introduction
Jetson nano
system: ubuntu 18.04 LTS

problem description

trying to install h5py:install PIP h5py times wrong.

through the Error log, and finding a “billion” pile of warning, the writer has focused on the right failing for the Cython : the Error compiling Cython file

was found after the study. Cython is not actually installed. This means that when we install H5PY using Pip3 Install H5PY, the installation program will download a temporary copy of Cython that may be experiencing compatibility problems with H5PY. So install Cython before PIP install h5py, and then install h5py :

install pip Cython

install pip h5py

successfully installed

complete error log

  ERROR: Command errored out with exit status 1:
   command: /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-kmhfcx4i/h5py/setup.py'"'"'; __file__='"'"'/tmp/pip-install-kmhfcx4i/h5py/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-sjlane1b
       cwd: /tmp/pip-install-kmhfcx4i/h5py/
  Complete output (512 lines):
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.linux-aarch64-3.6
  creating build/lib.linux-aarch64-3.6/h5py
  copying h5py/h5py_warnings.py -> build/lib.linux-aarch64-3.6/h5py
  copying h5py/highlevel.py -> build/lib.linux-aarch64-3.6/h5py
  copying h5py/__init__.py -> build/lib.linux-aarch64-3.6/h5py
  copying h5py/ipy_completer.py -> build/lib.linux-aarch64-3.6/h5py
  copying h5py/version.py -> build/lib.linux-aarch64-3.6/h5py
  creating build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/files.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/selections.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/attrs.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/__init__.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/filters.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/compat.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/dims.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/vds.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/dataset.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/group.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/datatype.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/base.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  copying h5py/_hl/selections2.py -> build/lib.linux-aarch64-3.6/h5py/_hl
  creating build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_h5f.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_dims_dimensionproxy.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_deprecation.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_attribute_create.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_group.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_datatype.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_h5d_direct_chunk.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_file2.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_completions.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_h5t.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_h5.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_base.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_h5pl.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_filters.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/__init__.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_attrs_data.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_slicing.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_selections.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/common.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_file.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_dimension_scales.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_dataset_getitem.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_file_image.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_threads.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_dtype.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_h5p.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_objects.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_attrs.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_dataset_swmr.py -> build/lib.linux-aarch64-3.6/h5py/tests
  copying h5py/tests/test_dataset.py -> build/lib.linux-aarch64-3.6/h5py/tests
  creating build/lib.linux-aarch64-3.6/h5py/tests/test_vds
  copying h5py/tests/test_vds/__init__.py -> build/lib.linux-aarch64-3.6/h5py/tests/test_vds
  copying h5py/tests/test_vds/test_highlevel_vds.py -> build/lib.linux-aarch64-3.6/h5py/tests/test_vds
  copying h5py/tests/test_vds/test_virtual_source.py -> build/lib.linux-aarch64-3.6/h5py/tests/test_vds
  copying h5py/tests/test_vds/test_lowlevel_vds.py -> build/lib.linux-aarch64-3.6/h5py/tests/test_vds
  running build_ext
  Loading library to get version: /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so
  Autodetected HDF5 1.10.0
  ********************************************************************************
                         Summary of the h5py configuration
  
      Path to HDF5: None
      HDF5 Version: '1.10.0'
       MPI Enabled: False
  Rebuild Required: True
  
