python2.7 setup.py build --fcompiler=gnu95
Running from numpy source directory.
/home/svu/a0095654/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_suite'
warnings.warn(msg)
non-existing path in 'numpy/f2py': 'docs'
non-existing path in 'numpy/f2py': 'f2py.1'
F2PY Version 2
blas_opt_info:
blas_mkl_info:
libraries mkl,vml,guide not found in ['/home/svu/a0095654/ATLAS/build/lib']
NOT AVAILABLE
openblas_info:
libraries openblas not found in ['/home/svu/a0095654/ATLAS/build/lib']
NOT AVAILABLE
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
customize Gnu95FCompiler
Found executable /usr/bin/gfortran
customize Gnu95FCompiler
customize Gnu95FCompiler using config
compiling '_configtest.c':
/* This file is generated from numpy/distutils/system_info.py */
void ATL_buildinfo(void);
int main(void) {
ATL_buildinfo();
return 0;
}
C compiler: gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC
compile options: '-c'
gcc: _configtest.c
gcc -pthread _configtest.o -L/home/svu/a0095654/ATLAS/build/install/lib -lptf77blas -lptcblas -latlas -o _configtest
_configtest.o: In function `main':
/hpctmp/a0095654/Software/numpy-1.9.0/_configtest.c:5: undefined reference to `ATL_buildinfo'
collect2: ld returned 1 exit status
_configtest.o: In function `main':
/hpctmp/a0095654/Software/numpy-1.9.0/_configtest.c:5: undefined reference to `ATL_buildinfo'
collect2: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
Status: 255
Output: compiling '_configtest.c':
/* This file is generated from numpy/distutils/system_info.py */
void ATL_buildinfo(void);
int main(void) {
ATL_buildinfo();
return 0;
}
C compiler: gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC
compile options: '-c'
gcc: _configtest.c
gcc -pthread _configtest.o -L/home/svu/a0095654/ATLAS/build/install/lib -lptf77blas -lptcblas -latlas -o _configtest
_configtest.o: In function `main':
/hpctmp/a0095654/Software/numpy-1.9.0/_configtest.c:5: undefined reference to `ATL_buildinfo'
collect2: ld returned 1 exit status
Setting PTATLAS=ATLAS
FOUND:
libraries = ['ptf77blas', 'ptcblas', 'atlas']
library_dirs = ['/home/svu/a0095654/ATLAS/build/install/lib']
language = c
define_macros = [('ATLAS_INFO', '"\\"None\\""')]
FOUND:
libraries = ['ptf77blas', 'ptcblas', 'atlas']
library_dirs = ['/home/svu/a0095654/ATLAS/build/install/lib']
language = c
define_macros = [('ATLAS_INFO', '"\\"None\\""')]
non-existing path in 'numpy/lib': 'benchmarks'
lapack_opt_info:
openblas_lapack_info:
libraries openblas not found in ['/home/svu/a0095654/ATLAS/build/lib']
NOT AVAILABLE
lapack_mkl_info:
mkl_info:
libraries mkl,vml,guide not found in ['/home/svu/a0095654/ATLAS/build/lib']
NOT AVAILABLE
NOT AVAILABLE
atlas_threads_info:
Setting PTATLAS=ATLAS
libraries lapack_atlas not found in /home/svu/a0095654/ATLAS/build/install/lib
numpy.distutils.system_info.atlas_threads_info
Setting PTATLAS=ATLAS
/hpctmp/a0095654/Software/numpy-1.9.0/numpy/distutils/system_info.py:1095: UserWarning:
*********************************************************************
Lapack library (from ATLAS) is probably incomplete:
size of /home/svu/a0095654/ATLAS/build/install/lib/liblapack.so is 5.0673828125k (expected >4000k)
Follow the instructions in the KNOWN PROBLEMS section of the file
numpy/INSTALL.txt.
