never mind, it looks like the name case changes and opening in GDB gave me a bt, fwiw, presumably I can figure this out now...
PyMOL>cmd.load_raw(content, 'xplor', 'map',quiet=0) ObjectMapLoadXPLOR: Loading... Program received signal SIGSEGV, Segmentation fault. transform33f3f (m1=0xffc00000ffc00044, m2=0x7fffffffa070, m3=0x7fffffffa080) at Vector.c:677 677 m3[0] = m1[0] * m2r0 + m1[1] * m2r1 + m1[2] * m2r2; (gdb) bt #0 transform33f3f (m1=0xffc00000ffc00044, m2=0x7fffffffa070, m3=0x7fffffffa080) at Vector.c:677 #1 0x00007ffff5761fdd in ObjectMapXPLORStrToMap (I=0x1dbf320, XPLORStr=<optimized out>, state=<optimized out>, quiet=0) at ObjectMap.c:3204 #2 0x00007ffff576b838 in ObjectMapReadXPLORStr (quiet=0, state=-1, XPLORStr=0x7fffeb685034 "\n 4 !NTITLE\n line 2 desc\n line 3 desc\n line 4 desc\n line 5 desc\n 080 0 080 160 0 160 080 0 080 \n 0.85336E+02 0.85336E+02 0.75650E+02 0.90000E+02 0.90000E"..., I=0x1dbf320, G=0xeb1300) at ObjectMap.c:4474 #3 ObjectMapLoadXPLOR (G=0xeb1300, obj=0x0, fname=<optimized out>, state=-1, is_file=0, quiet=0) at ObjectMap.c:5541 #4 0x00007ffff582c712 in ExecutiveLoad (G=0xeb1300, origObj=0x0, content=0x7fffeb685034 "\n 4 !NTITLE\n line 2 desc\n line 3 desc\n line 4 desc\n line 5 desc\n 080 0 080 160 0 160 080 0 080 \n 0.85336E+02 0.85336E+02 0.75650E+02 0.90000E+02 0.90000E"..., content_length=<optimized out>, content_format=26, object_name=0x7fffffffb210 "map", state=-1, zoom=-1, discrete=0, finish=1, multiplex=-1, quiet=0, plugin=0x0) at Executive.c:3724 #5 0x00007ffff586a572 in CmdLoad (self=0x7ffff6177dc8, args=<optimized out>) at Cmd.c:7866 #6 0x00000000004b66b9 in PyEval_EvalFrameEx () #7 0x00000000004bcdbd in PyEval_EvalCodeEx () ---Type <return> to continue, or q <return> to quit--- #8 0x00000000004b6c34 in PyEval_EvalFrameEx () #9 0x00000000004bcdbd in PyEval_EvalCodeEx () #10 0x00000000004bd892 in PyEval_EvalCode () #11 0x00000000004dcd82 in ?? () #12 0x00000000004dd7a5 in PyRun_StringFlags () #13 0x00000000004bafc6 in PyEval_EvalFrameEx () #14 0x00000000004bcdbd in PyEval_EvalCodeEx () #15 0x00000000004b6c34 in PyEval_EvalFrameEx () #16 0x00000000004bcdbd in PyEval_EvalCodeEx () #17 0x00000000004b6c34 in PyEval_EvalFrameEx () #18 0x00000000004bcdbd in PyEval_EvalCodeEx () #19 0x000000000044914f in ?? () #20 0x000000000042423c in ?? () #21 0x000000000042704d in PyObject_CallFunction () #22 0x00007ffff56f7414 in PFlushFast (G=0xeb1300) at P.c:2665 #23 0x00007ffff586b616 in CmdFlushNow (self=0x7ffff6177dc8, args=<optimized out>) at Cmd.c:2931 #24 0x00000000004b66b9 in PyEval_EvalFrameEx () #25 0x00000000004bcdbd in PyEval_EvalCodeEx () #26 0x00000000004b6c34 in PyEval_EvalFrameEx () #27 0x00000000004bcdbd in PyEval_EvalCodeEx () #28 0x00000000004b6c34 in PyEval_EvalFrameEx () #29 0x00000000004bcdbd in PyEval_EvalCodeEx () ---Type <return> to continue, or q <return> to quit--- #30 0x000000000044914f in ?? () #31 0x000000000042423c in ?? () #32 0x00000000004242e7 in ?? () #33 0x0000000000427248 in PyObject_CallMethod () #34 0x00007ffff586fd96 in MainDrawLocked () at main.c:811 #35 0x00007ffff586ff53 in MainDraw () at main.c:1081 #36 0x00007ffff47a0220 in ?? () from /usr/lib/libglut.so.3 #37 0x00007ffff47a3939 in fgEnumWindows () from /usr/lib/libglut.so.3 #38 0x00007ffff47a065a in glutMainLoopEvent () from /usr/lib/libglut.so.3 #39 0x00007ffff47a0f65 in glutMainLoop () from /usr/lib/libglut.so.3 #40 0x00007ffff5871504 in launch (options=0xeaf520, own_the_options=<optimized out>) at main.c:1955 #41 was_main () at main.c:2006 #42 0x00007ffff5853dd4 in CmdRunPyMOL (self=0x7ffff6177df0, args=<optimized out>) at Cmd.c:4771 #43 0x00000000004b66b9 in PyEval_EvalFrameEx () note new address Mike Marchywka 2295 Collinworth Drive Marietta GA 30062. formerly 487 Salem Woods Drive Marietta GA 30067 404-788-1216 (C)<- leave message 989-348-4796 (P)<- emergency ---------------------------------------- > From: marchy...@hotmail.com > To: pymol-users@lists.sourceforge.net > Date: Wed, 2 Jan 2013 11:01:52 -0500 > Subject: [PyMOL] which code actually executes to load axplor file? > Debugstatements not executing. > > > > I'm trying to load a self-generated xplor file and pymol keeps segfaulting. I > wanted to debug the > problem but can't get my debug statements to execute. The only thing that > greps for "xplor" > is a few pymol modules and plugin called edmplugin. If I rebuild the plugin > and relink pymol > nothing seems to change. Is this the right code? I also wanted to add a > loader for other > formats of density or vector fields and maybe do some rendering ( I have an > old viewer I wrote > with glut and thought I may be able to salvage parts of that for use here). > > Thanks. > > ------------------------------------------------------------------------------ > Master Java SE, Java EE, Eclipse, Spring, Hibernate, JavaScript, jQuery > and much more. Keep your Java skills current with LearnJavaNow - > 200+ hours of step-by-step video tutorials by Java experts. > SALE $49.99 this month only -- learn more at: > http://p.sf.net/sfu/learnmore_122612 > _______________________________________________ > 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 ------------------------------------------------------------------------------ Master Java SE, Java EE, Eclipse, Spring, Hibernate, JavaScript, jQuery and much more. Keep your Java skills current with LearnJavaNow - 200+ hours of step-by-step video tutorials by Java experts. SALE $49.99 this month only -- learn more at: http://p.sf.net/sfu/learnmore_122612 _______________________________________________ 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