  ********************************************************************************
  Executing api_gen rebuild of defs
  Executing cythonize()
  [ 1/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/_conv.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
  warning: h5py/api_types_hdf5.pxd:425:2: 'H5D_alloc_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:432:2: 'H5D_space_status_t' redeclared
  warning: h5py/api_types_hdf5.pxd:438:2: 'H5D_fill_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:444:2: 'H5D_fill_value_t' redeclared
  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
  warning: h5py/api_types_hdf5.pxd:462:2: 'H5FD_mem_t' redeclared
  warning: h5py/api_types_hdf5.pxd:560:2: 'H5T_cset_t' redeclared
  warning: h5py/api_types_hdf5.pxd:739:7: 'H5Z_EDC_t' redeclared
  warning: h5py/api_types_hdf5.pxd:419:4: 'H5D_LAYOUT_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:420:4: 'H5D_COMPACT' redeclared
  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
  warning: h5py/api_types_hdf5.pxd:422:4: 'H5D_CHUNKED' redeclared
  warning: h5py/api_types_hdf5.pxd:423:4: 'H5D_NLAYOUTS' redeclared
  warning: h5py/api_types_hdf5.pxd:426:4: 'H5D_ALLOC_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:427:4: 'H5D_ALLOC_TIME_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:428:4: 'H5D_ALLOC_TIME_EARLY' redeclared
  warning: h5py/api_types_hdf5.pxd:429:4: 'H5D_ALLOC_TIME_LATE' redeclared
  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:434:4: 'H5D_SPACE_STATUS_NOT_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:435:4: 'H5D_SPACE_STATUS_PART_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
  warning: h5py/api_types_hdf5.pxd:442:4: 'H5D_FILL_TIME_IFSET' redeclared
  warning: h5py/api_types_hdf5.pxd:445:4: 'H5D_FILL_VALUE_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
  warning: h5py/api_types_hdf5.pxd:447:4: 'H5D_FILL_VALUE_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:448:4: 'H5D_FILL_VALUE_USER_DEFINED' redeclared
  warning: h5py/api_types_hdf5.pxd:457:4: 'H5F_CLOSE_WEAK' redeclared
  warning: h5py/api_types_hdf5.pxd:458:4: 'H5F_CLOSE_SEMI' redeclared
  warning: h5py/api_types_hdf5.pxd:459:4: 'H5F_CLOSE_STRONG' redeclared
  warning: h5py/api_types_hdf5.pxd:460:4: 'H5F_CLOSE_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:463:4: 'H5FD_MEM_NOLIST' redeclared
  warning: h5py/api_types_hdf5.pxd:464:4: 'H5FD_MEM_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:465:4: 'H5FD_MEM_SUPER' redeclared
  warning: h5py/api_types_hdf5.pxd:466:4: 'H5FD_MEM_BTREE' redeclared
  warning: h5py/api_types_hdf5.pxd:467:4: 'H5FD_MEM_DRAW' redeclared
  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:469:4: 'H5FD_MEM_LHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:470:4: 'H5FD_MEM_OHDR' redeclared
  warning: h5py/api_types_hdf5.pxd:471:4: 'H5FD_MEM_NTYPES' redeclared
  warning: h5py/api_types_hdf5.pxd:561:4: 'H5T_CSET_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:562:4: 'H5T_CSET_ASCII' redeclared
  warning: h5py/api_types_hdf5.pxd:705:2: 'H5Z_filter_t' redeclared
  warning: h5py/api_types_hdf5.pxd:740:6: 'H5Z_ERROR_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:741:6: 'H5Z_DISABLE_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:742:6: 'H5Z_ENABLE_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:743:6: 'H5Z_NO_EDC' redeclared
  [ 2/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/_errors.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
  warning: h5py/api_types_hdf5.pxd:425:2: 'H5D_alloc_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:432:2: 'H5D_space_status_t' redeclared
  warning: h5py/api_types_hdf5.pxd:438:2: 'H5D_fill_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:444:2: 'H5D_fill_value_t' redeclared
  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
  warning: h5py/api_types_hdf5.pxd:462:2: 'H5FD_mem_t' redeclared
  warning: h5py/api_types_hdf5.pxd:560:2: 'H5T_cset_t' redeclared
  warning: h5py/api_types_hdf5.pxd:739:7: 'H5Z_EDC_t' redeclared
  warning: h5py/api_types_hdf5.pxd:419:4: 'H5D_LAYOUT_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:420:4: 'H5D_COMPACT' redeclared
