() ^ ------------------------------------------------------------ h5py/_conv.pyx:394:9: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2regref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:416:9: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt cdef object obj cdef RegionReference ref ^ ------------------------------------------------------------ h5py/_conv.pyx:419:9: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t nalloc cdef int i cdef char* cbuf = NULL cdef char* buf = buf_i cdef int identical cdef hid_t supertype = -1 ^ ------------------------------------------------------------ h5py/_conv.pyx:521:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype ^ ------------------------------------------------------------ h5py/_conv.pyx:617:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype cdef TypeID outtype ^ ------------------------------------------------------------ h5py/_conv.pyx:618:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype ^ ------------------------------------------------------------ h5py/_conv.pyx:715:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... void *bkg_i, hid_t dxpl) except -1: cdef int command = cdata[0].command cdef size_t src_size, dst_size cdef TypeID supertype cdef TypeID outtype ^ ------------------------------------------------------------ h5py/_conv.pyx:716:9: 'TypeID' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= cpdef int register_converters() except -1: cdef hid_t vlstring ^ ------------------------------------------------------------ h5py/_conv.pyx:811:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... # ============================================================================= cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype ^ ------------------------------------------------------------ h5py/_conv.pyx:812:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj ^ ------------------------------------------------------------ h5py/_conv.pyx:813:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cpdef int register_converters() except -1: cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum ^ ------------------------------------------------------------ h5py/_conv.pyx:814:9: 'hid_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int i cdef char* buf = buf_i cdef char* bkg = bkg_i if command == H5T_CONV_INIT: ^ ------------------------------------------------------------ h5py/_conv.pyx:84:18: undeclared name not builtin: H5T_CONV_INIT Error compiling Cython file: ------------------------------------------------------------ ... cdef char* bkg = bkg_i if command == H5T_CONV_INIT: cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) ^ ------------------------------------------------------------ h5py/_conv.pyx:87:38: Cannot take address of Python object attribute 'priv' Error compiling Cython file: ------------------------------------------------------------ ... if command == H5T_CONV_INIT: cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: ^ ------------------------------------------------------------ h5py/_conv.pyx:89:20: undeclared name not builtin: H5T_CONV_FREE Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = need_bkg return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: free(cdata[0].priv) ^ ------------------------------------------------------------ h5py/_conv.pyx:91:8: undeclared name not builtin: free Error compiling Cython file: ------------------------------------------------------------ ... return initop(src_id, dst_id, &(cdata[0].priv)) elif command == H5T_CONV_FREE: free(cdata[0].priv) cdata[0].priv = NULL ^ ------------------------------------------------------------ h5py/_conv.pyx:92:24: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_FREE: free(cdata[0].priv) cdata[0].priv = NULL elif command == H5T_CONV_CONV: ^ ------------------------------------------------------------ h5py/_conv.pyx:94:20: undeclared name not builtin: H5T_CONV_CONV Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: sizes = cdata[0].priv if H5Tis_variable_str(src_id): ^ ------------------------------------------------------------ h5py/_conv.pyx:98:11: undeclared name not builtin: H5Tis_variable_str Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: sizes = cdata[0].priv if H5Tis_variable_str(src_id): sizes.cset = H5Tget_cset(src_id) ^ ------------------------------------------------------------ h5py/_conv.pyx:99:25: undeclared name not builtin: H5Tget_cset Error compiling Cython file: ------------------------------------------------------------ ... if sizes[0].src_size >= sizes[0].dst_size: for i from 0<=ii>=0: op( buf + (i*sizes[0].src_size), buf + (i*sizes[0].dst_size), bkg + (i*bkg_stride), cdata[0].priv) ^ ------------------------------------------------------------ h5py/_conv.pyx:122:32: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... # offsets exclusively. for i from 0<=imalloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:26: undeclared name not builtin: malloc Error compiling Cython file: ------------------------------------------------------------ ... int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... int cset cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:148:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t init_generic(hid_t src, hid_t dst, void** priv) except -1: cdef conv_size_t *sizes sizes = malloc(sizeof(conv_size_t)) priv[0] = sizes sizes[0].src_size = H5Tget_size(src) ^ ------------------------------------------------------------ h5py/_conv.pyx:150:24: undeclared name not builtin: H5Tget_size Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:4: undeclared name not builtin: memcpy Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* temp_obj = NULL cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:168:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:169:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes = priv cdef PyObject* bkg_obj0 cdef char* buf_cstring0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:169:26: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)) memcpy(&buf_cstring0, buf_cstring, sizeof(buf_cstring0)) # When reading we identify H5T_CSET_ASCII as a byte string and # H5T_CSET_UTF8 as a utf8-encoded unicode string if sizes.cset == H5T_CSET_ASCII: ^ ------------------------------------------------------------ h5py/_conv.pyx:173:21: undeclared name not builtin: H5T_CSET_ASCII Error compiling Cython file: ------------------------------------------------------------ ... if sizes.cset == H5T_CSET_ASCII: if buf_cstring0 == NULL: temp_obj = PyBytes_FromString("") else: temp_obj = PyBytes_FromString(buf_cstring0) elif sizes.cset == H5T_CSET_UTF8: ^ ------------------------------------------------------------ h5py/_conv.pyx:178:23: undeclared name not builtin: H5T_CSET_UTF8 Error compiling Cython file: ------------------------------------------------------------ ... temp_obj = PyBytes_FromString(buf_cstring0) elif sizes.cset == H5T_CSET_UTF8: if buf_cstring0 == NULL: temp_obj = PyUnicode_DecodeUTF8("", 0, NULL) else: temp_obj = PyUnicode_DecodeUTF8(buf_cstring0, strlen(buf_cstring0), NULL) ^ ------------------------------------------------------------ h5py/_conv.pyx:182:58: undeclared name not builtin: strlen Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 will eventually overwrite this target location, so we # make sure to decref the object there. Py_XDECREF(bkg_obj0) # Write the new string object to the buffer in-place memcpy(buf_obj, &temp_obj, sizeof(temp_obj)); ^ ------------------------------------------------------------ h5py/_conv.pyx:193:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 will eventually overwrite this target location, so we # make sure to decref the object there. Py_XDECREF(bkg_obj0) # Write the new string object to the buffer in-place memcpy(buf_obj, &temp_obj, sizeof(temp_obj)); ^ ------------------------------------------------------------ h5py/_conv.pyx:193:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t temp_string_len = 0 # Not including null term cdef PyObject* buf_obj0 cdef char* buf_cstring0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:212:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef size_t temp_string_len = 0 # Not including null term cdef PyObject* buf_obj0 cdef char* buf_cstring0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:212:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... raise TypeError("Unrecognized dataset encoding") if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:261:23: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... raise TypeError("Unrecognized dataset encoding") if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:261:23: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) memcpy(buf_cstring0, temp_string, temp_string_len+1) memcpy(buf_cstring, &buf_cstring0, sizeof(buf_cstring0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:263:15: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if strlen(temp_string) != temp_string_len: raise ValueError("VLEN strings do not support embedded NULLs") buf_cstring0 = malloc(temp_string_len+1) memcpy(buf_cstring0, temp_string, temp_string_len+1) memcpy(buf_cstring, &buf_cstring0, sizeof(buf_cstring0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:263:28: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(src) and (not H5Tis_variable_str(dst))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:280:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(src) and (not H5Tis_variable_str(dst))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:280:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(dst) and (not H5Tis_variable_str(src))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:294:12: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef conv_size_t *sizes if not (H5Tis_variable_str(dst) and (not H5Tis_variable_str(src))): return -2 sizes = malloc(sizeof(conv_size_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:294:12: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... cdef char* temp_string = NULL cdef size_t temp_string_len = 0 # Without null term cdef conv_size_t *sizes = priv cdef char* buf_vlen0 memcpy(&buf_vlen0, buf_vlen, sizeof(buf_vlen0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:310:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef char* temp_string = NULL cdef size_t temp_string_len = 0 # Without null term cdef conv_size_t *sizes = priv cdef char* buf_vlen0 memcpy(&buf_vlen0, buf_vlen, sizeof(buf_vlen0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:310:23: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... temp_string_len = strlen(temp_string) if temp_string_len <= sizes[0].dst_size: # Pad with zeros memcpy(buf_fixed, temp_string, temp_string_len) memset(buf_fixed + temp_string_len, c'\0', sizes[0].dst_size - temp_string_len) ^ ------------------------------------------------------------ h5py/_conv.pyx:319:12: undeclared name not builtin: memset Error compiling Cython file: ------------------------------------------------------------ ... cdef char** buf_vlen = opt cdef char* buf_fixed = ipt cdef char* temp_string = NULL cdef conv_size_t *sizes = priv temp_string = malloc(sizes[0].src_size+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:335:18: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef char** buf_vlen = opt cdef char* buf_fixed = ipt cdef char* temp_string = NULL cdef conv_size_t *sizes = priv temp_string = malloc(sizes[0].src_size+1) ^ ------------------------------------------------------------ h5py/_conv.pyx:335:18: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... temp_string = malloc(sizes[0].src_size+1) memcpy(temp_string, buf_fixed, sizes[0].src_size) temp_string[sizes[0].src_size] = c'\0' memcpy(buf_vlen, &temp_string, sizeof(temp_string)); ^ ------------------------------------------------------------ h5py/_conv.pyx:339:11: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... temp_string = malloc(sizes[0].src_size+1) memcpy(temp_string, buf_fixed, sizes[0].src_size) temp_string[sizes[0].src_size] = c'\0' memcpy(buf_vlen, &temp_string, sizeof(temp_string)); ^ ------------------------------------------------------------ h5py/_conv.pyx:339:21: Cannot convert 'char **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... # HDF5 references to Python instances of h5r.Reference cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:349:32: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_objref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() ^ ------------------------------------------------------------ h5py/_conv.pyx:351:25: 'Reference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef hobj_ref_t* buf_ref = ipt cdef Reference ref = Reference() cdef PyObject* ref_ptr = NULL memcpy(&ref.ref.obj_ref, buf_ref, sizeof(ref.ref.obj_ref)) ^ ------------------------------------------------------------ h5py/_conv.pyx:354:11: Cannot take address of Python object attribute 'obj_ref' Error compiling Cython file: ------------------------------------------------------------ ... cdef Reference ref = Reference() cdef PyObject* ref_ptr = NULL memcpy(&ref.ref.obj_ref, buf_ref, sizeof(ref.ref.obj_ref)) ref.typecode = H5R_OBJECT ^ ------------------------------------------------------------ h5py/_conv.pyx:355:19: undeclared name not builtin: H5R_OBJECT Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:361:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:361:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2objref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hobj_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:368:32: 'hobj_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef Reference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:375:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef Reference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:375:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): ^ ------------------------------------------------------------ h5py/_conv.pyx:379:31: 'Reference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) ^ ------------------------------------------------------------ h5py/_conv.pyx:381:15: 'Reference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) memcpy(buf_ref, &ref.ref.obj_ref, sizeof(ref.ref.obj_ref)) ^ ------------------------------------------------------------ h5py/_conv.pyx:382:24: Cannot take address of Python object attribute 'obj_ref' Error compiling Cython file: ------------------------------------------------------------ ... if not isinstance(obj, Reference): raise TypeError("Can't convert incompatible object to HDF5 object reference") ref = (buf_obj0) memcpy(buf_ref, &ref.ref.obj_ref, sizeof(ref.ref.obj_ref)) else: memset(buf_ref, c'\0', sizeof(hobj_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:384:48: 'hobj_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef int conv_regref2pyref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt ^ ------------------------------------------------------------ h5py/_conv.pyx:392:37: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject** buf_obj = opt cdef PyObject** bkg_obj = bkg cdef hdset_reg_ref_t* buf_ref = ipt cdef RegionReference ref = RegionReference() ^ ------------------------------------------------------------ h5py/_conv.pyx:394:31: 'RegionReference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef RegionReference ref = RegionReference() cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:399:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef RegionReference ref = RegionReference() cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:399:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* ref_ptr = NULL cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); memcpy(ref.ref.reg_ref, buf_ref, sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:400:59: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef PyObject* bkg_obj0 memcpy(&bkg_obj0, bkg_obj, sizeof(bkg_obj0)); memcpy(ref.ref.reg_ref, buf_ref, sizeof(hdset_reg_ref_t)) ref.typecode = H5R_DATASET_REGION ^ ------------------------------------------------------------ h5py/_conv.pyx:402:19: undeclared name not builtin: H5R_DATASET_REGION Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits Py_XDECREF(bkg_obj0) memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:409:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ref_ptr = ref Py_INCREF(ref_ptr) # because Cython discards its reference when the # function exits Py_XDECREF(bkg_obj0) memcpy(buf_obj, &ref_ptr, sizeof(ref_ptr)) ^ ------------------------------------------------------------ h5py/_conv.pyx:409:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cdef int conv_pyref2regref(void* ipt, void* opt, void* bkg, void* priv) except -1: cdef PyObject** buf_obj = ipt cdef hdset_reg_ref_t* buf_ref = opt ^ ------------------------------------------------------------ h5py/_conv.pyx:416:37: 'hdset_reg_ref_t' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef RegionReference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:423:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef object obj cdef RegionReference ref cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); ^ ------------------------------------------------------------ h5py/_conv.pyx:423:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)); if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): ^ ------------------------------------------------------------ h5py/_conv.pyx:427:31: 'RegionReference' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) ^ ------------------------------------------------------------ h5py/_conv.pyx:429:15: 'RegionReference' is not a type identifier Error compiling Cython file: ------------------------------------------------------------ ... if buf_obj0 != NULL and buf_obj0 != Py_None: obj = (buf_obj0) if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) memcpy(buf_ref, ref.ref.reg_ref, sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:430:63: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if not isinstance(obj, RegionReference): raise TypeError("Can't convert incompatible object to HDF5 region reference") ref = (buf_obj0) memcpy(buf_ref, ref.ref.reg_ref, sizeof(hdset_reg_ref_t)) else: memset(buf_ref, c'\0', sizeof(hdset_reg_ref_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:432:53: 'hdset_reg_ref_t' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t vlen2str(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_vlen2str, init_generic, H5T_BKG_YES) ^ ------------------------------------------------------------ h5py/_conv.pyx:444:63: undeclared name not builtin: H5T_BKG_YES Error compiling Cython file: ------------------------------------------------------------ ... cdef herr_t str2vlen(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1: return generic_converter(src_id, dst_id, cdata, nl, buf_stride, bkg_stride, buf_i, bkg_i, dxpl, conv_str2vlen, init_generic, H5T_BKG_NO) ^ ------------------------------------------------------------ h5py/_conv.pyx:450:62: undeclared name not builtin: H5T_BKG_NO Error compiling Cython file: ------------------------------------------------------------ ... cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: cdef conv_enum_t *info cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:500:27: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... cdef int enum_int_converter_init(hid_t src, hid_t dst, H5T_cdata_t *cdata, int forward) except -1 with gil: cdef conv_enum_t *info cdata[0].need_bkg = H5T_BKG_NO cdata[0].priv = info = malloc(sizeof(conv_enum_t)) ^ ------------------------------------------------------------ h5py/_conv.pyx:500:27: Cannot convert 'conv_enum_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void enum_int_converter_free(H5T_cdata_t *cdata): cdef conv_enum_t *info info = cdata[0].priv free(info) ^ ------------------------------------------------------------ h5py/_conv.pyx:508:9: Cannot convert 'conv_enum_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void enum_int_converter_free(H5T_cdata_t *cdata): cdef conv_enum_t *info info = cdata[0].priv free(info) cdata[0].priv = NULL ^ ------------------------------------------------------------ h5py/_conv.pyx:509:20: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv try: if forward: supertype = H5Tget_super(src) ^ ------------------------------------------------------------ h5py/_conv.pyx:527:24: undeclared name not builtin: H5Tget_super Error compiling Cython file: ------------------------------------------------------------ ... info = cdata[0].priv try: if forward: supertype = H5Tget_super(src) identical = H5Tequal(supertype, dst) ^ ------------------------------------------------------------ h5py/_conv.pyx:528:24: undeclared name not builtin: H5Tequal Error compiling Cython file: ------------------------------------------------------------ ... return 0 if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:540:16: undeclared name not builtin: H5Tconvert Error compiling Cython file: ------------------------------------------------------------ ... return 0 if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:540:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if buf_stride == 0: # Contiguous case: call H5Tconvert directly if forward: H5Tconvert(supertype, dst, nl, buf, NULL, dxpl) else: H5Tconvert(src, supertype, nl, buf, NULL, dxpl) ^ ------------------------------------------------------------ h5py/_conv.pyx:542:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if info[0].src_size > info[0].dst_size: nalloc = info[0].src_size*nl else: nalloc = info[0].dst_size*nl cbuf = malloc(nalloc) ^ ------------------------------------------------------------ h5py/_conv.pyx:550:19: Casting