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comparison alignment/prottest_wrapper.pl @ 0:5b9a38ec4a39 draft default tip

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author osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
date Tue, 11 Mar 2014 12:19:13 -0700
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-1:000000000000 0:5b9a38ec4a39
1 #!/usr/bin/perl
2
3 use warnings;
4 use strict;
5 use Cwd;
6
7 my $dir=getcwd();
8
9 #protest directory placed in main user path. Also, changed runProttest
10 #script to include full path of jar file
11 my $prottestPath='/home/galaxy/pkgs/ProtTest2.4';
12
13 my $input=$ARGV[1];
14 my $output=$ARGV[3];
15
16 system "$prottestPath/runProtTest -i $input -o $output" ;