  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
  warning: h5py/api_types_hdf5.pxd:422:4: 'H5D_CHUNKED' redeclared
  warning: h5py/api_types_hdf5.pxd:423:4: 'H5D_NLAYOUTS' redeclared
  warning: h5py/api_types_hdf5.pxd:426:4: 'H5D_ALLOC_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:427:4: 'H5D_ALLOC_TIME_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:428:4: 'H5D_ALLOC_TIME_EARLY' redeclared
  warning: h5py/api_types_hdf5.pxd:429:4: 'H5D_ALLOC_TIME_LATE' redeclared
  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:434:4: 'H5D_SPACE_STATUS_NOT_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:435:4: 'H5D_SPACE_STATUS_PART_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
  warning: h5py/api_types_hdf5.pxd:442:4: 'H5D_FILL_TIME_IFSET' redeclared
  warning: h5py/api_types_hdf5.pxd:445:4: 'H5D_FILL_VALUE_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
  warning: h5py/api_types_hdf5.pxd:447:4: 'H5D_FILL_VALUE_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:448:4: 'H5D_FILL_VALUE_USER_DEFINED' redeclared
  warning: h5py/api_types_hdf5.pxd:457:4: 'H5F_CLOSE_WEAK' redeclared
  warning: h5py/api_types_hdf5.pxd:458:4: 'H5F_CLOSE_SEMI' redeclared
  warning: h5py/api_types_hdf5.pxd:459:4: 'H5F_CLOSE_STRONG' redeclared
  warning: h5py/api_types_hdf5.pxd:460:4: 'H5F_CLOSE_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:463:4: 'H5FD_MEM_NOLIST' redeclared
  warning: h5py/api_types_hdf5.pxd:464:4: 'H5FD_MEM_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:465:4: 'H5FD_MEM_SUPER' redeclared
  warning: h5py/api_types_hdf5.pxd:466:4: 'H5FD_MEM_BTREE' redeclared
  warning: h5py/api_types_hdf5.pxd:467:4: 'H5FD_MEM_DRAW' redeclared
  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:469:4: 'H5FD_MEM_LHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:470:4: 'H5FD_MEM_OHDR' redeclared
  warning: h5py/api_types_hdf5.pxd:471:4: 'H5FD_MEM_NTYPES' redeclared
  warning: h5py/api_types_hdf5.pxd:561:4: 'H5T_CSET_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:562:4: 'H5T_CSET_ASCII' redeclared
  warning: h5py/api_types_hdf5.pxd:705:2: 'H5Z_filter_t' redeclared
  warning: h5py/api_types_hdf5.pxd:740:6: 'H5Z_ERROR_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:741:6: 'H5Z_DISABLE_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:742:6: 'H5Z_ENABLE_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:743:6: 'H5Z_NO_EDC' redeclared
  [ 3/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/_objects.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
  warning: h5py/api_types_hdf5.pxd:425:2: 'H5D_alloc_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:432:2: 'H5D_space_status_t' redeclared
  warning: h5py/api_types_hdf5.pxd:438:2: 'H5D_fill_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:444:2: 'H5D_fill_value_t' redeclared
  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
  warning: h5py/api_types_hdf5.pxd:462:2: 'H5FD_mem_t' redeclared
  warning: h5py/api_types_hdf5.pxd:560:2: 'H5T_cset_t' redeclared
  warning: h5py/api_types_hdf5.pxd:739:7: 'H5Z_EDC_t' redeclared
  warning: h5py/api_types_hdf5.pxd:419:4: 'H5D_LAYOUT_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:420:4: 'H5D_COMPACT' redeclared
  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
  warning: h5py/api_types_hdf5.pxd:422:4: 'H5D_CHUNKED' redeclared
  warning: h5py/api_types_hdf5.pxd:423:4: 'H5D_NLAYOUTS' redeclared
  warning: h5py/api_types_hdf5.pxd:426:4: 'H5D_ALLOC_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:427:4: 'H5D_ALLOC_TIME_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:428:4: 'H5D_ALLOC_TIME_EARLY' redeclared
  warning: h5py/api_types_hdf5.pxd:429:4: 'H5D_ALLOC_TIME_LATE' redeclared
  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:434:4: 'H5D_SPACE_STATUS_NOT_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:435:4: 'H5D_SPACE_STATUS_PART_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
  warning: h5py/api_types_hdf5.pxd:442:4: 'H5D_FILL_TIME_IFSET' redeclared
  warning: h5py/api_types_hdf5.pxd:445:4: 'H5D_FILL_VALUE_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
