[gdal-dev] GDAL Fails to import in Python - HDF5 Issues

[JASON TILLEY]

I am trying to build gdal from source and use it with Python. It seems I can build and install HDF5 with out problems. However, when build GDAL using the --with-python flag I do get a few warnings that mostly look like this:

ld: warning: directory not found for option '-L/Users/username/src/gdal-2.0.2/lib'
ld: warning: could not create compact unwind for _MEMCreateRasterBand: dwarf uses DW_CFA_GNU_args_size
ld: warning: could not create compact unwind for __ZN10MEMDataset7AddBandE12GDALDataTypePPc: dwarf uses DW_CFA_GNU_args_size

I get about 13 more warnings regarding DW_CFA_GNU_args_size.

I’m not sure if this is related. I can run gdal-config --formats and it does show hdf5 as an available format. But once I try:

from osgeo import gdal 

in Python, I get the following error:

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/GDAL-2.0.2-py2.7-macosx-10.11-x86_64.egg/osgeo/__init__.py", line 21, in <module>
    _gdal = swig_import_helper()
  File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/GDAL-2.0.2-py2.7-macosx-10.11-x86_64.egg/osgeo/__init__.py", line 17, in swig_import_helper
    _mod = imp.load_module('_gdal', fp, pathname, description)
ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/GDAL-2.0.2-py2.7-macosx-10.11-x86_64.egg/osgeo/_gdal.so, 2): Symbol not found: _H5T_NATIVE_DOUBLE_g
  Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/GDAL-2.0.2-py2.7-macosx-10.11-x86_64.egg/osgeo/_gdal.so
  Expected in: flat namespace
 in /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/GDAL-2.0.2-py2.7-macosx-10.11-x86_64.egg/osgeo/_gdal.so

Does anybody know what the problem could be? Thanks.

Jason

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