annotate glang-galaxy-conf/kbws/emboss_single_outputfile_wrapper.pl @ 2:8947fca5f715 draft default tip

Uploaded

#! /usr/bin/perl -w
use strict;
use File::Copy;

my $cmd_string = join (" ",@ARGV);
my $results = `$cmd_string`;
my @files = split("\n",$results);
my $fileNameOut = $ARGV[6];
my ($drive, $outputDir, $file) = File::Spec->splitpath( $fileNameOut );
my $destination = $fileNameOut;

foreach my $thisLine (@files)
  {
      if ($thisLine =~ /Created /)
        {
            $thisLine =~ /[\w|\.]+$/;
            $thisLine =$&;
            #print "outfile: $thisLine\n";
            #there is only one file to move, so we can quit after finding it
            move($drive.$outputDir.$thisLine,$fileNameOut);
            exit(1);
        }
      else
        {
            print $thisLine,"\n";
        }
  }