X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bp_bin%2Fread_soft;h=10ae8c1bb405914db2d0c83c5e6a343de7a79ca1;hb=5de6112b70b59420b245ce636a8b2e3c90acbe00;hp=c51ba9051eeec77a77dec273fd31d53b70d477b7;hpb=b607bb9d6e4adcebd9f9e128aacc91a212010ee0;p=biopieces.git

diff --git a/bp_bin/read_soft b/bp_bin/read_soft
index c51ba90..10ae8c1 100755
--- a/bp_bin/read_soft
+++ b/bp_bin/read_soft
@@ -1,4 +1,4 @@
-#!/usr/bin/env perl -w
+#!/usr/bin/env perl
 
 # Copyright (C) 2007-2009 Martin A. Hansen.
 
@@ -27,7 +27,9 @@
 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
 
 
+use warnings;
 use strict;
+use Data::Dumper;
 use Maasha::Biopieces;
 use Maasha::Filesys;
 use Maasha::NCBI;
@@ -62,6 +64,8 @@ foreach $file ( @{ $options->{ "data_in" } } )
 
     $soft_index = Maasha::NCBI::soft_index_file( $file );
 
+    # print STDERR Dumper( $soft_index ) if $options->{ "verbose" };
+
     $fh         = Maasha::Filesys::file_read_open( $file );
 
     @platforms  = grep { $_->{ "SECTION" } =~ /PLATFORM/ } @{ $soft_index };
@@ -103,25 +107,22 @@ NUM:
 close $data_in if $data_in;
 close $fh if $fh;
 
+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();
 }