On Sat, Aug 31, 2013 at 11:00 PM, Rodrigo Salazar
<rodrigo.foton.gmail.com>wrote:
> I have compiled amber 9 in ubuntu 12.04 using intel fortran. The
> installation finish normally and the test also. The problem is that when I
> try to open xleap using this command:
>
> xleap -s -f /home/rodrigo/amber9/dat/leap/cmd/leaprc.ff99SB
>
> I get the following error:
>
> *** buffer overflow detected ***: /home/rodrigo/amber9/exe/xaLeap
> terminated
> ======= Backtrace: =========
> /lib/i386-linux-gnu/libc.so.6(__fortify_fail+0x45)[0x3e10e5]
> /lib/i386-linux-gnu/libc.so.6(+0x102eba)[0x3dfeba]
> /lib/i386-linux-gnu/libc.so.6(+0x1021ed)[0x3df1ed]
> /home/rodrigo/amber9/exe/xaLeap[0x806d029]
> /home/rodrigo/amber9/exe/xaLeap[0x808f8e3]
> /home/rodrigo/amber9/exe/xaLeap[0x808ff2f]
>
>
> Any suggestions?
>
Install and use AmberTools 13 instead. It is free and generates topology
files that can be used with Amber 9. Amber 9 is known to have several
issues with LEaP (especially with 64-bit machines) that have since been
fixed.
I would also suggest upgrading to Amber 12 if possible, since Amber 9 is
now about 7 years old and is unlikely to be supported very well if
something goes wrong.
Good luck,
Jason
--
Jason M. Swails
BioMaPS,
Rutgers University
Postdoctoral Researcher
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Received on Sat Aug 31 2013 - 22:30:02 PDT
