this is what I get [escobar@login18 easybuild-easyconfigs]$ eb --help|head /usr/lib/python2.6/site-packages/keyring/backend.py:16: UserWarning: Module easybuild was already imported from /scicore/soft/apps/EasyBuild/2.6.0/lib/python2.6/site-packages/easybuild_framework-2.6.0-py2.6.egg/easybuild/__init__.pyc, but /scicore/soft/apps/EasyBuild/2.6.0/lib/python2.6/site-packages/easybuild_easyblocks-2.6.0-py2.6.egg is being added to sys.path import pkg_resources
2016-02-05 11:11 GMT+01:00 Kenneth Hoste <[email protected]>: > Hi Pablo, > > Do you get both "Module vsc was already imported" and "Module easybuild > was already imported" warnings on this system? > > > K. > > > On 05/02/16 11:05, Pablo Escobar Lopez wrote: > > in case it helps, I have noticed that I only get these warnings in the > machine were i have python-keyring installed. > > this is my output for the command that Kenneth asks (identical is the > machine which triggers the warning and in the machine which doesn't trigger > the warning) > > [escobar@login18 easybuild-easyconfigs]$ python -c 'import sys;print > sys.version;import vsc;print vsc.__path__;import easybuild;print > easybuild.__path__' > 2.6.6 (r266:84292, Jan 22 2014, 09:42:36) > [GCC 4.4.7 20120313 (Red Hat 4.4.7-4)] > > ['/scicore/soft/apps/EasyBuild/2.6.0/lib/python2.6/site-packages/vsc_base-2.2.4-py2.6.egg/vsc'] > ['/scicore/soft/apps/EasyBuild/2.6.0/lib/python2.6/site-packages/easybuild_framework-2.6.0-py2.6.egg/easybuild', > '/scicore/soft/apps/EasyBuild/2.6.0/lib/python2.6/site-packages/easybuild_easyblocks-2.6.0-py2.6.egg/easybuild'] > > 2016-02-05 10:06 GMT+01:00 Kenneth Hoste <[email protected]>: > >> Hi Judith, >> >> We're looking into a solution for these warnings, both in vsc-base and >> EasyBuild, see also >> https://github.com/hpcugent/easybuild-framework/issues/1588 >> >> Can you provide us the output of the following command? >> >> python -c 'import sys;print sys.version;import vsc;print >> vsc.__path__;import easybuild;print easybuild.__path__' >> >> >> regards, >> >> Kenneth >> >> >> On 03/02/16 19:13, Kenneth Hoste wrote: >> >> Hi Judith, >> >> On 28/01/16 22:37, Gardiner, Judith wrote: >> >> [ruby01]$ eb --version >> >> /usr/local/easybuild/2.6.0/software/EasyBuild/2.6.0/lib/python2.6/site-packages/vsc_base-2.4.16-py2.6.egg/vsc/__init__.py:29: >> UserWarning: Module vsc was already imported from >> /usr/local/easybuild/2.6.0/software/EasyBuild/2.6.0/lib/python2.6/site-packages/vsc_base-2.4.16-py2.6.egg/vsc/__init__.pyc, >> but >> /usr/local/easybuild/2.6.0/software/EasyBuild/2.6.0/lib/python2.6/site-packages/vsc_install-0.9.12-py2.6.egg >> is being added to sys.path >> >> import pkg_resources >> >> /usr/local/easybuild/2.6.0/software/EasyBuild/2.6.0/lib/python2.6/site-packages/vsc_base-2.4.16-py2.6.egg/vsc/__init__.py:29: >> UserWarning: Module easybuild was already imported from >> /usr/local/easybuild/2.6.0/software/EasyBuild/2.6.0/lib/python2.6/site-packages/easybuild_framework-2.6.0-py2.6.egg/easybuild/__init__.pyc, >> but >> /usr/local/easybuild/2.6.0/software/EasyBuild/2.6.0/lib/python2.6/site-packages/easybuild_easyblocks-2.6.0-py2.6.egg >> is being added to sys.path >> >> import pkg_resources >> >> This is EasyBuild 2.6.0 (framework: 2.6.0, easyblocks: 2.6.0) on host >> ruby01.osc.edu. >> >> >> >> First of all, these warnings are harmless in the sense that everything >> will work even though they are being spit out. >> I agree they are ugly though, and we should try and get rid of them. >> >> The problem is that vsc-base was split up recently, into what vsc-base is >> now and vsc-install, which provides support for installing/testing vsc-* >> packages. >> >> This implies that the 'vsc' namespace is spread across two different >> directories now, and that "import vsc" in Python will result in reading >> vsc/__init__.py from two different places. Python (or setuptools?) thinks >> this is weird, and throws the warnings. >> >> Same applies to the 'easybuild' namespace, which is imported from two >> locations (framework & easyblocks). >> >> This is a well known issue, and there are workaround to just silence the >> warning [1,2], but that's probably not the best way to 'fix' this issue. >> >> We're actually getting it too on our systems, but not consistently, it >> depends on how you install EasyBuild (an I *think* also on the version of >> setuptools, but I'm not sure about that). >> >> I've opened an issue on this in the EasyBuild framework repository on >> GitHub [3], and tagged it to try and fix this by the next EasyBuild release. >> >> >> regards, >> >> Kenneth >> >> [1] >> http://stackoverflow.com/questions/7239518/module-pytz-was-already-imported >> [2] >> http://stackoverflow.com/questions/3861336/how-do-you-correct-module-already-loaded-userwarnings-in-python >> [3] https://github.com/hpcugent/easybuild-framework/issues/1588 >> >> >> > > > -- > Pablo Escobar López > HPC systems engineer > sciCORE, University of Basel > SIB Swiss Institute of Bioinformatics > http://scicore.unibas.ch > > > -- Pablo Escobar López HPC systems engineer sciCORE, University of Basel SIB Swiss Institute of Bioinformatics http://scicore.unibas.ch