  warning: h5py/api_types_hdf5.pxd:447:4: 'H5D_FILL_VALUE_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:448:4: 'H5D_FILL_VALUE_USER_DEFINED' redeclared
  warning: h5py/api_types_hdf5.pxd:457:4: 'H5F_CLOSE_WEAK' redeclared
  warning: h5py/api_types_hdf5.pxd:458:4: 'H5F_CLOSE_SEMI' redeclared
  warning: h5py/api_types_hdf5.pxd:459:4: 'H5F_CLOSE_STRONG' redeclared
  warning: h5py/api_types_hdf5.pxd:460:4: 'H5F_CLOSE_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:463:4: 'H5FD_MEM_NOLIST' redeclared
  warning: h5py/api_types_hdf5.pxd:464:4: 'H5FD_MEM_DEFAULT' redeclared
  warning: h5py/api_types_hdf5.pxd:465:4: 'H5FD_MEM_SUPER' redeclared
  warning: h5py/api_types_hdf5.pxd:466:4: 'H5FD_MEM_BTREE' redeclared
  warning: h5py/api_types_hdf5.pxd:467:4: 'H5FD_MEM_DRAW' redeclared
  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
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  [ 4/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/_proxy.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
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  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
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  warning: h5py/api_types_hdf5.pxd:419:4: 'H5D_LAYOUT_ERROR' redeclared
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  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
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  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:434:4: 'H5D_SPACE_STATUS_NOT_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:435:4: 'H5D_SPACE_STATUS_PART_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
  warning: h5py/api_types_hdf5.pxd:442:4: 'H5D_FILL_TIME_IFSET' redeclared
  warning: h5py/api_types_hdf5.pxd:445:4: 'H5D_FILL_VALUE_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:448:4: 'H5D_FILL_VALUE_USER_DEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:465:4: 'H5FD_MEM_SUPER' redeclared
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  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
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  [ 5/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/defs.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
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  warning: h5py/api_types_hdf5.pxd:438:2: 'H5D_fill_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:444:2: 'H5D_fill_value_t' redeclared
  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
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  warning: h5py/api_types_hdf5.pxd:420:4: 'H5D_COMPACT' redeclared
  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
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  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
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  warning: h5py/api_types_hdf5.pxd:435:4: 'H5D_SPACE_STATUS_PART_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
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  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:448:4: 'H5D_FILL_VALUE_USER_DEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:465:4: 'H5FD_MEM_SUPER' redeclared
  warning: h5py/api_types_hdf5.pxd:466:4: 'H5FD_MEM_BTREE' redeclared
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  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:469:4: 'H5FD_MEM_LHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:470:4: 'H5FD_MEM_OHDR' redeclared
  warning: h5py/api_types_hdf5.pxd:471:4: 'H5FD_MEM_NTYPES' redeclared
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  [ 6/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/h5.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
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  warning: h5py/api_types_hdf5.pxd:432:2: 'H5D_space_status_t' redeclared
  warning: h5py/api_types_hdf5.pxd:438:2: 'H5D_fill_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:444:2: 'H5D_fill_value_t' redeclared
  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
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  warning: h5py/api_types_hdf5.pxd:739:7: 'H5Z_EDC_t' redeclared
