Unable to install python scipy in suse 11.3 -
i unable install scipy in suse 11.3.
i followed docs in link:
i installed:
lapack atlas then git clone scipy , ran python setup.py install, keep getting these errors. there steps missed?
/usr/local/lib64/python2.6/site-packages/numpy/core/include/numpy/__ufunc_api.h:241:1: warning: ‘_import_umath’ defined not used [-wunused-function] _import_umath(void) ^ gcc -pthread -shared build/temp.linux-x86_64-2.6/scipy/cluster/_vq.o -l/usr/local/lib64 -l/usr/lib64 -lbuild/temp.linux-x86_64-2.6 -llapack -lptf77blas -lptcblas -latlas -lpython2.6 -o build/lib.linux-x86_64-2.6/scipy/cluster/_vq.so /usr/bin/ld: /usr/local/lib64/libptf77blas.a(sgemm.o): relocation r_x86_64_32 against `.rodata' can not used when making shared object; recompile -fpic /usr/local/lib64/libptf77blas.a: not read symbols: bad value collect2: error: ld returned 1 exit status /usr/bin/ld: /usr/local/lib64/libptf77blas.a(sgemm.o): relocation r_x86_64_32 against `.rodata' can not used when making shared object; recompile -fpic /usr/local/lib64/libptf77blas.a: not read symbols: bad value collect2: error: ld returned 1 exit status error: command "gcc -pthread -shared build/temp.linux-x86_64-2.6/scipy/cluster/_vq.o -l/usr/local/lib64 -l/usr/lib64 -lbuild/temp.linux-x86_64-2.6 -llapack -lptf77blas -lptcblas -latlas -lpython2.6 -o build/lib.linux-x86_64-2.6/scipy/cluster/_vq.so" failed exit status 1 error when installing git:
/usr/local/lib64/python2.6/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "using deprecated numpy api, disable " "#defining npy_no_deprecated_api npy_1_7_api_version" [-wcpp] #warning "using deprecated numpy api, disable " \ ^ scipy/cluster/_vq.c: in function ‘__pyx_fuse_0__pyx_f_5scipy_7cluster_3_vq_cal_m’: scipy/cluster/_vq.c:1538:3: warning: implicit declaration of function ‘sgemm_’ [-wimplicit-function-declaration] f_sgemm(__pyx_k_t, __pyx_k_n, (&__pyx_v_ncodes), (&__pyx_v_nobs), (&__pyx_v_nfeat), (&__pyx_v_alpha), __pyx_v_code_book, (&__pyx_v_nfeat), __pyx_v_obs, (&__pyx_v_nfeat), (&__pyx_v_beta), __pyx_v_m, (&__pyx_v_ncodes)); ^ scipy/cluster/_vq.c: in function ‘__pyx_fuse_1__pyx_f_5scipy_7cluster_3_vq_cal_m’: scipy/cluster/_vq.c:1575:3: warning: implicit declaration of function ‘dgemm_’ [-wimplicit-function-declaration] f_dgemm(__pyx_k_t, __pyx_k_n, (&__pyx_v_ncodes), (&__pyx_v_nobs), (&__pyx_v_nfeat), (&__pyx_v_alpha), __pyx_v_code_book, (&__pyx_v_nfeat), __pyx_v_obs, (&__pyx_v_nfeat), (&__pyx_v_beta), __pyx_v_m, (&__pyx_v_ncodes)); ^ in file included /usr/local/lib64/python2.6/site-packages/numpy/core/include/numpy/ufuncobject.h:317:0, scipy/cluster/_vq.c:243: scipy/cluster/_vq.c: @ top level: /usr/local/lib64/python2.6/site-packages/numpy/core/include/numpy/__ufunc_api.h:241:1: warning: ‘_import_umath’ defined not used [-wunused-function] _import_umath(void) ^ gcc -pthread -shared build/temp.linux-x86_64-2.6/scipy/cluster/_vq.o -l/usr/local/lib64 -l/usr/lib64 -lbuild/temp.linux-x86_64-2.6 -llapack -lptf77blas -lptcblas -latlas -lpython2.6 -o build/lib.linux-x86_64-2.6/scipy/cluster/_vq.so /usr/bin/ld: /usr/local/lib64/libptf77blas.a(sgemm.o): relocation r_x86_64_32 against `.rodata' can not used when making shared object; recompile -fpic /usr/local/lib64/libptf77blas.a: not read symbols: bad value collect2: error: ld returned 1 exit status /usr/bin/ld: /usr/local/lib64/libptf77blas.a(sgemm.o): relocation r_x86_64_32 against `.rodata' can not used when making shared object; recompile -fpic /usr/local/lib64/libptf77blas.a: not read symbols: bad value collect2: error: ld returned 1 exit status error: command "gcc -pthread -shared build/temp.linux-x86_64-2.6/scipy/cluster/_vq.o -l/usr/local/lib64 -l/usr/lib64 -lbuild/temp.linux-x86_64-2.6 -llapack -lptf77blas -lptcblas -latlas -lpython2.6 -o build/lib.linux-x86_64-2.6/scipy/cluster/_vq.so" failed exit status 1 ---------------------------------------- cleaning up... command /usr/bin/python -c "import setuptools, tokenize;__file__='/tmp/pip-5ylcsa-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-86pqof-record/install-record.txt --single-version-externally-managed --compile failed error code 1 in /tmp/pip-5ylcsa-build traceback (most recent call last): file "/usr/local/bin/pip", line 8, in <module> load_entry_point('pip==1.5.6', 'console_scripts', 'pip')() file "/usr/local/lib64/python2.6/site-packages/pip-1.5.6-py2.6.egg/pip/__init__.py", line 185, in main return command.main(cmd_args) file "/usr/local/lib64/python2.6/site-packages/pip-1.5.6-py2.6.egg/pip/basecommand.py", line 161, in main text = '\n'.join(complete_log) unicodedecodeerror: 'ascii' codec can't decode byte 0xe2 in position 51: ordinal not in range(128)
your problem blas / atlas - version have installed , scipy trying link has not been compiled -fpic option. indicated in error message see. here discussion of issue , resolution - in summary have version static libraries (.a) rather shared libraries (.so).
note scipy install pages (their emphasis):
there no comfortable way use atlas on opensuse.
it's - can find version suitable installation on system has compiled option, use blas + lapack instead of atlas, or can compile atlas yourself. instructions on how compile are here. specifics on adding -fpic option are here.
it should noted scipy docs tell use ashigabou repositories, links broken. google reveals this repository. contents old, allow follow process on page linked exactly, think.
i noticed if download atlas sourceforge page in version > 3.9.4, can see in changelog developers:
- added beta support auto-building shared/dynamic libraries when user passes --shared configure (no need explicitly set compiler flags [eg., -fpic] of known compilers):
- not tested, appears work windows, os x , linux
- now referenced in make install, present process crude
- with --nof77, clapack reather lapack; want logical link of lapack
i.e. should able pass --shared configure build wish.
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