[Bio] / FigKernelScripts / FFB2_run_tests.pl Repository:
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revision 1.1, Thu Apr 1 19:28:40 2010 UTC revision 1.2, Tue Jun 8 18:26:04 2010 UTC
# Line 63  Line 63 
63    
64          print "Testing $genome with k=$kmer\n";          print "Testing $genome with k=$kmer\n";
65    
66            if (-f "$koutdir/$genome.out")
67            {
68                next;
69            }
70    
71          my $cmd = "$FIG_Config::bin/assign_using_kmers $thresh --kmer $kmer $setI $frI $kmer_data <  $file > $koutdir/$genome.out 2> $koutdir/$genome.err";          my $cmd = "$FIG_Config::bin/assign_using_kmers $thresh --kmer $kmer $setI $frI $kmer_data <  $file > $koutdir/$genome.out 2> $koutdir/$genome.err";
72          print "$cmd\n";          print "$cmd\n";
73          my $rc = system $cmd;          my $rc = system $cmd;
# Line 70  Line 75 
75          {          {
76              die "test failed with rc=$rc: $cmd\n";              die "test failed with rc=$rc: $cmd\n";
77          }          }
78            $cmd = "cut -f1,2 $koutdir/$genome.out | $FIG_Config::bin/svr_metabolic_reconstruction > $koutdir/$genome.reconstruction 2> $koutdir/$genome.reconstruction.nomatch";
79            $rc = system $cmd;
80            if ($rc != 0)
81            {
82                die "test failed with rc=$rc: $cmd\n";
83            }
84      }      }
85    
86  }  }

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