From 95bb17ec7616a49a402f17d9f67071a118e8ef99 Mon Sep 17 00:00:00 2001
From: Rhoda Kinsella <rhoda@ebi.ac.uk>
Date: Thu, 29 Sep 2011 12:07:23 +0000
Subject: [PATCH] Replaced RefSeq_dna_predicted with Refseq_mRNA_predicted and
RefSeq_ncRNA_predicted as the RefSeq_dna_predicted have been split for
release 64.
---
misc-scripts/xref_projection/project_display_xrefs.pl | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/misc-scripts/xref_projection/project_display_xrefs.pl b/misc-scripts/xref_projection/project_display_xrefs.pl
index 32ab6b2437..ab4d900c9f 100644
--- a/misc-scripts/xref_projection/project_display_xrefs.pl
+++ b/misc-scripts/xref_projection/project_display_xrefs.pl
@@ -477,7 +477,7 @@ sub print_stats {
my $projected = count_rows($to_ga, "SELECT COUNT(*) FROM gene g, xref x WHERE g.display_xref_id=x.xref_id AND x.info_type='PROJECTION'");
printf(" projected %d (%3.1f\%)" , $projected, (100 * $projected / $total_genes));
- $count = count_rows($to_ga, "SELECT COUNT(*) FROM gene g, xref x, external_db e WHERE g.display_xref_id=x.xref_id AND x.external_db_id=e.external_db_id AND e.db_name IN ('RefSeq_dna_predicted', 'RefSeq_peptide_predicted')");
+ $count = count_rows($to_ga, "SELECT COUNT(*) FROM gene g, xref x, external_db e WHERE g.display_xref_id=x.xref_id AND x.external_db_id=e.external_db_id AND e.db_name IN ('RefSeq_mRNA_predicted', 'RefSeq_ncRNA_predicted', 'RefSeq_peptide_predicted')");
printf(" predicted %d (%3.1f\%)" , $count, (100 * $count / $total_genes));
$count = count_rows($to_ga, "SELECT COUNT(*) FROM gene g WHERE display_xref_id IS NOT NULL");
@@ -638,7 +638,7 @@ sub check_overwrite_display_xref {
return 1 if (!$to_gene->external_name() && $to_species ne "zebrafish");
- if ($to_dbname eq "RefSeq_dna_predicted" || $to_dbname eq "RefSeq_peptide_predicted") {
+ if ($to_dbname eq "RefSeq_mRNA_predicted" || $to_dbname eq "RefSeq_ncRNA_predicted" || $to_dbname eq "RefSeq_peptide_predicted") {
if (($from_species eq "human" && $from_dbname =~ /HGNC/) ||
($from_species eq "mouse" && $from_dbname =~ /MarkerSymbol/)) {
--
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