Dear All,
I read with interest Jason Ferrara's post concerning embedding PyMOL in a QT
app (back in January
http://www.mail-archive.com/[email protected]/msg08607.html ).
I've spent a short time experimenting and have encountered a problem or two - I
was wondering if any insightful users had any pointers for me.
I've built pymol from the SourceForge source (1.4.1) on some Fedora linux x86
box. I initially jumped straight into the QT code, but experienced a few
crashes. Taking things apart further, I've got a little script that
consistently crashes with a segfault:
import sys
sys.path.append( os.path.join( os.environ['PYMOL_PATH'], 'modules' ) )
import pymol2
pymol = pymol2.PyMOL()
print 'pymol initialised'
pymol.cmd.set("internal_gui",0)
print 'we never see this'
$ python crash.py
> pymol initialised
> Segmentation fault (core dumped)
Should this ever work? The code is a snippet from Jason's approach. I
appreciate that it doesn't do anything, but should I expect a crash? Getting
personal with gdb the stack trace comes up with
0x00007fffed6830e6 in APIEnterBlocked (self=0xd3c148, args=<value optimized
out>) at layer4/Cmd.c:160
160 PRINTFD(G, FB_API)
which seems relatively benign (there is a PyThread_get_thread_ident() call
there).
Thanks for reading this far,
Dan
Dan O'Donovan
SBGrid Consortium
Harvard Medical School
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