VMD-L Mailing List

From: Margaret Cheung (cheung_at_physics.ucsd.edu)
Date: Thu Oct 24 2002 - 21:05:30 CDT

Hi, John,

The gdb output was quite long.

Core was generated by `/usr/local/lib/vmd/vmd_LINUX'.
Program terminated with signal 11, Segmentation fault.
#0 0x083754f8 in ?? ()
(gdb) where
#0 0x083754f8 in ?? ()
#1 0x0849dc57 in ?? ()
#2 0x080a9e78 in ?? ()
#3 0x085b3e28 in ?? ()
#4 0x085b3e20 in ?? ()
#5 0x085b3e18 in ?? ()
#6 0x085b3e10 in ?? ()
#7 0x085b3e08 in ?? ()
#8 0x085b3e00 in ?? ()
#9 0x085b3df8 in ?? ()
#10 0x085b3df0 in ?? ()
#11 0x085b3de8 in ?? ()
#12 0x085b3de0 in ?? ()
#13 0x085b3dd8 in ?? ()
#14 0x085b3dd0 in ?? ()
#15 0x085b3dc8 in ?? ()
#16 0x085b3dc0 in ?? ()
#17 0x085b3db8 in ?? ()
#18 0x085b3db0 in ?? ()
#19 0x085b3da8 in ?? ()
#20 0x085b3da0 in ?? ()
#21 0x085b3d98 in ?? ()
#22 0x085b3d90 in ?? ()
#23 0x085b3d88 in ?? ()
#24 0x085b3d80 in ?? ()
#25 0x085b3d78 in ?? ()
#26 0x085b3d70 in ?? ()
#27 0x085b3d68 in ?? ()
#28 0x085b3d60 in ?? ()
#29 0x085b3d58 in ?? ()
#30 0x085b3d50 in ?? ()
#31 0x085b3d48 in ?? ()
#32 0x085b3d40 in ?? ()
#33 0x085b3d38 in ?? ()
#34 0x085b3d30 in ?? ()
#35 0x085b3d28 in ?? ()
#36 0x085b3d20 in ?? ()
#37 0x085b3d18 in ?? ()
#38 0x085b3d10 in ?? ()
#39 0x085b3d08 in ?? ()
#40 0x085b3d00 in ?? ()
#41 0x085b3cf8 in ?? ()
#42 0x085b3cf0 in ?? ()
#43 0x085b3ce8 in ?? ()
#44 0x085b3ce0 in ?? ()
#45 0x085b3cd8 in ?? ()
#46 0x085b3cd0 in ?? ()
#47 0x085b3cc8 in ?? ()
#48 0x085b3cc0 in ?? ()
#49 0x085b3cb8 in ?? ()
#50 0x085b3cb0 in ?? ()
#51 0x085b3ca8 in ?? ()
#52 0x085b3ca0 in ?? ()
#53 0x085b3c98 in ?? ()
#54 0x085b3c90 in ?? ()
#55 0x085b3c88 in ?? ()
#56 0x085b3c80 in ?? ()
#57 0x085b3c78 in ?? ()
#58 0x085b3c70 in ?? ()
#59 0x085b3c68 in ?? ()
#60 0x085b3c60 in ?? ()
#61 0x085b3c58 in ?? ()
#62 0x085b3c50 in ?? ()
#63 0x085b3c48 in ?? ()
#64 0x085b3c40 in ?? ()
#65 0x085b3c38 in ?? ()
#66 0x085b3c30 in ?? ()
#67 0x085b3c28 in ?? ()
#68 0x085b3c20 in ?? ()
#69 0x085b3c18 in ?? ()
#70 0x085b3c10 in ?? ()
#71 0x085b3c08 in ?? ()
#72 0x085b3c00 in ?? ()
#73 0x085b3bf8 in ?? ()
#74 0x085b3bf0 in ?? ()
#75 0x085b3be8 in ?? ()
#76 0x085b3be0 in ?? ()
#77 0x085b3bd8 in ?? ()
#78 0x085b3bd0 in ?? ()
#79 0x085b3bc8 in ?? ()
#80 0x085b3bc0 in ?? ()
#81 0x085b3bb8 in ?? ()
#82 0x085b3bb0 in ?? ()
#83 0x085b3ba8 in ?? ()
#84 0x085b3ba0 in ?? ()
#85 0x085b3b98 in ?? ()
#86 0x085b3b90 in ?? ()
#87 0x085b3b88 in ?? ()
#88 0x085b3b80 in ?? ()
#89 0x085b3b78 in ?? ()
#90 0x085b3b70 in ?? ()
#91 0x085b3b68 in ?? ()
#92 0x085b3b60 in ?? ()
#93 0x085b3b58 in ?? ()
#94 0x085b3b50 in ?? ()
#95 0x085b3b48 in ?? ()
#96 0x085b3b40 in ?? ()
#97 0x085b3b38 in ?? ()
#98 0x085b3b30 in ?? ()
#99 0x085b3b28 in ?? ()
#100 0x085b3b20 in ?? ()
#101 0x085b3b18 in ?? ()
#102 0x085b3b10 in ?? ()
#103 0x085b3b08 in ?? ()
#104 0x085b3b00 in ?? ()
#105 0x085b3af8 in ?? ()
#106 0x085b3af0 in ?? ()
#107 0x085b3ae8 in ?? ()
#108 0x085b3ae0 in ?? ()
#109 0x085b3ad8 in ?? ()
#110 0x085b3ad0 in ?? ()
#111 0x085b3ac8 in ?? ()
#112 0x085b3ac0 in ?? ()
#113 0x085b3ab8 in ?? ()
#114 0x085b3ab0 in ?? ()
#115 0x085b3aa8 in ?? ()
#116 0x085b3aa0 in ?? ()
#117 0x085b3a98 in ?? ()
#118 0x085b3a90 in ?? ()
#119 0x085b3a88 in ?? ()
#120 0x085b3a80 in ?? ()
#121 0x085b3a78 in ?? ()
#122 0x085b3a70 in ?? ()
#123 0x085b3a68 in ?? ()
#124 0x085b3a60 in ?? ()
#125 0x00000b91 in ?? ()
#126 0x0932c148 in ?? ()
Cannot access memory at address 0x2c

