nam kim wrote:
process crashes around 100 steps out of 1000 requested.
Fine, but you still haven't answered my question. Do you receive any other
messages?
Do other systems run on the specific hardware you're using? You may just have
some instability in this particular system that is causing a crash. Examine the
trajectory, see what's going wrong, and post any other relevant error
messages, if you receive any. Often times there is some output before a seg fault.
-Justin
On Fri, Apr 10, 2009 at 4:32 PM, Justin A. Lemkul <jalem...@vt.edu> wrote:
nam kim wrote:
I have segmentation fault error while running mdrun_mpi( gromacs 4.0.4).
I have installed gromacs 4.0.4 two month ago and been working fine.
Today, I just got Segment errors. Rebooting does not much help.
Here is log:
[rd:06790] *** Process received signal ***
[d:06790] Signal: Segmentation fault (11)
[rd:06790] Signal code: (128)
[rd:06790] Failing at address: (nil)
[rd:06790] [ 0] /lib64/tls/libpthread.so.0 [0x36bc30c430]
[rd:06790] [ 1] /lib64/ld-linux-x86-64.so.2 [0x36bb607496]
[rd:06790] [ 2] /lib64/ld-linux-x86-64.so.2 [0x36bb60789e]
[rd:06790] [ 3] /lib64/ld-linux-x86-64.so.2 [0x36bb60a68a]
[rd:06790] [ 4] /lib64/ld-linux-x86-64.so.2 [0x36bb60a552]
[rd:06790] [ 5]
/usr/local/topspin/lib64/libvapi.so(vipul_cleanup+0x50) [0x2a984472b0]
[rd:06790] [ 6] /usr/local/topspin/lib64/libvapi.so [0x2a98440c32]
[rd:06790] *** End of error message ***
Are there any other messages from mdrun? Anything printed to the screen
(LINCS warnings, etc)?
-Justin
Thanks
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--
========================================
Justin A. Lemkul
Graduate Research Assistant
ICTAS Doctoral Scholar
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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--
========================================
Justin A. Lemkul
Graduate Research Assistant
ICTAS Doctoral Scholar
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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