temporary Python object to non-numeric non-Python type Error compiling Cython file: ------------------------------------------------------------ ... if info[0].src_size > info[0].dst_size: nalloc = info[0].src_size*nl else: nalloc = info[0].dst_size*nl cbuf = malloc(nalloc) ^ ------------------------------------------------------------ h5py/_conv.pyx:550:19: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... for i from 0<=i 0: H5Tclose(supertype) ^ ------------------------------------------------------------ h5py/_conv.pyx:571:12: undeclared name not builtin: H5Tclose Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:11: undeclared name not builtin: H5Tget_class Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:35: undeclared name not builtin: H5T_VLEN Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if H5Tget_class(src_id) != H5T_VLEN or H5Tget_class(dst_id) != H5T_OPAQUE: ^ ------------------------------------------------------------ h5py/_conv.pyx:627:71: undeclared name not builtin: H5T_OPAQUE Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter supertype = typewrap(H5Tget_super(src_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:637:20: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter supertype = typewrap(H5Tget_super(src_id)) dt = supertype.dtype outtype = py_create(dt) ^ ------------------------------------------------------------ h5py/_conv.pyx:639:18: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef PyObject* ndarray_obj cdef vlen_t in_vlen0 memcpy(&in_vlen0, in_vlen, sizeof(in_vlen0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:688:11: Cannot convert 'vlen_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef PyObject* ndarray_obj cdef vlen_t in_vlen0 memcpy(&in_vlen0, in_vlen, sizeof(in_vlen0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:688:22: Cannot convert 'vlen_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:64: undeclared name not builtin: H5P_DEFAULT Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:52: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... dims[0] = in_vlen0.len data = in_vlen0.ptr if outtype.get_size() > intype.get_size(): data = realloc(data, outtype.get_size() * in_vlen0.len) H5Tconvert(intype.id, outtype.id, in_vlen0.len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:694:58: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ndarray_obj = ndarray Py_INCREF(ndarray_obj) # Write the new object to the buffer in-place in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) ^ ------------------------------------------------------------ h5py/_conv.pyx:705:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... ndarray_obj = ndarray Py_INCREF(ndarray_obj) # Write the new object to the buffer in-place in_vlen0.ptr = NULL memcpy(buf_obj, &ndarray_obj, sizeof(ndarray_obj)) ^ ------------------------------------------------------------ h5py/_conv.pyx:705:20: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef char* buf = buf_i if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: ^ ------------------------------------------------------------ h5py/_conv.pyx:727:32: 'H5PY_OBJ' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... if command == H5T_CONV_INIT: cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:729:20: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:731:19: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdata[0].need_bkg = H5T_BKG_NO if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:731:37: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) if supertype != py_create(( pdata_elem).dtype, 1): ^ ------------------------------------------------------------ h5py/_conv.pyx:732:28: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:744:15: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... pass elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) ^ ------------------------------------------------------------ h5py/_conv.pyx:744:28: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) supertype = py_create(( pdata_elem).dtype) ^ ------------------------------------------------------------ h5py/_conv.pyx:745:20: 'py_create' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... elif command == H5T_CONV_CONV: # need to pass element dtype to converter memcpy(&pdata_elem, pdata, sizeof(pdata_elem)) supertype = py_create(( pdata_elem).dtype) outtype = typewrap(H5Tget_super(dst_id)) ^ ------------------------------------------------------------ h5py/_conv.pyx:746:18: 'typewrap' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef size_t len cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:791:11: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef void* data cdef np.ndarray ndarray cdef size_t len cdef PyObject* buf_obj0 memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ^ ------------------------------------------------------------ h5py/_conv.pyx:791:22: Cannot convert 'PyObject **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ndarray = buf_obj0 len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:796:21: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... memcpy(&buf_obj0, buf_obj, sizeof(buf_obj0)) ndarray = buf_obj0 len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:796:21: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:798:21: Cannot convert Python object to 'void *' Error compiling Cython file: ------------------------------------------------------------ ... len = ndarray.shape[0] if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:798:21: Storing unsafe C derivative of temporary Python reference Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) ^ ------------------------------------------------------------ h5py/_conv.pyx:799:11: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:800:43: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... if outtype.get_size() > intype.get_size(): data = malloc(outtype.get_size() * len) else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) ^ ------------------------------------------------------------ h5py/_conv.pyx:800:49: Cannot convert 'void *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) ^ ------------------------------------------------------------ h5py/_conv.pyx:802:11: Cannot convert 'size_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... else: data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) ^ ------------------------------------------------------------ h5py/_conv.pyx:802:28: Cannot convert 'size_t *' to Python object Error compiling Cython file: ------------------------------------------------------------ ... data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) memcpy(&in_vlen[0].ptr, &data, sizeof(data)) ^ ------------------------------------------------------------ h5py/_conv.pyx:803:11: Cannot convert 'void **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... data = malloc(intype.get_size() * len) memcpy(data, ndarray.data, intype.get_size() * len) H5Tconvert(intype.id, outtype.id, len, data, NULL, H5P_DEFAULT) memcpy(&in_vlen[0].len, &len, sizeof(len)) memcpy(&in_vlen[0].ptr, &data, sizeof(data)) ^ ------------------------------------------------------------ h5py/_conv.pyx:803:28: Cannot convert 'void **' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) ^ ------------------------------------------------------------ h5py/_conv.pyx:816:15: undeclared name not builtin: H5Tcopy Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlstring cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) ^ ------------------------------------------------------------ h5py/_conv.pyx:816:23: undeclared name not builtin: H5T_C_S1 Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) ^ ------------------------------------------------------------ h5py/_conv.pyx:817:4: undeclared name not builtin: H5Tset_size Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t vlentype cdef hid_t pyobj cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) ^ ------------------------------------------------------------ h5py/_conv.pyx:817:26: undeclared name not builtin: H5T_VARIABLE Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:819:11: undeclared name not builtin: H5Tenum_create Error compiling Cython file: ------------------------------------------------------------ ... cdef hid_t enum vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:819:26: undeclared name not builtin: H5T_STD_I32LE Error compiling Cython file: ------------------------------------------------------------ ... vlstring = H5Tcopy(H5T_C_S1) H5Tset_size(vlstring, H5T_VARIABLE) enum = H5Tenum_create(H5T_STD_I32LE) vlentype = H5Tvlen_create(H5T_STD_I32LE) ^ ------------------------------------------------------------ h5py/_conv.pyx:821:15: undeclared name not builtin: H5Tvlen_create Error compiling Cython file: ------------------------------------------------------------ ... enum = H5Tenum_create(H5T_STD_I32LE) vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ ^ ------------------------------------------------------------ h5py/_conv.pyx:823:12: 'H5PY_OBJ' is not a constant, variable or function identifier Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:4: undeclared name not builtin: H5Tregister Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:16: undeclared name not builtin: H5T_PERS_HARD Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:825:60: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... vlentype = H5Tvlen_create(H5T_STD_I32LE) pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:826:60: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:828:16: undeclared name not builtin: H5T_PERS_SOFT Error compiling Cython file: ------------------------------------------------------------ ... pyobj = H5PY_OBJ H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:828:65: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "vlen2str", vlstring, pyobj, vlen2str) H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:829:65: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:831:47: undeclared name not builtin: H5T_STD_REF_OBJ Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "str2vlen", pyobj, vlstring, str2vlen) H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:831:71: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "vlen2fixed", vlstring, H5T_C_S1, vlen2fixed) H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) ^ ------------------------------------------------------------ h5py/_conv.pyx:832:71: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:834:47: undeclared name not builtin: H5T_STD_REF_DSETREG Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "fixed2vlen", H5T_C_S1, vlstring, fixed2vlen) H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:834:75: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "objref2pyref", H5T_STD_REF_OBJ, pyobj, objref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) ^ ------------------------------------------------------------ h5py/_conv.pyx:835:75: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "pyref2objref", pyobj, H5T_STD_REF_OBJ, pyref2objref) H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) ^ ------------------------------------------------------------ h5py/_conv.pyx:837:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "regref2pyref", H5T_STD_REF_DSETREG, pyobj, regref2pyref) H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) ^ ------------------------------------------------------------ h5py/_conv.pyx:838:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_HARD, "pyref2regref", pyobj, H5T_STD_REF_DSETREG, pyref2regref) H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) H5Tregister(H5T_PERS_SOFT, "vlen2ndarray", vlentype, pyobj, vlen2ndarray) ^ ------------------------------------------------------------ h5py/_conv.pyx:840:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tregister(H5T_PERS_SOFT, "enum2int", enum, H5T_STD_I32LE, enum2int) H5Tregister(H5T_PERS_SOFT, "int2enum", H5T_STD_I32LE, enum, int2enum) H5Tregister(H5T_PERS_SOFT, "vlen2ndarray", vlentype, pyobj, vlen2ndarray) H5Tregister(H5T_PERS_SOFT, "ndarray2vlen", pyobj, vlentype, ndarray2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:841:64: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:851:4: undeclared name not builtin: H5Tunregister Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) ^ ------------------------------------------------------------ h5py/_conv.pyx:851:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... return 0 cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:852:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... cpdef int unregister_converters() except -1: H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) ^ ------------------------------------------------------------ h5py/_conv.pyx:854:55: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "vlen2str", -1, -1, vlen2str) H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:855:55: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "str2vlen", -1, -1, str2vlen) H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:857:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "vlen2fixed", -1, -1, vlen2fixed) H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) ^ ------------------------------------------------------------ h5py/_conv.pyx:858:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "fixed2vlen", -1, -1, fixed2vlen) H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) ^ ------------------------------------------------------------ h5py/_conv.pyx:860:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "objref2pyref", -1, -1, objref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) ^ ------------------------------------------------------------ h5py/_conv.pyx:861:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "pyref2objref", -1, -1, pyref2objref) H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) ^ ------------------------------------------------------------ h5py/_conv.pyx:863:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "regref2pyref", -1, -1, regref2pyref) H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) ^ ------------------------------------------------------------ h5py/_conv.pyx:864:53: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_HARD, "pyref2regref", -1, -1, pyref2regref) H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) H5Tunregister(H5T_PERS_SOFT, "vlen2ndarray", -1, -1, vlen2ndarray) ^ ------------------------------------------------------------ h5py/_conv.pyx:866:57: Cannot convert '' to Python object Error compiling Cython file: ------------------------------------------------------------ ... H5Tunregister(H5T_PERS_SOFT, "enum2int", -1, -1, enum2int) H5Tunregister(H5T_PERS_SOFT, "int2enum", -1, -1, int2enum) H5Tunregister(H5T_PERS_SOFT, "vlen2ndarray", -1, -1, vlen2ndarray) H5Tunregister(H5T_PERS_SOFT, "ndarray2vlen", -1, -1, ndarray2vlen) ^ ------------------------------------------------------------ h5py/_conv.pyx:867:57: Cannot convert '' to Python object Traceback (most recent call last): File "setup.py", line 168, in cmdclass = CMDCLASS, File "build/bdist.linux-x86_64/egg/setuptools/__init__.py", line 129, in setup File "/Users/gcheng6/pylith/lib/python2.7/distutils/core.py", line 151, in setup dist.run_commands() File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 953, in run_commands self.run_command(cmd) File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 972, in run_command cmd_obj.run() File "/Users/gcheng6/pylith/lib/python2.7/distutils/command/build.py", line 127, in run self.run_command(cmd_name) File "/Users/gcheng6/pylith/lib/python2.7/distutils/cmd.py", line 326, in run_command self.distribution.run_command(command) File "/Users/gcheng6/pylith/lib/python2.7/distutils/dist.py", line 972, in run_command cmd_obj.run() File "/Users/gcheng6/build/pylith/h5py-2.9.0/setup_build.py", line 203, in run force=config.rebuild_required or self.force) File "/Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Build/Dependencies.py", line 1110, in cythonize cythonize_one(*args) File "/Users/gcheng6/build/pylith/h5py-2.9.0/.eggs/Cython-3.0a6-py2.7.egg/Cython/Build/Dependencies.py", line 1277, in cythonize_one raise CompileError(None, pyx_file) Cython.Compiler.Errors.CompileError: /Users/gcheng6/build/pylith/h5py-2.9.0/h5py/_conv.pyx make: *** [h5py] Error 1