Hi Wim,
Segfaults can be hard to track without the ability to reproduce (not much
you can do about for now, this seems something specific to your system).
Do you have an environment variable R_HOME defined ? What are your
LD_LIBRARY_PATH like ? Is your customized with ${R_HOME}/etc or ~/.R ? What
does the shell command "R CMD config BLAS_LIBS" return ?
L.
2016-12-07 12:12 GMT-05:00 Wim R. Cardoen <wcard...@gmail.com>:
> Hello,
>
> I compiled R v 3.3.2 with openblas (single threaded version).
> uname -a
> >Linux dirac.chpc.utah.edu 3.10.0-327.36.3.el7.x86_64 #1 SMP Mon Oct 24
> 16:09:20 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux
>
> gcc:
> gcc version 4.8.5 20150623 (Red Hat 4.8.5-4) (GCC)
>
> After installing the 2.9.0dev version of RPy2 (python 2.7.12) the tests
> crashed:
>
> python -m rpy2.tests -v
> rpy2 version: 2.9.0dev
> - built against R version: 3-3.2--71607
> - running linked to R version: R version 3.3.2 (2016-10-31)
> /uufs/chpc.utah.edu/sys/installdir/python/2.7.12bb/
> lib/python2.7/site-packages/rpy2-2.9.0.dev0-py2.7-linux-
> x86_64.egg/rpy2/robjects/lib/ggplot2.py:67: UserWarning: This was
> designed againt ggplot2 version 2.1.0 but you have 2.2.0
> warnings.warn('This was designed againt ggplot2 version %s but you have
> %s' % (TARGET_VERSION, ggplot2.__version__))
> testCallErrorWhenEndedR (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ... ok
> testConsolePrint (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ...
> ok
> testExternalPython (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ... ok
> testExternalPythonFromExpression
> (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ... ok
> testGet_initoptions (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ... ok
> testInitr (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ... ok
> testInterruptR (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ... ok
> testParse (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ... ok
> testParseError (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ... ok
> testParseIncompleteError (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ... ok
> testParseInvalidString (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ... ok
> testParseUnicode (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ...
> ok
> testRpyMemory (rinterface.tests.test_EmbeddedR.EmbeddedRTestCase) ...
> Segmentation fault (core dumped)
>
> Any idea what went wrong? Please let me know if you need more info.
>
> Thanks,
>
> Wim
>
> ------------------------------------------------------------
> ------------------
> Developer Access Program for Intel Xeon Phi Processors
> Access to Intel Xeon Phi processor-based developer platforms.
> With one year of Intel Parallel Studio XE.
> Training and support from Colfax.
> Order your platform today.http://sdm.link/xeonphi
> _______________________________________________
> rpy-list mailing list
> rpy-list@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/rpy-list
>
>
------------------------------------------------------------------------------
Developer Access Program for Intel Xeon Phi Processors
Access to Intel Xeon Phi processor-based developer platforms.
With one year of Intel Parallel Studio XE.
Training and support from Colfax.
Order your platform today.http://sdm.link/xeonphi
_______________________________________________
rpy-list mailing list
rpy-list@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/rpy-list