  warning: h5py/api_types_hdf5.pxd:419:4: 'H5D_LAYOUT_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:420:4: 'H5D_COMPACT' redeclared
  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
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  warning: h5py/api_types_hdf5.pxd:427:4: 'H5D_ALLOC_TIME_DEFAULT' redeclared
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  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
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  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
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  warning: h5py/api_types_hdf5.pxd:445:4: 'H5D_FILL_VALUE_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:448:4: 'H5D_FILL_VALUE_USER_DEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:465:4: 'H5FD_MEM_SUPER' redeclared
  warning: h5py/api_types_hdf5.pxd:466:4: 'H5FD_MEM_BTREE' redeclared
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  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:469:4: 'H5FD_MEM_LHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:470:4: 'H5FD_MEM_OHDR' redeclared
  warning: h5py/api_types_hdf5.pxd:471:4: 'H5FD_MEM_NTYPES' redeclared
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  [ 7/23] Cythonizing /tmp/pip-install-kmhfcx4i/h5py/h5py/h5a.pyx
  warning: h5py/api_types_hdf5.pxd:418:2: 'H5D_layout_t' redeclared
  warning: h5py/api_types_hdf5.pxd:425:2: 'H5D_alloc_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:432:2: 'H5D_space_status_t' redeclared
  warning: h5py/api_types_hdf5.pxd:438:2: 'H5D_fill_time_t' redeclared
  warning: h5py/api_types_hdf5.pxd:444:2: 'H5D_fill_value_t' redeclared
  warning: h5py/api_types_hdf5.pxd:456:7: 'H5F_close_degree_t' redeclared
  warning: h5py/api_types_hdf5.pxd:462:2: 'H5FD_mem_t' redeclared
  warning: h5py/api_types_hdf5.pxd:560:2: 'H5T_cset_t' redeclared
  warning: h5py/api_types_hdf5.pxd:739:7: 'H5Z_EDC_t' redeclared
  warning: h5py/api_types_hdf5.pxd:419:4: 'H5D_LAYOUT_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:420:4: 'H5D_COMPACT' redeclared
  warning: h5py/api_types_hdf5.pxd:421:4: 'H5D_CONTIGUOUS' redeclared
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  warning: h5py/api_types_hdf5.pxd:426:4: 'H5D_ALLOC_TIME_ERROR' redeclared
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  warning: h5py/api_types_hdf5.pxd:430:4: 'H5D_ALLOC_TIME_INCR' redeclared
  warning: h5py/api_types_hdf5.pxd:433:4: 'H5D_SPACE_STATUS_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:434:4: 'H5D_SPACE_STATUS_NOT_ALLOCATED' redeclared
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  warning: h5py/api_types_hdf5.pxd:436:4: 'H5D_SPACE_STATUS_ALLOCATED' redeclared
  warning: h5py/api_types_hdf5.pxd:439:4: 'H5D_FILL_TIME_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:440:4: 'H5D_FILL_TIME_ALLOC' redeclared
  warning: h5py/api_types_hdf5.pxd:441:4: 'H5D_FILL_TIME_NEVER' redeclared
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  warning: h5py/api_types_hdf5.pxd:445:4: 'H5D_FILL_VALUE_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:446:4: 'H5D_FILL_VALUE_UNDEFINED' redeclared
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  warning: h5py/api_types_hdf5.pxd:466:4: 'H5FD_MEM_BTREE' redeclared
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  warning: h5py/api_types_hdf5.pxd:468:4: 'H5FD_MEM_GHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:469:4: 'H5FD_MEM_LHEAP' redeclared
  warning: h5py/api_types_hdf5.pxd:470:4: 'H5FD_MEM_OHDR' redeclared
  warning: h5py/api_types_hdf5.pxd:471:4: 'H5FD_MEM_NTYPES' redeclared
  warning: h5py/api_types_hdf5.pxd:561:4: 'H5T_CSET_ERROR' redeclared
  warning: h5py/api_types_hdf5.pxd:562:4: 'H5T_CSET_ASCII' redeclared
  warning: h5py/api_types_hdf5.pxd:705:2: 'H5Z_filter_t' redeclared
  warning: h5py/api_types_hdf5.pxd:740:6: 'H5Z_ERROR_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:741:6: 'H5Z_DISABLE_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:742:6: 'H5Z_ENABLE_EDC' redeclared
  warning: h5py/api_types_hdf5.pxd:743:6: 'H5Z_NO_EDC' redeclared
  
