[Gmod-schema-cmts] SF.net SVN: gmod:[25259] schema/trunk/chado/lib/Bio/GMOD/DB/Adapter.pm

[<sco...@us...>]

Revision: 25259
          http://gmod.svn.sourceforge.net/gmod/?rev=25259&view=rev
Author:   scottcain
Date:     2012-03-13 18:26:05 +0000 (Tue, 13 Mar 2012)
Log Message:
-----------
making the GFF sorter die if it fails to insert a line (so it won't be lost from the resulting sorted GFF).

Modified Paths:
--------------
    schema/trunk/chado/lib/Bio/GMOD/DB/Adapter.pm

Modified: schema/trunk/chado/lib/Bio/GMOD/DB/Adapter.pm
===================================================================
--- schema/trunk/chado/lib/Bio/GMOD/DB/Adapter.pm	2012-03-09 20:29:01 UTC (rev 25258)
+++ schema/trunk/chado/lib/Bio/GMOD/DB/Adapter.pm	2012-03-13 18:26:05 UTC (rev 25259)
@@ -4688,7 +4688,7 @@
     refseq   varchar(4000),
     id       varchar(4000),
     parent   varchar(4000),
-    gffline  varchar(4000),
+    gffline  varchar(8000),
     row_id   serial not null,
     primary key(row_id)
     ) "); 
@@ -4720,7 +4720,8 @@
     my $self = shift;
     my ($refseq, $id, $parent, $line) = @_;
     $self->{'queries'}{'insert_gff_sort_tmp'}->execute(
-                                               $refseq, $id, $parent, $line);
+                                               $refseq, $id, $parent, $line)
+        or die "Inserting into the sort table failed:$!,\nProbably due to this line: $line\n";
     return;
 }
 

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