X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bp_bin%2Finvert_align;h=e798687eb82bf0de598d8aaedbfb5f3517b299ff;hb=27a34d675d07468851f2076a62ca2b8dbefb5923;hp=413ab29f9d7d949b8194cf5b9aac51ce3ccdf03a;hpb=0309c14a327e5dc44d6216f7d94721e563502d7b;p=biopieces.git

diff --git a/bp_bin/invert_align b/bp_bin/invert_align
index 413ab29..e798687 100755
--- a/bp_bin/invert_align
+++ b/bp_bin/invert_align
@@ -1,4 +1,4 @@
-#!/usr/bin/env perl -w
+#!/usr/bin/env perl
 
 # Copyright (C) 2007-2009 Martin A. Hansen.
 
@@ -26,6 +26,7 @@
 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
 
 
+use warnings;
 use strict;
 use Maasha::Biopieces;
 use Maasha::Align;
@@ -39,7 +40,7 @@ use constant {
 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
 
 
-my ( $run_time_beg, $run_time_end, $options, $in, $out, $record, @entries );
+my ( $options, $in, $out, $record, @entries );
 
 $options = Maasha::Biopieces::parse_options(
     [
@@ -66,26 +67,22 @@ Maasha::Align::align_invert( \@entries, $options->{ "soft" } );
 
 map { Maasha::Biopieces::put_record( { SEQ_NAME => $_->[ SEQ_NAME ], SEQ => $_->[ SEQ ] }, $out ) } @entries;
 
+Maasha::Biopieces::close_stream( $in );
+Maasha::Biopieces::close_stream( $out );
+
 
 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
 
 
 BEGIN
 {
-    $run_time_beg = Maasha::Biopieces::run_time();
-
-    Maasha::Biopieces::log_biopiece();
+    Maasha::Biopieces::status_set();
 }
 
 
 END
 {
-    Maasha::Biopieces::close_stream( $in );
-    Maasha::Biopieces::close_stream( $out );
-
-    $run_time_end = Maasha::Biopieces::run_time();
-
-    Maasha::Biopieces::run_time_print( $run_time_beg, $run_time_end, $options );
+    Maasha::Biopieces::status_log();
 }
 
 
@@ -93,4 +90,3 @@ END
 
 
 __END__
-