I run a laptop and a desktop computer. On my desktop sci-chemistry/mgltools-autodocktools-1.5.4-r1 launches without errors, but on the laptop it fails this way: === $ runAdt Run AutoDockTools from /usr/lib64/python2.6/site-packages/AutoDockTools Resource file used to customize PMV: /home/ramiro/.mgltools/1.5.4/Pmv/_pmvrc Warning (from warnings module): File "/usr/lib64/python2.6/site-packages/DejaVu/Clip.py", line 98 self.Ri = glCleanRotMat(self.Ri) DeprecationWarning: PyArray_FromDims: use PyArray_SimpleNew. >>> Warning (from warnings module): File "/usr/lib64/python2.6/site-packages/DejaVu/Clip.py", line 98 self.Ri = glCleanRotMat(self.Ri) DeprecationWarning: PyArray_FromDimsAndDataAndDescr: use PyArray_NewFromDescr. >>> Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/AutoDockTools/__init__.py", line 373, in runADT title=title, withShell= not interactive, verbose=False) File "/usr/lib64/python2.6/site-packages/Pmv/moleculeViewer.py", line 315, in __init__ verbose=verbose, trapExceptions=trapExceptions) File "/usr/lib64/python2.6/site-packages/ViewerFramework/VF.py", line 345, in __init__ verbose=verbose) File "/usr/lib64/python2.6/site-packages/ViewerFramework/VFGUI.py", line 270, in __init__ cnf = {"addScenarioButton": False}) File "/usr/lib64/python2.6/site-packages/DejaVu/Viewer.py", line 675, in __init__ cp = ClippingPlane(self.rootObject, i, self) File "/usr/lib64/python2.6/site-packages/DejaVu/Clip.py", line 42, in __init__ self.id = self.clipPlaneNames[num] IndexError: list index out of range hit enter to continue === After pressing enter the program quits. Reproducible: Always
Same problem reported at ubuntu (without resolution): https://bugs.launchpad.net/ubuntu/+source/mgltools-dejavu/+bug/500453 Also there are two forum threads suggesting that this could be ati drivers issue: http://n2.nabble.com/adt-does-not-work-IndexError-list-index-out-of-range-td4104094.html http://mgl.scripps.edu/forum/viewtopic.php?f=11&t=584 urcindalo, could you try and confirm anything that this is ati drivers version? Also I think it's good idea to report this issue upstream.
(In reply to comment #1) > urcindalo, could you try and confirm anything that this is ati drivers version? > Also I think it's good idea to report this issue upstream. Yes, I use ati-drivers 9.11 on my laptop, whilst in my desktop computer I have an old nvidia card. Apart from that, the configurations of both computers are almost twins. By upstream do you mean mgltools or ati? Anyway, I'm going to report the issue in the mgltools thread you kindly indicate. Thanks very, very much for your help and for the time dedicated to look for the cause of this problem.
I tested it here and it is fine on intel hardware. Except the fact, that the RDEPs in mgltools-autodocktools are missing many needed ones.
Update: I've changed my driver from "fglrx" to "radeon" and now mgltools launch beautifully. Thus, I can confirm ati-drivers is the culprit in my case.
Correct driver make it work, closing
