[gmx-users] DSSP error

[ahmet yıldırım]

Hi,

Please tell me which step is wrong:(

1.step-root at ab-desktop:/home/ab/Desktop# tar xvzf dsspcmbi.tar.gz
2.step-root at ab-desktop:/home/ab/Desktop/dssp# cp dsspcmbi dssp
3.step-root at ab-desktop:/home/ab/Desktop/dssp# mv dssp /usr/local/bin
4.step-root at ab-desktop:/home/ab/Desktop/dssp# export DSSP=/usr/local/bin
5.step-ab at ab-desktop:~/Desktop/gromacswork$ do_dssp -s run.tpr -f run.xtc

Program do_dssp, VERSION 4.0.5
Source code file: ../../../../src/tools/do_dssp.
c, line: 471

*Fatal error:*
Failed to execute command: /usr/local/bin/dssp -na dduigjCp ddDsSuzR >
/dev/null 2> /dev/null




10 Kasım 2010 16:08 tarihinde #ZHAO LINA# <ZHAO0139 at e.ntu.edu.sg> yazdı:

>  http://biskit.pasteur.fr/install/applications/dssp
>
> http://oldwww.gromacs.org/pipermail/gmx-users/2009-April/041004.html
>
>
> http://www.gromacs.org/Documentation/Gromacs_Utilities/do_dssp?highlight=dssp
>
> HTH,
>
> lina
>  ------------------------------
> *From:* gmx-users-bounces at gromacs.org [gmx-users-bounces at gromacs.org] on
> behalf of ahmet yıldırım [ahmedo047 at gmail.com]
> *Sent:* Wednesday, November 10, 2010 10:02 PM
> *To:* Discussion list for GROMACS users
> *Subject:* [gmx-users] DSSP error
>
>  Hi,
>
> I installed in /usr/local/bin the DSSP program. And I set the environment
> variable with a command such as "export DSSP=/usr/local/bin/dssp".
> ab at ubuntu:/Desktop/work# do_dssp -s run.tpr -f run.xtc
> ...
> Selected 1: 'Protein'
> There are 164 residues in your selected group
> Opening library file /usr/share/gromacs/top/ss.map
> Reading frame       0 time    0.000
> Back Off! I just backed up dduigjCp to ./#dduigjCp.1#
>
> -------------------------------------------------------
> Program do_dssp, VERSION 4.0.5
> Source code file: ../../../../src/tools/do_dssp.c, line: 471
>
> *Fatal error:*
> Failed to execute command: /usr/local/bin/dssp -na dduigjCp ddDsSuzR >
> /dev/null 2> /dev/null
> -------------------------------------------------------
> "Jesus Not Only Saves, He Also Frequently Makes Backups." (Myron Bradshaw)
>
> What should I do?
>
> Thanks in advance
>
> --
> Ahmet YILDIRIM
>
> --
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-- 
Ahmet YILDIRIM
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