Re: PyNIO on OSX 10.6

Hi Jim,

I do not have any experience with MacOS universal binaries, but from
the messages it looks like you are using a universal binary version of
Python and that by default it is trying to build PyNIO as a universal
binary. The messages about all the libraries (including libnio) not
being of the required architecture indicates that they were built for
a single architecture and may not be linking properly. I do not know
if it is possible to use a non-universal library with a universal
version of Python, but I do think that you will need to figure out a
way to ensure the libraries are compatible with the Python version.
Maybe someone who has experience with universal binaries can comment,
but Mary
suggests first trying to set the CFLAGS environment variable to
specify a single architecture like "-arch i386", or whatever it is
that your libraries were built with. If that doesn't work then you
might need to build your own Python first. Hope this helps.
  -dave

On Mar 26, 2010, at 7:07 AM, jsummers wrote:

>
> On Mar 25, 2010, at 5:00 PM, David Brown wrote:
>
>> What were the warnings you got when installing PyNIO?
> ===
> python setup.py install
> ====> Installing Nio to the "PyNIO" site packages directory.
> running install
> running build
> running build_py
> creating build
> creating build/lib.macosx-10.6-universal-2.6
> creating build/lib.macosx-10.6-universal-2.6/PyNIO
> copying ./__init__.py -> build/lib.macosx-10.6-universal-2.6/PyNIO
> copying ./_xarray.py -> build/lib.macosx-10.6-universal-2.6/PyNIO
> copying ./coordsel.py -> build/lib.macosx-10.6-universal-2.6/PyNIO
> copying ./Nio.py -> build/lib.macosx-10.6-universal-2.6/PyNIO
> copying ./pynio_version.py -> build/lib.macosx-10.6-universal-2.6/
> PyNIO
> running build_ext
> building 'nio' extension
> creating build/temp.macosx-10.6-universal-2.6
> gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -DNDEBUG -g -
> fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch i386 -
> arch ppc -arch x86_64 -pipe -DNeedFuncProto=1 -I/Library/Python/2.6/
> site-packages/numpy/core/include -I/usr/local/include -Iinclude -I/
> System/Library/Frameworks/Python.framework/Versions/2.6/include/
> python2.6 -c niomodule.c -o build/temp.macosx-10.6-universal-2.6/
> niomodule.o
> niomodule.c: In function 'NioFile_Options':
> niomodule.c:3254: warning: format not a string literal and no format
> arguments
> niomodule.c: In function 'NioVariable_WriteArray':
> niomodule.c:2063: warning: 'dir' may be used uninitialized in this
> function
> niomodule.c: In function 'NioFile_Options':
> niomodule.c:3254: warning: format not a string literal and no format
> arguments
> niomodule.c: In function 'NioVariable_WriteArray':
> niomodule.c:2063: warning: 'dir' may be used uninitialized in this
> function
> niomodule.c: In function 'NioFile_Options':
> niomodule.c:3254: warning: format not a string literal and no format
> arguments
> niomodule.c: In function 'NioVariable_WriteArray':
> niomodule.c:2063: warning: 'dir' may be used uninitialized in this
> function
> gcc-4.2 -Wl,-F. -bundle -undefined dynamic_lookup -arch i386 -arch
> ppc -arch x86_64 build/temp.macosx-10.6-universal-2.6/niomodule.o -L/
> usr/local/lib -lnio -lmfhdf -ldf -ljpeg -lpng -lz -lnetcdf -o build/
> lib.macosx-10.6-universal-2.6/PyNIO/nio.so
> ld: warning: in /usr/local/lib/libnetcdf.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libnio.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libmfhdf.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libdf.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libnetcdf.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libnio.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libmfhdf.a, file is not of required
> architecture
> ld: warning: in /usr/local/lib/libdf.a, file is not of required
> architecture
> running install_lib
> creating /Library/Python/2.6/site-packages/PyNIO
> copying build/lib.macosx-10.6-universal-2.6/PyNIO/__init__.py -> /
> Library/Python/2.6/site-packages/PyNIO
> copying build/lib.macosx-10.6-universal-2.6/PyNIO/_xarray.py -> /
> Library/Python/2.6/site-packages/PyNIO
> copying build/lib.macosx-10.6-universal-2.6/PyNIO/coordsel.py -> /
> Library/Python/2.6/site-packages/PyNIO
> copying build/lib.macosx-10.6-universal-2.6/PyNIO/Nio.py -> /Library/
> Python/2.6/site-packages/PyNIO
