[phenixbb] Missing plotting libraries

Leigh Allen c.leigh.allen at gmail.com
Mon May 4 09:17:00 PDT 2009


I downloaded the newest nightly build per Nathaniel Echols' instructions. I
was trying to fix the following error:

A Python error was detected.  This is almost certainly a bug; please send an
email containing this message to phenixbb at phenix-online.org so we can fix
it.  Thanks!

IndexError : string index out of range
Traceback (most recent call last):
  File "/usr/local/phenix-1.4-3/

phenix/wxGUI2/Refine.py", line 259, in OnExcept
     raise event.data
IndexError: string index out of range

phenix.refine_gui and phenix.refine were working perfectly well and then all
of the sudden between 2 saves, something went wrong.  My first PDB
(refine_001-coot-2.pdb) is normal, but then refine_001-coot-3.pdb and onward
are missing ALL of the REMARK cards.  It starts with the CRYST card followed
by the coordinates.

Could this be a coot problem?  Can I cut and paste the REMARKs from
refine_001-coot-2.pdb into the top of refine_001-coot-5.pdb?


On Mon, May 4, 2009 at 12:06 PM, Ralf W. Grosse-Kunstleve
<rwgk at cci.lbl.gov>wrote:

> Possible quick fix: yum install lapack
> However, we don't really want to depend on a system lapack. I'd like
> to track down why we have that dependency. Could you send me the
> file name of the tar file you downloaded?
> Ralf
> _______________________________________________
> phenixbb mailing list
> phenixbb at phenix-online.org
> http://www.phenix-online.org/mailman/listinfo/phenixbb
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