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there is no verbose_flag in sga cluster

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1 parent 44b9f05 commit 54c22a5ac1f90e72a59e71adda05432c957b2170 @avilella committed Feb 1, 2012
Showing with 2 additions and 2 deletions.
  1. +2 −2 modules/Pinball/Cluster.pm
@@ -74,9 +74,9 @@ sub run {
}
chdir($work_dir);
- my $verbose_flag = '-v'; $verbose_flag = '-v' if ($self->debug);
+ # my $verbose_flag = '-v'; $verbose_flag = '-v' if ($self->debug);
# sga cluster
- # $cmd = "$sga_executable cluster $verbose_flag -m $overlap -c $csize -e $erate -t $threads $tag.filter.pass.fa -o $tag.d$dust.$csize.$overlap.e$erate.clusters";
+ # $cmd = "$sga_executable cluster -m $overlap -c $csize -e $erate -t $threads $tag.filter.pass.fa -o $tag.d$dust.$csize.$overlap.e$erate.clusters";
my $clustersfile = $work_dir . "/$tag.clusters";
$cmd = "$sga_executable cluster -m $overlap -c $csize -e $erate -t $threads $tag_filter -o $clustersfile";
print STDERR "$cmd\n" if ($self->debug);

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