*********************************************************************
warnings.warn(message)
Setting PTATLAS=ATLAS
FOUND:
libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
library_dirs = ['/home/svu/a0095654/ATLAS/build/install/lib']
language = c
define_macros = [('ATLAS_INFO', '"\\"None\\""')]
FOUND:
libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
library_dirs = ['/home/svu/a0095654/ATLAS/build/install/lib']
language = c
define_macros = [('ATLAS_INFO', '"\\"None\\""')]
/home/svu/a0095654/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'define_macros'
warnings.warn(msg)
running build
running config_cc
unifing config_cc, config, build_clib, build_ext, build commands --compiler options
running config_fc
unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
running build_src
build_src
building py_modules sources
building library "npymath" sources
customize Gnu95FCompiler
customize Gnu95FCompiler using config
C compiler: gcc -pthread -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 -Inumpy/core/include -I/home/svu/a0095654/include/python2.7 -c'
gcc: _configtest.c
gcc -pthread _configtest.o -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
C compiler: gcc -pthread -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 -Inumpy/core/include -I/home/svu/a0095654/include/python2.7 -c'
gcc: _configtest.c
_configtest.c:1: warning: conflicting types for built-in function ‘exp’
gcc -pthread _configtest.o -o _configtest
_configtest.o: In function `main':
/hpctmp/a0095654/Software/numpy-1.9.0/_configtest.c:6: undefined reference to `exp'
collect2: ld returned 1 exit status
_configtest.o: In function `main':
/hpctmp/a0095654/Software/numpy-1.9.0/_configtest.c:6: undefined reference to `exp'
collect2: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
C compiler: gcc -pthread -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 -Inumpy/core/include -I/home/svu/a0095654/include/python2.7 -c'
gcc: _configtest.c
_configtest.c:1: warning: conflicting types for built-in function ‘exp’
gcc -pthread _configtest.o -lm -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
building library "npysort" sources
adding 'build/src.linux-x86_64-2.7/numpy/core/src/private' to include_dirs.
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
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.
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.
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.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.
adding 'build/src.linux-x86_64-2.7/numpy/core/src/umath' to include_dirs.
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.scalarmath" 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.
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.
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/scalarmathmodule.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', 'build/src.linux-x86_64-2.7/numpy/core/include/numpy/__ufunc_api.h']
building extension "numpy.core._dotblas" sources
adding 'numpy/core/blasdot/_dotblas.c' to sources.
building extension "numpy.core.umath_tests" sources
building extension "numpy.core.test_rational" sources
building extension "numpy.core.struct_ufunc_test" sources
building extension "numpy.core.multiarray_tests" sources
building extension "numpy.core.operand_flag_tests" sources
building extension "numpy.lib._compiled_base" sources
building extension "numpy.fft.fftpack_lite" sources
building extension "numpy.linalg.lapack_lite" sources
adding 'numpy/linalg/lapack_litemodule.c' to sources.
adding 'numpy/linalg/lapack_lite/python_xerbla.c' to sources.
building extension "numpy.linalg._umath_linalg" sources
adding 'numpy/linalg/umath_linalg.c.src' to sources.
adding 'numpy/linalg/lapack_lite/python_xerbla.c' to sources.
building extension "numpy.random.mtrand" sources
C compiler: gcc -pthread -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 -Inumpy/core/include -I/home/svu/a0095654/include/python2.7 -c'
gcc: _configtest.c
gcc -pthread _configtest.o -o _configtest
_configtest
failure.
removing: _configtest.c _configtest.o _configtest
building data_files sources
build_src: building npy-pkg config files
running build_py
copying numpy/version.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
copying build/src.linux-x86_64-2.7/numpy/distutils/__config__.py -> build/lib.linux-x86_64-2.7/numpy/distutils
running build_clib
customize UnixCCompiler
customize UnixCCompiler using build_clib
building 'npymath' library
compiling C sources
C compiler: gcc -pthread -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/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
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
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 -Inumpy/core/include -I/home/svu/a0095654/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -c'
gcc: numpy/core/src/npymath/halffloat.c
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npymath/ieee754.c
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npymath/npy_math.c
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npymath/npy_math_complex.c
ar: adding 4 object files to build/temp.linux-x86_64-2.7/libnpymath.a
building 'npysort' library
compiling C sources
C compiler: gcc -pthread -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 -Inumpy/core/include -I/home/svu/a0095654/include/python2.7 -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -Ibuild/src.linux-x86_64-2.7/numpy/core/src/private -c'
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/selection.c
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/quicksort.c
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/mergesort.c
gcc: build/src.linux-x86_64-2.7/numpy/core/src/npysort/binsearch.c
gcc: 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 build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
running build_scripts
adding 'build/scripts.linux-x86_64-2.7/f2py2.7' to scripts