From 5f23d5b08599ac45b2bd1d16d0c6f57077bad344 Mon Sep 17 00:00:00 2001
From: Ian Longden <ianl@sanger.ac.uk>
Date: Fri, 18 Mar 2005 09:19:25 +0000
Subject: [PATCH] removed medline as this is the same as pubmed
---
.../XrefParser/RefSeqGPFFParser.pm | 23 -------------------
1 file changed, 23 deletions(-)
diff --git a/misc-scripts/xref_mapping/XrefParser/RefSeqGPFFParser.pm b/misc-scripts/xref_mapping/XrefParser/RefSeqGPFFParser.pm
index 610d97f750..97f05e483c 100644
--- a/misc-scripts/xref_mapping/XrefParser/RefSeqGPFFParser.pm
+++ b/misc-scripts/xref_mapping/XrefParser/RefSeqGPFFParser.pm
@@ -141,7 +141,6 @@ sub create_xrefs {
# TODO experimental/predicted
# pubmed & medline are simple dependent xrefs; may be several of each
- my @medline = $entry =~ /\s+MEDLINE\s+(\d+)/g;
my @pubmed = $entry =~ /\s+PUBMED\s+(\d+)/g;
my @LocusIDline = $entry =~ /db_xref=.LocusID:(\d+)/g;
my @EntrezGeneIDline = $entry =~ /db_xref=.GeneID:(\d+)/g;
@@ -168,13 +167,6 @@ sub create_xrefs {
$dep{ACCESSION} = $mim;
push @{$xref->{DEPENDENT_XREFS}}, \%dep;
}
- foreach my $med (@medline) {
- my %dep;
- $dep{SOURCE_ID} = $dependent_sources{MEDLINE};
- $dep{LINKAGE_SOURCE_ID} = $source_id;
- $dep{ACCESSION} = $med;
- push @{$xref->{DEPENDENT_XREFS}}, \%dep;
- }
foreach my $pub (@pubmed) {
my %dep;
$dep{SOURCE_ID} = $dependent_sources{PUBMED};
@@ -183,21 +175,6 @@ sub create_xrefs {
push @{$xref->{DEPENDENT_XREFS}}, \%dep;
}
- # Find associated mRNA
- #my ($mrna) = $entry =~ /DBSOURCE\s+REFSEQ:\s+accession (.*)\n/;
- #
- #if($mrna){
- # my %mrna_dep;
- # $mrna_dep{SOURCE_ID} = $source_id; # source is still RefSeq
- # $mrna_dep{LINKAGE_SOURCE_ID} = $source_id;
- # my ($mrna_acc,$mrna_ver) = split (/\./,$mrna);
- #
- # $mrna_dep{ACCESSION} = $mrna_acc;
- # $mrna_dep{VERSION} = $mrna_ver;
- # push @{$xref->{DEPENDENT_XREFS}}, \%mrna_dep;
- #}
-
-
push @xrefs, $xref;
}# if defined species
--
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