> copying build/lib.macosx-10.6-universal-2.6/PyNIO/nio.so -> /Library/
> Python/2.6/site-packages/PyNIO
> copying build/lib.macosx-10.6-universal-2.6/PyNIO/pynio_version.py -
> > /Library/Python/2.6/site-packages/PyNIO
> byte-compiling /Library/Python/2.6/site-packages/PyNIO/__init__.py
> to __init__.pyc
> byte-compiling /Library/Python/2.6/site-packages/PyNIO/_xarray.py to
> _xarray.pyc
> byte-compiling /Library/Python/2.6/site-packages/PyNIO/coordsel.py
> to coordsel.pyc
> byte-compiling /Library/Python/2.6/site-packages/PyNIO/Nio.py to
> Nio.pyc
> byte-compiling /Library/Python/2.6/site-packages/PyNIO/
> pynio_version.py to pynio_version.pyc
> running install_data
> running install_egg_info
> Removing /Library/Python/2.6/site-packages/PyNIO-1.3.0b1-py2.6.egg-
> info
> Writing /Library/Python/2.6/site-packages/PyNIO-1.3.0b1-py2.6.egg-info
> ===
>
> It does actually install but does not work for me. Probably a red
> herring but not sure.
>
> Ideas?
>
> Thanks
>
>
>
>> -dave
>> On Mar 25, 2010, at 3:33 PM, jsummers wrote:
>>
>>>
>>> On Mar 25, 2010, at 4:21 PM, David Brown wrote:
>>>
>>>> PyNIO is imported as follows:
>>>>
>>>> import Nio
>>>>
>>>> The documentation mentions this but perhaps not prominently enough.
>>>> -dave
>>>>
>>>
>>> Thanks Dave. But still no joy.
>>>
>>> I changed the test file to:
>>>
>>> print "Importing Nio"
>>> try:
>>> import Nio
>>> print "\tsucces!"
>>> except:
>>> print "\tfailed!"
>>> raise
>>>
>>> and still get:
>>>
>>> bash-3.2# python ./test_pynio.py
>>> Importing Nio
>>> failed!
>>> Traceback (most recent call last):
>>> File "./test_pynio.py", line 3, in <module>
>>> import Nio
>>> File "/Library/Python/2.6/site-packages/PyNIO/Nio.py", line 61, in
>>> <module>
>>> from nio import *
>>> ImportError: dlopen(/Library/Python/2.6/site-packages/PyNIO/
>>> nio.so, 2): Symbol not found: _nclTypefloatClass
>>> Referenced from: /Library/Python/2.6/site-packages/PyNIO/nio.so
>>> Expected in: flat namespace
>>> in /Library/Python/2.6/site-packages/PyNIO/nio.so
>>>
>>> I have:
>>>
>>> NCARG_ROOT=/usr/local
>>>
>>> exported.
>>>
>>> Not sure.
>>>
>>> Ideas??
>>>
>>> Thanks again
>>>
>>>
>>>
>>>>
>>>> On Mar 25, 2010, at 3:04 PM, jsummers wrote:
>>>>
>>>>> Hello All,
>>>>>
>>>>> I am try to get PyNIO working for one of our researchers here.
>>>>>
>>>>> We are running on an Intel Mac in 64bit mode. I have installed:
>>>>>
>>>>> ncl_ncarg-5.1.1.MacOS_i386_9.7.0.tar
>>>>> PyNIO-1.3.0b1
>>>>>
>>>>> The ncl test: ng4ex gsun01n works fine.
>>>>>
>>>>> The install of PyNIO seems to work, but with a few warnings.
>>>>>
>>>>> Then when testing with:
>>>>> try:
>>>>> print "Importing PyNIO"
>>>>> import PyNIO
>>>>> print "\tsucces!"
>>>>> except:
>>>>> print "\tfailed!"
>>>>> raise
>>>>>
>>>>> print
>>>>> print "Importing PyNIO.Nio"
>>>>> try:
>>>>> import PyNIO.Nio
>>>>> print "\tsucces!"
>>>>> except:
>>>>> print "\tfailed!"
>>>>> raise
>>>>>
>>>>> We do get a fail with the following:
>>>>> Importing PyNIO
>>>>> succes!
>>>>>
>>>>> Importing PyNIO.Nio
>>>>> failed!
>>>>> Traceback (most recent call last):
>>>>> File "/idea/test_pynio.py", line 12, in <module>
>>>>> import PyNIO.Nio
>>>>> File "/Library/Python/2.6/site-packages/PyNIO/Nio.py", line 61,
>>>>> in <module>
>>>>> from nio import *
>>>>> ImportError: dlopen(/Library/Python/2.6/site-packages/PyNIO/
>>>>> nio.so, 2): Symbol not found: _nclTypefloatClass
>>>>> Referenced from: /Library/Python/2.6/site-packages/PyNIO/nio.so
>>>>> Expected in: flat namespace
>>>>> in /Library/Python/2.6/site-packages/PyNIO/nio.so
>>>>>
>>>>> I am not sure the best way to proceed.
>>>>>
>>>>> Ideas / Suggestions??
>>>>>
>>>>> TIA
>>>>>
>>>>> ---
>>>>> Jim Summers
>>>>> School of Computer Science-University of Oklahoma
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> _______________________________________________
>>>>> pyngl-talk mailing list
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>>>
>>>
>>>
>>> ---
>>> Jim Summers
>>> School of Computer Science-University of Oklahoma
>>>
>>>
>>>
>>>
>>> _______________________________________________
>>> pyngl-talk mailing list
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>
>
>
> ---
> Jim Summers
> School of Computer Science-University of Oklahoma
>
>
>
>
> _______________________________________________
> pyngl-talk mailing list
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Received on Fri Mar 26 12:10:06 2010