From 37dc379f014beb6484e7da4b3dbb61bb7284c126 Mon Sep 17 00:00:00 2001
From: Glenn Proctor <gp1@sanger.ac.uk>
Date: Mon, 19 Jul 2004 13:03:21 +0000
Subject: [PATCH] Now uploads xref description field.
---
misc-scripts/xref_mapping/BaseParser.pm | 7 ++++---
1 file changed, 4 insertions(+), 3 deletions(-)
diff --git a/misc-scripts/xref_mapping/BaseParser.pm b/misc-scripts/xref_mapping/BaseParser.pm
index 64fc69f79a..941286c8d9 100644
--- a/misc-scripts/xref_mapping/BaseParser.pm
+++ b/misc-scripts/xref_mapping/BaseParser.pm
@@ -119,8 +119,8 @@ sub get_source_id_for_filename {
my ($self, $file) = @_;
my $sql = "SELECT source_id FROM source WHERE url LIKE '%/" . $file . "'";
- print $sql . "\n";
- my $sth = $dbi->prepare($sql);
+ #print $sql . "\n";
+ my $sth = dbi()->prepare($sql);
$sth->execute();
my @row = $sth->fetchrow_array();
my $source_id;
@@ -151,7 +151,7 @@ sub upload_xrefs {
$del_sth->execute();
# upload new ones
- my $xref_sth = $dbi->prepare("INSERT INTO xref (accession,label,source_id,species_id) VALUES(?,?,?,?)");
+ my $xref_sth = $dbi->prepare("INSERT INTO xref (accession,label,description,source_id,species_id) VALUES(?,?,?,?,?)");
my $pri_sth = $dbi->prepare("INSERT INTO primary_xref VALUES(?,?,?,?,?)");
my $syn_sth = $dbi->prepare("INSERT INTO synonym VALUES(?,?,?)");
my $dep_sth = $dbi->prepare("INSERT INTO dependent_xref VALUES(?,?,?,?)");
@@ -161,6 +161,7 @@ sub upload_xrefs {
# Create entry in xref table and note ID
$xref_sth->execute($xref->{ACCESSION},
$xref->{LABEL},
+ $xref->{DESCRIPTION},
$xref->{SOURCE_ID},
$xref->{SPECIES_ID}) || die $dbi->errstr;
--
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