Hi you can try ParmEd (from AmberTools16 or github version):
https://github.com/ParmEd/ParmEd/issues/631#issuecomment-193555313
good luck.
Hai
On Tue, Oct 11, 2016 at 12:32 PM, shahab shariati <shahab.shariati.gmail.com
> wrote:
> Dear amber users,
>
> I am using ambertools 14.
>
> I want to convert prmtop and inpcrd file (created using antechamber) to
> gromacs files using amb2gmx.pl.
>
> When I use command:./amb2gmx.pl --prmtop lig.prmtop -crd lig.inpcrd
> -outname lig, I encontered with:
> ----------------------------------------------------------------
> | New format PARM file being parsed.
> | Version = 1.000 Date = 10/11/16 Time = 23:50:45
> sh: rdparm: command not found
> Parsing PDB file lig.pdb...
> found:
> 1 protein residues
> 0 sodium ions
> 0 chloride ions
> 0 waters
>
> 1 TOTAL residues read
> Reading prmtop file...
> 47 atom type indices read.
>
> found:
> 0 atoms
> 0 bonds
> 0 angles
> 0 torsions
>
> Error: pdb and rdparm disagree on number of atoms!
> ----------------------------------------------------------------
>
> How to resolve this problem?
>
> Any help will highly be appreciated.
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Received on Tue Oct 11 2016 - 11:00:02 PDT
