[Numpy-discussion] Problems building numpy w/ ATLAS on Solaris 8
skip at pobox.com
skip at pobox.com
Tue Feb 21 12:20:05 EST 2006
After a brief hiatus I'm back to trying to build numpy. Last time I checked
in (on the scipy list) I had successfully built ATLAS and created this
simple site.cfg file in .../numpy/distutils/site.cfg:
[atlas]
library_dirs = /home/titan/skipm/src/ATLAS/lib/SunOS_Babe
include_dirs = /home/titan/skipm/src/ATLAS/include/SunOS_Babe
# for overriding the names of the atlas libraries
atlas_libs = lapack, f77blas, cblas, atlas
I svn up'd (now at rev 2138), zapped my build directory, then executed
"python setup.py build". Just in case it matters, I'm using Python 2.4.2
built with GCC 3.4.1 on Solaris 8. Here's the output of my build attempt:
Running from numpy source directory.
No module named __svn_version__
F2PY Version 2_2138
blas_opt_info:
blas_mkl_info:
/home/ink/skipm/src/numpy/numpy/distutils/system_info.py:531: UserWarning: Library error: libs=['mkl', 'vml', 'guide'] found_libs=[]
warnings.warn("Library error: libs=%s found_libs=%s" % \
NOT AVAILABLE
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
/home/ink/skipm/src/numpy/numpy/distutils/system_info.py:531: UserWarning: Library error: libs=['lapack', 'f77blas', 'cblas', 'atlas'] found_libs=[]
warnings.warn("Library error: libs=%s found_libs=%s" % \
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
FOUND:
libraries = ['lapack', 'f77blas', 'cblas', 'atlas']
library_dirs = ['/home/titan/skipm/src/ATLAS/lib/SunOS_Babe']
language = c
include_dirs = ['/opt/include']
...
See my site.cfg file? Why does it affect library_dirs but not include_dirs?
running build_src
building extension "atlas_version" sources
adding 'build/src/atlas_version_0x33c6fa32.c' to sources.
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
building 'atlas_version' extension
compiling C sources
gcc options: '-fno-strict-aliasing -DNDEBUG -g -O3 -Wall -Wstrict-prototypes -fPIC'
compile options: '-I/opt/include -Inumpy/core/include -I/opt/app/g++lib6/python-2.4/include/python2.4 -c'
/opt/lang/gcc-3.4/bin/gcc -shared build/temp.solaris-2.8-i86pc-2.4/build/src/atlas_version_0x33c6fa32.o -L/home/titan/skipm/src/ATLAS/lib/SunOS_Babe -llapack -lf77blas -lcblas -latlas -o build/temp.solaris-2.8-i86pc-2.4/atlas_version.so
Text relocation remains referenced
against symbol offset in file
<unknown> 0x7 /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
<unknown> 0xc /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
... bunch of missing <unknown>s elided ...
printf 0x1b /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
printf 0x2d /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
printf 0x3f /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
printf 0x51 /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
... what's this? can't find printf??? ...
ld: fatal: relocations remain against allocatable but non-writable sections
collect2: ld returned 1 exit status
Text relocation remains referenced
against symbol offset in file
<unknown> 0x7 /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
... more eliding ...
printf 0x108 /home/titan/skipm/src/ATLAS/lib/SunOS_Babe/libatlas.a(ATL_buildinfo.o)
ld: fatal: relocations remain against allocatable but non-writable sections
collect2: ld returned 1 exit status
##### msg: error: Command "/opt/lang/gcc-3.4/bin/gcc -shared build/temp.solaris-2.8-i86pc-2.4/build/src/atlas_version_0x33c6fa32.o -L/home/titan/skipm/src/ATLAS/lib/SunOS_Babe -llapack -lf77blas -lcblas -latlas -o build/temp.solaris-2.8-i86pc-2.4/atlas_version.so" failed with exit status 1
error: Command "/opt/lang/gcc-3.4/bin/gcc -shared build/temp.solaris-2.8-i86pc-2.4/build/src/atlas_version_0x33c6fa32.o -L/home/titan/skipm/src/ATLAS/lib/SunOS_Babe -llapack -lf77blas -lcblas -latlas -o build/temp.solaris-2.8-i86pc-2.4/atlas_version.so" failed with exit status 1
FOUND:
libraries = ['lapack', 'f77blas', 'cblas', 'atlas']
library_dirs = ['/home/titan/skipm/src/ATLAS/lib/SunOS_Babe']
language = c
define_macros = [('NO_ATLAS_INFO', 2)]
include_dirs = ['/opt/include']
Warning: distutils distribution has been initialized, it may be too late to add an extension _dotblas
...
How can I initialize things earlier? Does it matter?
Traceback (most recent call last):
File "setup.py", line 76, in ?
setup_package()
File "setup.py", line 63, in setup_package
config.add_subpackage('numpy')
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 592, in add_subpackage
config_list = self.get_subpackage(subpackage_name,subpackage_path)
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 582, in get_subpackage
subpackage_path)
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 539, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "/home/ink/skipm/src/numpy/numpy/setup.py", line 10, in configuration
config.add_subpackage('core')
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 592, in add_subpackage
config_list = self.get_subpackage(subpackage_name,subpackage_path)
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 582, in get_subpackage
subpackage_path)
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 539, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "numpy/core/setup.py", line 215, in configuration
config.add_data_dir('tests')
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 636, in add_data_dir
self.add_data_files((ds,filenames))
File "/home/ink/skipm/src/numpy/numpy/distutils/misc_util.py", line 702, in add_data_files
dist.data_files.extend(data_dict.items())
AttributeError: 'NoneType' object has no attribute 'extend'
And finally, a traceback. What's up with that?
In parallel with trying to build with ATLAS I'm also trying Travis's
suggestion of explicitly setting PTATLAS, ATLAS and BLAS to "None". Numpy
builds when I do that.
--
Skip Montanaro - skip at pobox.com
"The values to which people cling most stubbornly under inappropriate
conditions are those values that were previously the source of their
greatest triumphs over adversity." -- Jared Diamond in "Collapse"
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