HI all, This is a follow on from the e-mail below. Frequently I'm also getting this error when pymol crashes:
*** glibc detected *** /home/fauxn/software/pymol/pymol.exe: double free or corruption (!prev): 0x0aaef170 *** ======= Backtrace: ========= /lib/libc.so.6[0xc69d88] /lib/libc.so.6(__libc_free+0x78)[0xc6d25f] /usr/lib/libGL.so.1[0x5bd8e5a] ======= Memory map: ======== 00101000-001fa000 r-xp 00000000 fd:00 11326935 /usr/lib/libX11.so.6.2.0 001fa000-001fe000 rwxp 000f9000 fd:00 11326935 /usr/lib/libX11.so.6.2.0 001fe000-00200000 rwxp 00000000 00:0f 1254 /dev/zero 00200000-00214000 r-xp 00000000 fd:00 12931879 /home/fauxn/software/pymol/ext/lib/python2.4/site-packages/Numeric/_numpy.so 00214000-00216000 rwxp 00013000 fd:00 12931879 /home/fauxn/software/pymol/ext/lib/python2.4/site-packages/Numeric/_numpy.so 00216000-00219000 r-xp 00000000 fd:00 12905453 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/time.so 00219000-0021b000 rwxp 00002000 fd:00 12905453 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/time.so 0021b000-00224000 r-xp 00000000 fd:00 12905473 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/_socket.so 00224000-00227000 rwxp 00009000 fd:00 12905473 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/_socket.so 00227000-0022c000 r-xp 00000000 fd:00 12905440 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/struct.so 0022c000-0022d000 rwxp 00004000 fd:00 12905440 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/struct.so 0022d000-00231000 r-xp 00000000 fd:00 12905478 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/operator.so 00231000-00232000 rwxp 00004000 fd:00 12905478 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/operator.so 00232000-00234000 rwxp 00000000 00:0f 1254 /dev/zero 00234000-00236000 rwxp 00000000 00:0f 1254 /dev/zero 00236000-00238000 rwxp 00000000 00:0f 1254 /dev/zero 00238000-0023a000 rwxp 00000000 00:0f 1254 /dev/zero 0023a000-0023c000 rwxp 00000000 00:0f 1254 /dev/zero 0023c000-0023e000 rwxp 00000000 00:0f 1254 /dev/zero 0023e000-00240000 rwxp 00000000 00:0f 1254 /dev/zero 00240000-00242000 rwxp 00000000 00:0f 1254 /dev/zero 00242000-0024b000 rwxp 00000000 00:0f 1254 /dev/zero 0027c000-00280000 r-xp 00000000 fd:00 12905441 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/collections.so 00280000-00281000 rwxp 00003000 fd:00 12905441 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/collections.so 002b3000-002b6000 r-xp 00000000 fd:00 12905457 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/_random.so 002b6000-002b7000 rwxp 00002000 fd:00 12905457 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/_random.so 002f3000-002f4000 r-xp 002f3000 00:00 0 [vdso] 002f4000-0030d000 r-xp 00000000 fd:00 1669685 /lib/ld-2.4.so 0030d000-0030e000 r-xp 00018000 fd:00 1669685 /lib/ld-2.4.so 0030e000-0030f000 rwxp 00019000 fd:00 1669685 /lib/ld-2.4.so 00311000-00a87000 r-xp 00000000 fd:00 11326754 /usr/lib/libGLcore.so.1.0.7182 00a87000-00aa3000 rwxp 00775000 fd:00 11326754 /usr/lib/libGLcore.so.1.0.7182 00aa3000-00ab8000 rwxp 00aa3000 00:00 0 00aba000-00abb000 r-xp 00000000 fd:00 15615182 /usr/lib/tls/libnvidia-tls.so.1.0.7182 00abb000-00abc000 rwxp 00000000 fd:00 15615182 /usr/lib/tls/libnvidia-tls.so.1.0.7182 00ad3000-00ad7000 r-xp 00000000 fd:00 12905474 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/strop.so 00ad7000-00ad9000 rwxp 00003000 fd:00 12905474 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/strop.so 00b14000-00b17000 r-xp 00000000 fd:00 12905449 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/math.so 00b17000-00b18000 rwxp 00003000 fd:00 12905449 /home/fauxn/software/pymol/ext/lib/python2.4/lib-dynload/math.so 00b4a000-00b52000 r-xp 00000000 fd:00 11326936 /usr/lib/libXrender.so.1.3.0 00b52000-00b53000 rwxp 00007000 fd:00 11326936 /usr/lib/libXrender.so.1.3.0 00b60000-00b64000 r-xp 00000000 fd:00 11327016 /usr/lib/libXfixes.so.3.0.0 00b64000-00b65000 rwxp 00003000 fd:00 11327016 /usr/lib/libXfixes/home/fauxn/software/pymol/pymol: line 14: 10660 Aborted $PYMOL_PATH/pymol.exe "$@" Dose anyone have any idea's? This occurs when I single click left or right in the main display. On Tuesday 22 August 2006 13:46, Noel Faux wrote: > Hi all, > > Recently I finally managed to install the Nvidia driver > (NVIDIA-Linux-x86-1.0-7182-pkg1) for the graphics card (Quadro2 > Pro/AGP/SSE2) on my Fedora Core 5 box. When I try and run pymol it crashed > after I load a pdb file and try and either right or left click on the main > display. > > Here is the output from the pymol run: > > PyMOL(TM) Incentive Product - Copyright (C) 2006 DeLano Scientific LLC. > > A current PyMOL Maintenance and/or Support Subscription may be required > for legal use of this Build beyond a finite honor-system evaluation > period. Please visit http://www.pymol.org/funding.html for more > information. > > This PyMOL Executable Build incorporates Open-Source PyMOL 0.99rc6. > OpenGL graphics engine: > GL_VENDOR: NVIDIA Corporation > GL_RENDERER: Quadro2 Pro/AGP/SSE2 > GL_VERSION: 1.5.3 NVIDIA 71.82 > Adapting to Quadro hardware. > > PyMOL(TM) Incentive Product - Copyright (C) 2006 DeLano Scientific LLC. > > A current PyMOL Maintenance and/or Support Subscription may be required > for legal use of this Build beyond a finite honor-system evaluation > period. Please visit http://www.pymol.org/funding.html for more > information. > > This PyMOL Executable Build incorporates Open-Source PyMOL 0.99rc6. > HEADER SCOP/ASTRAL domain d1a5ug2 [29269] 08-MAY-03 0000 > CmdLoad: "/home/fauxn/results/SCOP_90_results/d1a5ug2.pdb" loaded > as "d1a5ug2". > /home/fauxn/software/pymol/pymol: line 14: 7203 Segmentation fault > $PYMOL_PATH/pymol.exe "$@" > > Any pointers welcome! > > Cheers > Noel -- PhD Student Department of Biochemistry and Molecular Biology Monash University Clayton, Victoria Australia Ph: +61 3 9905 1418 e-mail: noel.f...@med.monash.edu.au website: http://vbc.med.monash.edu.au/~fauxn
