On Mar 10, 2013, at 2:48 PM, Tomek Wlodarski wrote:

Hi!

I am trying to run Modeller from Chimera (Model/Refine Loops).
I have downloaded the newest version of both, and I can run Modeller as a stand alone software via python.
As a location of Modeller exe I put:
/usr/lib/modeller9.11/bin/mod9.11
however when I try to run this it does nothing...
Status is "completed" while State is "running" and Run time is (-).
On the other hand I can run via Modeller server..

When I tried to run /usr/lib/modeller9.11/bin/mod9.11
I got:
FATAL ERROR: MODINSTALL9v11 environment variable not set: incomplete MODELLER installation

This last part:  do you mean you tried to run Modeller from outside Chimera and got that error?  If so, then you should really ask on the Modeller mailing list:

http://salilab.org/modeller/discussion_forum.html

--Eric

                        Eric Pettersen

                        UCSF Computer Graphics Lab

                        http://www.cgl.ucsf.edu