On Tue, Aug 9, 2016 at 5:01 PM, Corum, Katharine W <
katharine-corum.uiowa.edu> wrote:
> Hi again,
>
>
> I would like to convert my .rst file to a pdb file. I went through some of
> the archived emails and found many old emails with the same commands but
> they did not work for me. I am using Amber16 and AmberTools16. I first
> tried ambpdb.
>
> <http://ambermd.org/tutorials/basic/tutorial2/section4.htm>
> $AMBERHOME/bin/ambpdb -p cram.prmtop <min_qmmm.rst> min_qmmm.rst.pdb
> Error: Could not read restart atoms/time.
>
>
it's likely that your file was corrupted. Can you reproduce the tutorial
command with its files?
> Next I tried the cpptraj command and also received an error.
>
> $AMBERHOME/bin/cpptraj -p cram.prmtop -y min_qmmm.rst -x min_qmmm.rst.pdb
> /home/katie/Documents/software/amber/amber16/bin/cpptraj: error while
> loading shared libraries: libsander.so: cannot open shared object file: No
> such file or directory
>
>
Did you *soure amber.sh* after install?
Hai
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Received on Tue Aug 09 2016 - 14:30:03 PDT
