Changeset 221

Timestamp:

06/22/09 12:33:44 (5 months ago)

Author:

cholt

Message:

mpi_iprscan added

Files:

• MPI/mpi_iprscan (added)
• bin/add_utr_start_stop_gff (modified) (2 diffs)
• lib/Process/IPRchunk.pm (added)
• lib/Process/IPRtiers.pm (added)
• lib/Process/MpiChunk.pm (modified) (1 diff)
• lib/Widget/iprscan.pm (added)
• lib/basiclog.pm (added)

bin/add_utr_start_stop_gff

@@ -1 +1 @@
-#! /usr/bin/perl -w
-use strict;
+
+my $usage = "
+Usage:
+       add_utr_start_stop_gff <maker_gff3_file>
+
+       Use this script to add UTR and start and stop codon entries
+       to a maker produced gff3 file.
+
+
+";
-
-my $COUNT = 1;
@@ -9 +19 @@
-my $header;
-my $footer;
+
+if(! $file){
+    print $usage;
+    exit(1);
+}
+
+if(! -e $file){
+    warn "ERROR: File does not exist\n";
+    print $usage;
+    exit(1);
+}
-
-my @regions = ({chr => 'I',  b => '1000001',  e => '2000000'},

lib/Process/MpiChunk.pm

@@ -8 +8 @@
-use Error::Simple;
-use Storable;
-use runlog;
-use GI;
-use maker::auto_annotator;
-use evaluator::evaluate;
-
-#--set object variables for serialization of data