[gmx-users] secondary structure query

SHAHEE ISLAM islamshahee at gmail.com
Tue Jun 12 15:31:38 CEST 2018

i am following this tutorial
afrter converting the coarse grained protein to all atom structure by
charmm force field,i have gotten the all atom gro file.now i want to
analyse the secondary structure of thih gro file.
when i am using this command
do_dssp -s aa_charmm.gro -n index1.ndx -f dynamic.xtc -sc scount.xvg
-o ss.xpm -dt 10
the error is
Fatal error:
Failed to execute command: /usr/local/bin/dssp -na ddVp6nYX ddensUfd >
/dev/null 2> /dev/null
thanking you

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