[gmx-users] dssp works fine, but do_dssp gives fatal error

[Nikunj Maheshwari]

Yes I checked. do_dssp has no -ver option.
I also found out this link

https://gerrit.gromacs.org/#/c/687/

but dont know how to install/use it.

Or maybe I can install DsspOld and see?



On Wed, Jun 12, 2013 at 4:15 PM, Erik Marklund <erikm at xray.bmc.uu.se> wrote:

> Search again. The syntax for invoking dssp changed at some point and it
> took a while before do_dssp adapted to that. If your do_dssp is lacking the
> -ver option then I'm quite confident that it uses the old syntax, which
> doesn't work with the newer versions (v. 2.0+ I think) of dssp.
>
> Erik
>
> On 12 Jun 2013, at 11:17, Nikunj Maheshwari <nixcrazyforher at gmail.com>
> wrote:
>
> > Yes I did searched. But for most people, there were issues regarding the
> > path or wrong DSSP.
> > DSSP runs for me, but do_dssp does not.
> >
> >
> > On Wed, Jun 12, 2013 at 2:25 PM, Erik Marklund <erikm at xray.bmc.uu.se>
> wrote:
> >
> >> Hi,
> >>
> >> Search the mailing list. This problem and its solution has been
> repeatedly
> >> discussed.
> >>
> >> Erik
> >>
> >> On 12 Jun 2013, at 10:31, Nikunj Maheshwari <nixcrazyforher at gmail.com>
> >> wrote:
> >>
> >>> Dear all,
> >>>
> >>> I installed dssp (Version 2.0.4) and it works perfect on a .pdb file.
> >>> I am trying to use it for do_dssp command but get the following error
> >> each
> >>> time:
> >>>
> >>> "Fatal error:
> >>> Failed to execute command: /usr/local/bin/dssp -na ddtmi68v ddwLuK68 >
> >>> /dev/null 2> /dev/null
> >>> "
> >>>
> >>> Is there any way to rectify it?
> >>>
> >>> Thanks.
> >>> Nikunj
> >>> --
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