| Summary: | The linalg module from scipy cannot be loaded | ||
|---|---|---|---|
| Product: | [Fedora] Fedora | Reporter: | Dominique Delande <Dominique.Delande> |
| Component: | scipy | Assignee: | Jef Spaleta <jspaleta> |
| Status: | CLOSED NOTABUG | QA Contact: | Fedora Extras Quality Assurance <extras-qa> |
| Severity: | high | Docs Contact: | |
| Priority: | unspecified | ||
| Version: | 15 | CC: | gwync, jspaleta, orion, tomspur |
| Target Milestone: | --- | ||
| Target Release: | --- | ||
| Hardware: | x86_64 | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Fixed In Version: | Doc Type: | Bug Fix | |
| Doc Text: | Story Points: | --- | |
| Clone Of: | Environment: | ||
| Last Closed: | 2011-06-19 19:30:06 UTC | Type: | --- |
| Regression: | --- | Mount Type: | --- |
| Documentation: | --- | CRM: | |
| Verified Versions: | Category: | --- | |
| oVirt Team: | --- | RHEL 7.3 requirements from Atomic Host: | |
| Cloudforms Team: | --- | Target Upstream Version: | |
This highly sounds like bug #709782. Could you please give the output of: python -c "from scipy import linalg" echo $PYTHONPATH echo $LD_LIBRARY_PATH rpm -qa | grep atlas rpm -qa | grep lapack Should be a bug with your installation (and proper lapack.so is found before atlas lapack). I cannot reproduce this on a clean F15. I bet this is an LD_LIBRARY_PATH issue for sure. <rant> LD_LIBRARY_PATH is such a huge pain sometimes. There are so many pieces of poorly engineered scientific computing codebeases out in the wild which instruct users to manipulate LD_LIBRARY_PATH in top level shell configs to work around old or missing system libraries, and it causes so many problems. </rant> I checked my LD_LIBRARY_PATH and, indeed, /usr/lib64/atlas was absent, due to some manipulation done in my .bashrc file. Thus, it picked the lapack library in /usr/lib64, the one from the lapack package. I apologize for the mistake. I think that the bug can be closed. |
Description of problem: when trying to use the linalg module from scipy, it fails because of "clapack_sgesv" undefined symbol Version-Release number of selected component (if applicable): scipy-0.9.0-1.fc15.x86_64 How reproducible: always Steps to Reproduce: 1. Start a python interpreter (tested with 2.7.1 (r271:86832, Apr 12 2011, 16:15:16) from Fedora 15) 2.Type "from scipy import linalg" inside the interpreter 3. Actual results: Error message: Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/usr/lib64/python2.7/site-packages/scipy/linalg/__init__.py", line 9, in <module> from basic import * File "/usr/lib64/python2.7/site-packages/scipy/linalg/basic.py", line 14, in <module> from lapack import get_lapack_funcs File "/usr/lib64/python2.7/site-packages/scipy/linalg/lapack.py", line 15, in <module> from scipy.linalg import clapack ImportError: /usr/lib64/python2.7/site-packages/scipy/linalg/clapack.so: undefined symbol: clapack_sgesv >>> Expected results: Loading of the module Additional info: Googling reports similar observations, but no workaround