Sincerely,
Margaret S. Cheung
Physics Department 0319
University of California, San Diego
9500 Gilman Drive,
La Jolla, CA 92093-0319
http://www-physics.ucsd.edu/~cheung

On Thu, 24 Oct 2002, John Stone wrote:

>
> Hi Margaret,
> Can you do this on your Linux box, and email us the results
> (adjust the path to the vmd_LINUX binary as necessary):
> gdb /usr/local/lib/vmd/vmd_LINUX core
>
> then at the gdb prompt:
> where
>
> Send us that gdb output, that will help us figure out what happened.
>
> Thanks,
> John Stone
> vmd_at_ks.uiuc.edu
>
>
> On Thu, Oct 24, 2002 at 06:31:28PM -0700, Margaret Cheung wrote:
> > Hi, Brian,
> >
> > I installed vmd1.8a28 successfully.
> > When I load files by using parm, then it works.
> > But when I load files by using parm7 (the new plugin), my vmd
> > crashes.
> >
> > Sincerely,
> > Margaret S. Cheung
> > Physics Department 0319
> > University of California, San Diego
> > 9500 Gilman Drive,
> > La Jolla, CA 92093-0319
> > http://www-physics.ucsd.edu/~cheung
> >
> > On Thu, 24 Oct 2002, B. Bennion wrote:
> >
> > > Try using the
> > >
> > > vmd -dispdev text
> > >
> > > Command to see if that will work or give you an error message that you can
> > > read.
> > >
> > > Brian
> > >
> > >
> > > On Thu, 24 Oct 2002, Margaret Cheung wrote:
> > >
> > > > Date: Thu, 24 Oct 2002 17:49:42 -0700 (PDT)
> > > > From: Margaret Cheung <cheung_at_physics.ucsd.edu>
> > > > To: vmd-l_at_ks.uiuc.edu
> > > > Subject: core dump when launching vmd1.8a21
> > > >
> > > > Dear All,
> > > >
> > > > I'd like to install vmd 1.8 to test some plugin scripts Brian sent to me.
> > > > However, after I install vmd1.8 on my system (linux RH 7.3),
> > > > vmd crashes (too fast to read the error output under
> > > > vmd command line) whenever I launch it.
> > > >
> > > > The following is the message I file the core message,
> > > >
> > > > [root]# file core*
> > > > core.26827: ELF 32-bit LSB core file of 'vmd_LINUX' (signal 11), Intel
> > > > 80386, version 1 (SYSV), from 'vmd_LINUX'
> > > >
> > > > Is there a solution for this? Thannk you very much.
> > > >
> > > >
> > > > Sincerely,
> > > > Margaret S. Cheung
> > > > Physics Department 0319
> > > > University of California, San Diego
> > > > 9500 Gilman Drive,
> > > > La Jolla, CA 92093-0319
> > > > http://www-physics.ucsd.edu/~cheung
> > > >
> > > >
> > >
> > >
> > >
> > >
> > > Graduate Research Assistant
> > > Dep. Medicinal Chemistry, University of Washington
> > > Tel# (206)616-2779
> > > BOX 357610 Seattle WA 98195
> > >
> > > email--bbennion_at_u.washington.edu
> > > web page--http://students.washington.edu/bbennion
> > >
> > >
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
>