I am am not sure if this is a configuration issue or not but here is what happens to me on a recent Gentoo installation: >>> Source compiled. >>> Test phase [not enabled]: sci-libs/blas-reference-20120215-r1 >>> Install blas-reference-20120215-r1 into /var/tmp/portage/sci-libs/blas-reference-20120215-r1/image/ category sci-libs >>> Working in BUILD_DIR: "/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build" make -j5 DESTDIR=/var/tmp/portage/sci-libs/blas-reference-20120215-r1/image/ -C BLAS install make: Entering directory `/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build/BLAS' make[1]: Entering directory `/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build' make[2]: Entering directory `/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build' make[2]: Leaving directory `/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build' [100%] Built target refblas make[1]: Leaving directory `/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build' Install the project... -- Install configuration: "Gentoo" -- Installing: /var/tmp/portage/sci-libs/blas-reference-20120215-r1/image/usr/lib64/pkgconfig/refblas.pc -- Installing: /var/tmp/portage/sci-libs/blas-reference-20120215-r1/image/usr/lib64/librefblas.so make: Leaving directory `/var/tmp/portage/sci-libs/blas-reference-20120215-r1/work/blas-reference-20120215_build/BLAS' >>> Completed installing blas-reference-20120215-r1 into /var/tmp/portage/sci-libs/blas-reference-20120215-r1/image/ >>> Installing (1 of 1) sci-libs/blas-reference-20120215-r1 !!! Error: Can't load module blas exiting !!! Error: Can't load module blas exiting * Removed reference alternative module for blas, current is * Creating reference alternative module for blas !!! Error: Can't load module blas exiting >>> Auto-cleaning packages... >>> No outdated packages were found on your system. python-updater nor "revdep-rebuild -i" found anything to be recompiled. :( However, my programs give me: from matplotlib import colors File "/usr/lib64/python2.7/site-packages/matplotlib/__init__.py", line 133, in <module> from matplotlib.rcsetup import (defaultParams, File "/usr/lib64/python2.7/site-packages/matplotlib/rcsetup.py", line 19, in <module> from matplotlib.colors import is_color_like File "/usr/lib64/python2.7/site-packages/matplotlib/colors.py", line 52, in <module> import numpy as np File "/usr/lib64/python2.7/site-packages/numpy/__init__.py", line 137, in <module> import add_newdocs File "/usr/lib64/python2.7/site-packages/numpy/add_newdocs.py", line 9, in <module> from numpy.lib import add_newdoc File "/usr/lib64/python2.7/site-packages/numpy/lib/__init__.py", line 13, in <module> from polynomial import * File "/usr/lib64/python2.7/site-packages/numpy/lib/polynomial.py", line 17, in <module> from numpy.linalg import eigvals, lstsq File "/usr/lib64/python2.7/site-packages/numpy/linalg/__init__.py", line 48, in <module> from linalg import * File "/usr/lib64/python2.7/site-packages/numpy/linalg/linalg.py", line 23, in <module> from numpy.linalg import lapack_lite ImportError: /usr/lib64/python2.7/site-packages/numpy/linalg/lapack_lite.so: undefined symbol: dpotrf_ Here is what I have at the moment installed: # emerge -pv blas lapack blas-reference blas-atlas These are the packages that would be merged, in order: Calculating dependencies... done! [ebuild R ] virtual/lapack-3.3::science USE="-doc" 0 kB [ebuild R ] sci-libs/blas-reference-20120215-r1::science USE="-static-libs -test" 0 kB [ebuild R ] virtual/blas-2.1::science USE="-doc" 0 kB [ebuild N ] app-admin/eselect-blas-0.1 0 kB [ebuild N ] app-admin/eselect-cblas-0.1 0 kB [uninstall ] sci-libs/gsl-1.15-r2::science USE="-static-libs" [ebuild N ] sci-libs/blas-atlas-3.9.23-r4 USE="-doc" 4,776 kB [blocks B ] app-admin/eselect-blas ("app-admin/eselect-blas" is blocking sci-libs/gsl-1.15-r2, sci-libs/blas-reference-20120215-r1, sci-libs/lapack-reference-3.4.0_p20120215-r1) [blocks B ] app-admin/eselect-cblas ("app-admin/eselect-cblas" is blocking sci-libs/gsl-1.15-r2, sci-libs/blas-reference-20120215-r1, sci-libs/lapack-reference-3.4.0_p20120215-r1) Total: 6 packages (3 new, 3 reinstalls, 1 uninstall), Size of downloads: 4,776 kB Conflict: 2 blocks (2 unsatisfied)
(In reply to comment #0) > from numpy.linalg import lapack_lite > ImportError: /usr/lib64/python2.7/site-packages/numpy/linalg/lapack_lite.so: > undefined symbol: dpotrf_ Reinstalling numpy does not help, "revdep-rebuild -i" does not find any problems. Interesting. ;-) # equery belongs /usr/lib64/python2.7/site-packages/numpy/linalg/lapack_lite.so * Searching for /usr/lib64/python2.7/site-packages/numpy/linalg/lapack_lite.so ... dev-python/numpy-1.6.1-r1 (/usr/lib64/python2.7/site-packages/numpy/linalg/lapack_lite.so) #
If you are installing this version of blas-reference, it looks to me like you are trying to migrate to the new blas infrastructure from the science overlay. Now for your symbols in numpy, would you happen to have atlas installed and have it eselected as your lapack provider? If so which version? Other infos, what do eselect blas list eselect cblas list eselect lapack list return?
You need the eselect from sci overlay.
(In reply to comment #2) > If you are installing this version of blas-reference, it looks to me like you > are trying to migrate to the new blas infrastructure from the science overlay. Well, personally I do not use any of them, I just added USE="lapack blas" to my make.conf. So at this stage I expected the system to install stuff automatically for me. ;) > > Now for your symbols in numpy, would you happen to have atlas installed and > have it eselected as your lapack provider? If so which version? Neither of sci-libs/atlas, sci-libs/blas-atlas, sci-libs/lapack-atlas is installed. > > Other infos, what do > eselect blas list > eselect cblas list > eselect lapack list > return? # eselect blas list Available providers for blas: [1] reference * # eselect cblas list Available providers for cblas: [1] gsl * # eselect lapack list Available providers for lapack: [1] reference #
(In reply to comment #3) > You need the eselect from sci overlay. Looks I do have it. # emerge -pv eselect These are the packages that would be merged, in order: Calculating dependencies... done! [ebuild R ] app-admin/eselect-1.3.1-r1::science USE="-doc" 0 kB #
this might be an issue with an older tar ball. it should be fixed now. remove the lapack-3.4.0* tar balls from /usr/portage/distfiles and re-install blas-reference, gsl, and lapack-reference all from the sci overlay, then numpy.
