On Thu, Nov 12, 2015 at 4:24 PM, Olivier CLAUDE o.claude@outlook.fr wrote:
I followed the instuctions given by peter and signalp works with galaxy! Thanks a lot! Do I try the same for tmhmm2 and promoter2? Thanks a lot again!
Olivier
Our notes from installing tmhmm2:
TMHMM arrives as the compressed file tmhmm-2.0c.Linux.tar.gz which can be uncompressed in the usual way
$ tar -zxvf tmhmm-2.0c.Linux.tar.gz
We also move this to /usr/opt/timhmm-2.0c for consistency with SIGNALP, and create the link in /usr/local/bin:
$ sudo cp -R tmhmm-2.0c/ /usr/opt $ sudo ln -s /usr/opt/tmhmm-2.0c/bin/tmhmm /usr/local/bin/
We needed to modify the main TMHMM script and tmhmmformat.pl to point it at the right Perl on the system, replace the first line:
#!/usr/local/bin/perl
with:
#!/usr/bin/env perl
Also at about line 17, set the path to match what you've used:
$opt_basedir = '/usr/opt/tmhmm-2.0c';
You can change the defaults in this script too, but the Galaxy wrapper should not mind.
Peter