  Error compiling Cython file:
  ------------------------------------------------------------
  ...
  
  
  # --- open, open_by_name, open_by_idx ---
  
  @with_phil
  def open(ObjectID loc not None, char* name=NULL, int index=-1, *,
                                 ^
  ------------------------------------------------------------
  
  h5py/h5a.pyx:54:32: Cannot convert 'void *' to Python object
  
  Error compiling Cython file:
  ------------------------------------------------------------
  ...
      """
      H5Arename_by_name(loc.id, obj_name, name, new_name, pdefault(lapl))
  
  
  @with_phil
  def delete(ObjectID loc not None, char* name=NULL, int index=-1, *,
                                   ^
  ------------------------------------------------------------
  
  h5py/h5a.pyx:122:34: Cannot convert 'void *' to Python object
  
  Error compiling Cython file:
  ------------------------------------------------------------
  ...
      def _hash(self):
          return hash((self.corder_valid, self.corder, self.cset, self.data_size))
  
  
  @with_phil
  def get_info(ObjectID loc not None, char* name=NULL, int index=-1, *,
                                     ^
  ------------------------------------------------------------
  
  h5py/h5a.pyx:184:36: Cannot convert 'void *' to Python object
  Traceback (most recent call last):
    File "<string>", line 1, in <module>
    File "/tmp/pip-install-kmhfcx4i/h5py/setup.py", line 159, in <module>
      cmdclass = CMDCLASS,
    File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 129, in setup
      return distutils.core.setup(**attrs)
    File "/usr/lib/python3.6/distutils/core.py", line 148, in setup
      dist.run_commands()
    File "/usr/lib/python3.6/distutils/dist.py", line 955, in run_commands
      self.run_command(cmd)
    File "/usr/lib/python3.6/distutils/dist.py", line 974, in run_command
      cmd_obj.run()
    File "/usr/lib/python3/dist-packages/wheel/bdist_wheel.py", line 204, in run
      self.run_command('build')
    File "/usr/lib/python3.6/distutils/cmd.py", line 313, in run_command
      self.distribution.run_command(command)
    File "/usr/lib/python3.6/distutils/dist.py", line 974, in run_command
      cmd_obj.run()
    File "/usr/lib/python3.6/distutils/command/build.py", line 135, in run
      self.run_command(cmd_name)
    File "/usr/lib/python3.6/distutils/cmd.py", line 313, in run_command
      self.distribution.run_command(command)
    File "/usr/lib/python3.6/distutils/dist.py", line 974, in run_command
      cmd_obj.run()
    File "/tmp/pip-install-kmhfcx4i/h5py/setup_build.py", line 209, in run
      language_level=2)
    File "/tmp/pip-install-kmhfcx4i/h5py/.eggs/Cython-3.0a5-py3.6.egg/Cython/Build/Dependencies.py", line 1105, in cythonize
      cythonize_one(*args)
    File "/tmp/pip-install-kmhfcx4i/h5py/.eggs/Cython-3.0a5-py3.6.egg/Cython/Build/Dependencies.py", line 1263, in cythonize_one
      raise CompileError(None, pyx_file)
  Cython.Compiler.Errors.CompileError: /tmp/pip-install-kmhfcx4i/h5py/h5py/h5a.pyx
  ----------------------------------------
  ERROR: Failed building wheel for h5py

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