Gentoo Logo
Gentoo Spaceship




Note: Due to technical difficulties, the Archives are currently not up to date. GMANE provides an alternative service for most mailing lists.
c.f. bug 424647
List Archive: gentoo-science
Navigation:
Lists: gentoo-science: < Prev By Thread Next > < Prev By Date Next >
Headers:
To: gentoo-science@g.o
From: rose@...
Subject: More than 200 hundred errors in testsuite
Date: Wed, 24 Aug 2011 18:24:56 +0200
Hi,

I installed in the last days sage-4.7.1  with the ebuild from
sage-on-gentoo overlay on four systems (all x86_64 AMD and INTEL).
After the installation I run the testsuite:

cd $(mktemp -d) && sage -testall ,

which reported that between 200 and 250 tests failed. The resulting
log files (/home/rose/.sage/tmp/test.log) are between 1.5 and 3.3
MByte. One of these shorter log files is attached.

I got the message that one reason for the downgrade to numpy-1.5.1 is  
bug 371099, i.e. missing clapack_* symbols in scipy-0.9.0, if  
numpy-1.6.x is used.

My scipy-0.9.0-r1 was installed with numpy-1.6.1. I tried already to  
reinstall scipy-0.9.0-r1 (now with numpy-1.5.1), but it fails with:

...
RefactoringTool:  
/var/tmp/portage/sci-libs/scipy-0.9.0-r1/work/scipy-0.9.0/build/py3k/scipy/integrate/setup.py
/var/tmp/portage/sci-libs/scipy-0.9.0-r1/work/scipy-0.9.0/build/py3k/scipy/io/__init__.py
/var/tmp/portage/sci-libs/scipy-0.9.0-r1/work/scipy-0.9.0/build/py3k/scipy/io/matlab/mio4.py
/var/tmp/portage/sci-libs/scipy-0.9.0-r1/work/scipy-0.9.0/build/py3k/scipy/io/matlab/mio5.py
...
/var/tmp/portage/sci-libs/scipy-0.9.0-r1/work/scipy-0.9.0/build/py3k/scipy/integrate/ode.py
/var/tmp/portage/sci-libs/scipy-0.9.0-r1/work/scipy-0.9.0/build/py3k/scipy/integrate/quadpack.py
blas_opt_info:
blas_mkl_info:
   libraries mkl,vml,guide not found in /usr/local/lib64
   libraries mkl,vml,guide not found in /usr/local/lib
   libraries mkl,vml,guide not found in /usr/lib64
   libraries mkl,vml,guide not found in /usr/lib
   NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
Warning: No configuration returned, assuming  
unavailable./usr/lib64/python3.2/site-packages/numpy/distutils/system_info.py:527: UserWarning: Specified path  is  
invalid.
   warnings.warn('Specified path %s is invalid.' % d)
   libraries atlcblas,f77blas,m,atlas not found in /usr/lib64
   NOT AVAILABLE

atlas_blas_info:
   libraries atlcblas,f77blas,m,atlas not found in /usr/lib64
   NOT AVAILABLE

/usr/lib64/python3.2/site-packages/numpy/distutils/system_info.py:1399:  
UserWarning:
     Atlas (http://math-atlas.sourceforge.net/) libraries not found.
     Directories to search for the libraries can be specified in the
     numpy/distutils/site.cfg file (section [atlas]) or by setting
     the ATLAS environment variable.
   warnings.warn(AtlasNotFoundError.__doc__)
blas_info:
   libraries blas not found in /usr/local/lib64
   libraries blas not found in /usr/local/lib
   libraries blas not found in /usr/lib64
   libraries blas not found in /usr/lib
   NOT AVAILABLE

/usr/lib64/python3.2/site-packages/numpy/distutils/system_info.py:1408:  
UserWarning:
     Blas (http://www.netlib.org/blas/) libraries not found.
     Directories to search for the libraries can be specified in the
     numpy/distutils/site.cfg file (section [blas]) or by setting
     the BLAS environment variable.
   warnings.warn(BlasNotFoundError.__doc__)
blas_src_info:
   NOT AVAILABLE

/usr/lib64/python3.2/site-packages/numpy/distutils/system_info.py:1411:  
UserWarning:
     Blas (http://www.netlib.org/blas/) sources not found.
     Directories to search for the sources can be specified in the
     numpy/distutils/site.cfg file (section [blas_src]) or by setting
     the BLAS_SRC environment variable.
   warnings.warn(BlasSrcNotFoundError.__doc__)
Traceback (most recent call last):
   File "setup.py", line 181, in <module>
     setup_package()
   File "setup.py", line 173, in setup_package
     configuration=configuration )
   File "/usr/lib64/python3.2/site-packages/numpy/distutils/core.py",  
line 152, in setup
     config = configuration()
...
   File  
"/usr/lib64/python3.2/site-packages/numpy/distutils/system_info.py",  
line 461, in get_info
     raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError:
     Blas (http://www.netlib.org/blas/) libraries not found.
     Directories to search for the libraries can be specified in the
     numpy/distutils/site.cfg file (section [blas]) or by setting
     the BLAS environment variable.
  * ERROR: sci-libs/scipy-0.9.0-r1 failed (compile phase):
  *   Building failed with CPython 3.2 in distutils_building() function


Any hint?
Attachment:
sage_test_impala.log (Text Data)
Replies:
Re: More than 200 hundred errors in testsuite
-- Steven Trogdon
Navigation:
Lists: gentoo-science: < Prev By Thread Next > < Prev By Date Next >
Previous by thread:
sci-mathematics/sage-4.7.1 and numpy version
Next by thread:
Re: More than 200 hundred errors in testsuite
Previous by date:
Re: sci-mathematics/sage-4.7.1 and numpy version
Next by date:
Re: More than 200 hundred errors in testsuite


Updated Jul 05, 2012

Summary: Archive of the gentoo-science mailing list.

Donate to support our development efforts.

Copyright 2001-2013 Gentoo Foundation, Inc. Questions, Comments? Contact us.