Hi Jordan, if you want to use MacPyMOL with other libraries then I recommend to use the "syspython" version that we offer (installer named MacPyMOL-v1.7.x.x-syspython.dmg). It simply does not bundle a Python distribution, but uses /usr/bin/python2.7 to run MacPyMOL.
Related: https://sourceforge.net/p/pymol/mailman/message/33531659/ Cheers, Thomas On 21 Jun 2015, at 21:44, Jordan Willis <jwillis0...@gmail.com> wrote: > Hi, > > I’m trying to use the pandas library with MacPymol 1.7.05 but get the > following with import pandas. > > File "/Library/Python/2.7/site-packages/pandas/__init__.py", line 6, in > <module> > from . import hashtable, tslib, lib > File "numpy.pxd", line 157, in init pandas.hashtable > (pandas/hashtable.c:22315) > ValueError: numpy.dtype has the wrong size, try recompiling > > Obviously there is some conflict with PyMOLs python interpreter and the > interpreter I installed pandas with. That’s fine, I’ll just compile pandas > against PyMOLs python library, but I don’t know how to do it. > > I used pip within pymol > > python > import pip > pip.main([‘install’,’pandas’,’—reinstall’]) > python end > > > but got something wrong with the certificate in the pypy server > > /Applications/MacPyMOL.app/Contents/MacOS/MacPyMOL run on Sun Jun 21 18:35:15 > 2015 > Getting page https://pypi.python.org/simple/pandas/ > Could not fetch URL https://pypi.python.org/simple/pandas/: connection error: > [Errno 1] _ssl.c:504: error:14090086:SSL > routines:SSL3_GET_SERVER_CERTIFICATE:certificate verify failed > > . I thought before I dug too deep, I would check with the list to see if > anyone has added the pandas library that is compatible with pymol. Or more > generally, how would one install third party libraries for use with pymol. If > you don’t use pandas, I highly recommend it. It’s incredibly useful for > manipulating data and it would be very handy to have with pymol scrips. > > Jordan -- Thomas Holder PyMOL Principal Developer Schrödinger, Inc. ------------------------------------------------------------------------------ Monitor 25 network devices or servers for free with OpManager! OpManager is web-based network management software that monitors network devices and physical & virtual servers, alerts via email & sms for fault. Monitor 25 devices for free with no restriction. Download now http://ad.doubleclick.net/ddm/clk/292181274;119417398;o _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
