Ticket #21625: scipy-0.17.1.p0.log

File scipy-0.17.1.p0.log, 12.3 KB (added by jdemeyer, 3 years ago)

Log of failed scipy build

Line 
1Found local metadata for scipy-0.17.1.p0
2Using cached file /opt/sage/sage-git/upstream/scipy-0.17.1.tar.gz
3scipy-0.17.1.p0
4====================================================
5Setting up build directory for scipy-0.17.1.p0
6Finished extraction
7****************************************************
8Host system:
9Linux sage3 3.2.1-gentoo-r2 #15 SMP Tue May 15 10:40:50 CEST 2012 x86_64 Intel(R) Xeon(R) CPU X5660 @ 2.80GHz GenuineIntel GNU/Linux
10****************************************************
11C compiler: gcc
12C compiler version:
13Using built-in specs.
14COLLECT_GCC=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.3/gcc
15COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-pc-linux-gnu/4.9.3/lto-wrapper
16Target: x86_64-pc-linux-gnu
17Configured with: /var/tmp/portage/sys-devel/gcc-4.9.3/work/gcc-4.9.3/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/usr --bindir=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.3 --includedir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.3/include --datadir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.3 --mandir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.3/man --infodir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.3/info --with-gxx-include-dir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.3/include/g++-v4 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/4.9.3/python --enable-languages=c,c++,fortran --enable-obsolete --enable-secureplt --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 4.9.3 p1.5, pie-0.6.4' --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --enable-multilib --with-multilib-list=m32,m64 --disable-altivec --disable-fixed-point --enable-targets=all --disable-libgcj --enable-libgomp --disable-libmudflap --disable-libssp --disable-libcilkrts --enable-vtable-verify --enable-libvtv --enable-lto --without-cloog --enable-libsanitizer
18Thread model: posix
19gcc version 4.9.3 (Gentoo 4.9.3 p1.5, pie-0.6.4)
20****************************************************
21Note: CFLAGS, CXXFLAGS and SHAREDFLAGS are taken from distutils,
22      so their current settings are ignored.
23/opt/sage/sage-git/local/lib/python/distutils/dist.py:267: UserWarning: Unknown distribution option: 'install_requires'
24  warnings.warn(msg)
25/opt/sage/sage-git/local/lib/python/distutils/dist.py:267: UserWarning: Unknown distribution option: 'setup_requires'
26  warnings.warn(msg)
27/opt/sage/sage-git/local/lib/python/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_suite'
28  warnings.warn(msg)
29Installing package scipy using pip
30Ignoring indexes: https://pypi.python.org/simple
31Processing /opt/sage/sage-git/local/var/tmp/sage/build/scipy-0.17.1.p0/src
32  Running setup.py (path:/tmp/pip-gqTqkm-build/setup.py) egg_info for package from file:///opt/sage/sage-git/local/var/tmp/sage/build/scipy-0.17.1.p0/src
33    Running command python setup.py egg_info
34    running egg_info
35    creating pip-egg-info/scipy.egg-info
36    writing pip-egg-info/scipy.egg-info/PKG-INFO
37    writing top-level names to pip-egg-info/scipy.egg-info/top_level.txt
38    writing dependency_links to pip-egg-info/scipy.egg-info/dependency_links.txt
39    writing manifest file 'pip-egg-info/scipy.egg-info/SOURCES.txt'
40    warning: manifest_maker: standard file '-c' not found
41
42    reading manifest file 'pip-egg-info/scipy.egg-info/SOURCES.txt'
43    reading manifest template 'MANIFEST.in'
44    warning: no previously-included files matching '*_subr_*.f' found under directory 'scipy/linalg/src/id_dist/src'
45    no previously-included directories found matching 'benchmarks/env'
46    no previously-included directories found matching 'benchmarks/results'
47    no previously-included directories found matching 'benchmarks/html'
48    no previously-included directories found matching 'benchmarks/scipy'
49    no previously-included directories found matching 'scipy/special/tests/data/boost'
50    no previously-included directories found matching 'scipy/special/tests/data/gsl'
51    no previously-included directories found matching 'doc/build'
52    no previously-included directories found matching 'doc/source/generated'
53    no previously-included directories found matching '*/__pycache__'
54    warning: no previously-included files matching '*~' found anywhere in distribution
55    warning: no previously-included files matching '*.bak' found anywhere in distribution
56    warning: no previously-included files matching '*.swp' found anywhere in distribution
57    warning: no previously-included files matching '*.pyo' found anywhere in distribution
58    writing manifest file 'pip-egg-info/scipy.egg-info/SOURCES.txt'
59  Source in /tmp/pip-gqTqkm-build has version 0.17.1, which satisfies requirement scipy==0.17.1 from file:///opt/sage/sage-git/local/var/tmp/sage/build/scipy-0.17.1.p0/src
60Installing collected packages: scipy
61  Running setup.py install for scipy: started
62    Running command /opt/sage/sage-git/local/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-gqTqkm-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-rYaGbz-record/install-record.txt --single-version-externally-managed --compile
63    lapack_opt_info:
64    openblas_lapack_info:
65    Disabled openblas_lapack_info: (OPENBLAS is None)
66      libraries openblas not found in []
67      NOT AVAILABLE
68
69    lapack_mkl_info:
70    mkl_info:
71      libraries mkl,vml,guide not found in ['/opt/sage/sage-git/local/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/']
72      NOT AVAILABLE
73
74      NOT AVAILABLE
75
76    atlas_3_10_threads_info:
77    Disabled atlas_3_10_threads_info: (PTATLAS is None)
78    <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
79      NOT AVAILABLE
80
81    atlas_3_10_info:
82    Disabled atlas_3_10_info: (ATLAS is None)
83    <class 'numpy.distutils.system_info.atlas_3_10_info'>
84      NOT AVAILABLE
85
86    atlas_threads_info:
87    Disabled atlas_threads_info: (PTATLAS is None)
88    <class 'numpy.distutils.system_info.atlas_threads_info'>
