From: elserj <elserj@localhost>
Date: Tue, 27 Mar 2018 22:02:10 +0000 (+0000)
Subject: Fix broken synonyms inserts
X-Git-Url: http://gitweb.planteome.org/?a=commitdiff_plain;h=4c84234b003270589a4eb8094a0d8f861895854f;p=old-jaiswallab-svn%2F.git

Fix broken synonyms inserts

svn path=/; revision=656
---

diff --git a/interactome_scripts/load_species_db.pl b/interactome_scripts/load_species_db.pl
index bdfce67..014f2c4 100755
--- a/interactome_scripts/load_species_db.pl
+++ b/interactome_scripts/load_species_db.pl
@@ -79,7 +79,8 @@ foreach my $file (@files) {
 	$dbh->do("CREATE TABLE if NOT EXISTS  $safe_syn_table(
 			`gene_id` VARCHAR( 255 ) NOT NULL ,
 			`species` VARCHAR( 255 ) NOT NULL ,
-			`synonyms` TEXT
+			`synonyms` TEXT ,
+			UNIQUE KEY `gene_species_idx` (`gene_id`, `species`)
 			) TYPE = MYISAM");
 
 	# and the statement handler to do the inserts
@@ -103,6 +104,10 @@ foreach my $file (@files) {
 			if(defined($gene)) {
 				$seq_hash{$gene}->{'sequence'} = $seq;
 				$seq_hash{$gene}->{'gene_header'} = $gene_header;
+				if($defined($synonyms)) {
+						$seq_hash{$gene}->{'synonyms'} = $synonyms;
+						undef $synonyms;
+				}
 			}
 			$gene_header = $line;
 			$gene_header =~ s/^>//;
@@ -118,12 +123,15 @@ foreach my $file (@files) {
 	# add the last gene to the hash
 	$seq_hash{$gene}->{'sequence'} = $seq;
 	$seq_hash{$gene}->{'gene_header'} = $gene_header;
+	if(defined($synonyms)) {
+			$seq_hash{$gene}->{'synonyms'} = $synonyms;
+	}
 
 	foreach my $key (keys %seq_hash) {
 		$insert_sth->execute($key,$seq_hash{$key}->{'gene_header'},$seq_hash{$key}->{'sequence'});
 
-		if($synonyms ne "null") {
-				$insert_syn_sth->execute($key,$species,$synonyms);
+		if($seq_hash{$key}->{'synonyms'} ne "null") {
+				$insert_syn_sth->execute($key,$species,$seq_hash{$key}->{'synonyms'});
 		}
 	}
 }