AMBER: Tutorial B3- Section6

From: Chih-Ying Lin <>
Date: Wed, 09 Apr 2008 18:30:27 -0700

I followed the tutorials B3 and try to reproduce the data.

After type the two commands,
$AMBERHOME/exe/ptraj TC5b.prmtop < measure_rmsd.trajin > measure_rmsd.out
$AMBERHOME/exe/ptraj TC5b.prmtop < extract_frame9_2455.trajin > extract_frame9_2455.out

I got the two following files and they are EMPTY.

$AMBERHOME/exe/ptraj TC5b.prmtop <mdcrd_to_binpos.ptraj >mdcrd_to_binpos.out
Also, I got a EMPTY mdcrd_to_binpos.out
and there are no equil_1-10.binpos files

any ideas for this?
by the way,
when I install Amber, patch #40 did not successful.
is this a crucial thing to make the above problems??


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Received on Fri Apr 18 2008 - 21:18:15 PDT
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