89      NOT AVAILABLE
90
91    atlas_info:
92    Disabled atlas_info: (ATLAS is None)
93    <class 'numpy.distutils.system_info.atlas_info'>
94      NOT AVAILABLE
95
96    /opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/system_info.py:1548: UserWarning:
97        Atlas (http://math-atlas.sourceforge.net/) libraries not found.
98        Directories to search for the libraries can be specified in the
99        numpy/distutils/site.cfg file (section [atlas]) or by setting
100        the ATLAS environment variable.
101      warnings.warn(AtlasNotFoundError.__doc__)
102    lapack_info:
103      libraries lapack not found in ['/opt/sage/sage-git/local/lib']
104    Library lapack was not found. Ignoring
105      libraries lapack not found in ['', '']
106    Runtime library lapack was not found. Ignoring
107      FOUND:
108        libraries = ['openblas']
109        library_dirs = ['/opt/sage/sage-git/local/lib']
110        language = f77
111
112    blas_info:
113      libraries openblas,openblas not found in ['/opt/sage/sage-git/local/lib']
114      NOT AVAILABLE
115
116    /opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/system_info.py:1571: UserWarning:
117        Blas (http://www.netlib.org/blas/) libraries not found.
118        Directories to search for the libraries can be specified in the
119        numpy/distutils/site.cfg file (section [blas]) or by setting
120        the BLAS environment variable.
121      warnings.warn(BlasNotFoundError.__doc__)
122    blas_src_info:
123      NOT AVAILABLE
124
125    /opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/system_info.py:1574: UserWarning:
126        Blas (http://www.netlib.org/blas/) sources not found.
127        Directories to search for the sources can be specified in the
128        numpy/distutils/site.cfg file (section [blas_src]) or by setting
129        the BLAS_SRC environment variable.
130      warnings.warn(BlasSrcNotFoundError.__doc__)
131      NOT AVAILABLE
132
133    Running from scipy source directory.
134    Traceback (most recent call last):
135      File "<string>", line 1, in <module>
136      File "/tmp/pip-gqTqkm-build/setup.py", line 265, in <module>
137        setup_package()
138      File "/tmp/pip-gqTqkm-build/setup.py", line 262, in setup_package
139        setup(**metadata)
140      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/core.py", line 135, in setup
141        config = configuration()
142      File "/tmp/pip-gqTqkm-build/setup.py", line 182, in configuration
143        config.add_subpackage('scipy')
144      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 1003, in add_subpackage
145        caller_level = 2)
146      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 972, in get_subpackage
147        caller_level = caller_level + 1)
148      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 909, in _get_configuration_from_setup_py
149        config = setup_module.configuration(*args)
150      File "scipy/setup.py", line 15, in configuration
151        config.add_subpackage('linalg')
152      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 1003, in add_subpackage
153        caller_level = 2)
154      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 972, in get_subpackage
155        caller_level = caller_level + 1)
156      File "/opt/sage/sage-git/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 909, in _get_configuration_from_setup_py
157        config = setup_module.configuration(*args)
158      File "scipy/linalg/setup.py", line 20, in configuration
159        raise NotFoundError('no lapack/blas resources found')
160    numpy.distutils.system_info.NotFoundError: no lapack/blas resources found
161    Running setup.py install for scipy: finished with status 'error'
162Cleaning up...
163  Removing source in /tmp/pip-gqTqkm-build
164Command "/opt/sage/sage-git/local/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-gqTqkm-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-rYaGbz-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-gqTqkm-build/
165Exception information:
166Traceback (most recent call last):
167  File "/opt/sage/sage-git/local/lib/python2.7/site-packages/pip/basecommand.py", line 215, in main
168    status = self.run(options, args)
169  File "/opt/sage/sage-git/local/lib/python2.7/site-packages/pip/commands/install.py", line 317, in run
170    prefix=options.prefix_path,
171  File "/opt/sage/sage-git/local/lib/python2.7/site-packages/pip/req/req_set.py", line 742, in install
172    **kwargs
173  File "/opt/sage/sage-git/local/lib/python2.7/site-packages/pip/req/req_install.py", line 880, in install
174    spinner=spinner,
175  File "/opt/sage/sage-git/local/lib/python2.7/site-packages/pip/utils/__init__.py", line 718, in call_subprocess
176    % (command_desc, proc.returncode, cwd))
177InstallationError: Command "/opt/sage/sage-git/local/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-gqTqkm-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-rYaGbz-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-gqTqkm-build/
178Error installing scipy.
179
180real    0m5.728s
181user    0m3.676s
182sys     0m0.596s
183************************************************************************
184Error installing package scipy-0.17.1.p0
185************************************************************************
186Please email sage-devel (http://groups.google.com/group/sage-devel)
187explaining the problem and including the relevant part of the log file
188  /opt/sage/sage-git/logs/pkgs/scipy-0.17.1.p0.log
189Describe your computer, operating system, etc.
190If you want to try to fix the problem yourself, *don't* just cd to
191/opt/sage/sage-git/local/var/tmp/sage/build/scipy-0.17.1.p0 and type 'make' or whatever is appropriate.
192Instead, the following commands setup all environment variables
193correctly and load a subshell for you to debug the error:
194  (cd '/opt/sage/sage-git/local/var/tmp/sage/build/scipy-0.17.1.p0' && '/opt/sage/sage-git/sage' --sh)
195When you are done debugging, you can type "exit" to leave the subshell.
196************************************************************************