From 6fc0f0c5b304f56883771d7ce6971399d6f1a7e9 Mon Sep 17 00:00:00 2001
From: elserj <elserj@localhost>
Date: Fri, 28 Jun 2013 23:07:32 +0000
Subject: [PATCH] Added new species

svn path=/; revision=488
---
 interactome_scripts/find_species.pl | 12 ++++++++++++
 1 file changed, 12 insertions(+)

diff --git a/interactome_scripts/find_species.pl b/interactome_scripts/find_species.pl
index 23f5add..614aafc 100755
--- a/interactome_scripts/find_species.pl
+++ b/interactome_scripts/find_species.pl
@@ -79,6 +79,8 @@ sub find_species {
 		$temp = "Mimulus_guttatus";
 	}elsif ($temp =~ /Mus\_musculus/) {
 		$temp = "Mus_musculus";
+	}elsif ($temp =~ /Musa/) {
+		$temp = "Musa_acuminata";
 	}elsif ($temp =~ /Nectria\_haematococca/) {
 		$temp = "Nectria_haematococca";
 	}elsif ($temp =~ /Neurospora/) {
@@ -95,6 +97,8 @@ sub find_species {
 		$temp = "Pediculus_humanus";
 	}elsif ($temp =~ /Phoenix/) {
 		$temp = "Phoenix_dactylifera";
+	}elsif ($temp =~ /Phyllostachys/) {
+		$temp = "Phyllostachys_heterocycla";
 	}elsif ($temp =~ /Physcomit/) {
 		$temp = "Physcomitrella_patens";
 	}elsif ($temp =~ /Populus/) {
@@ -258,6 +262,9 @@ sub find_gene {
 	}elsif ($species eq "Mus_musculus") {
 		my ($protein,$type,$chrom,$gene_id,$transcript) = split(/\s/,$gene_header);
 		$gene = $protein;
+	}elsif ($species eq "Musa_acuminata") {
+		my ($protein,$type,$chrom,$gene_id,$transcript) = split(/\s/,$gene_header);
+		$gene = $protein;
 	}elsif ($species eq "Nectria_haematococca") {
 		my ($source, $spec, $int_id, $gene_id) = split(/\|/, $gene_header);
 		$gene = $gene_id;
@@ -283,6 +290,9 @@ sub find_gene {
 	}elsif ($species eq "Phoenix_dactylifera") {
 		my ($gene_id, $temp) = split(/\s/, $gene_header);
 		$gene = $gene_id;
+	}elsif ($species eq "Phyllostachys_heterocycla") {
+		my ($gene_id, $gene_model, $location, $dot, $strand, $dot2, $info) = split (/\s+/, $gene_header);
+		$gene = $gene_id;
 	}elsif ($species eq "Physcomitrella_patens") {
 		my ($name,$pac_id) = split(/\|/,$gene_header);
 		$gene = $name; #???
@@ -410,6 +420,7 @@ sub all_species_array {
 	push (@spec_array, "Medicago_truncatula");
 	push (@spec_array, "Mimulus_guttatus");
 	push (@spec_array, "Mus_musculus");
+	push (@spec_array, "Musa_acuminata");
 	push (@spec_array, "Nectria_haematococca");
 	push (@spec_array, "Neurospora_crassa");
 	push (@spec_array, "Nostoc_punctiforme");
@@ -418,6 +429,7 @@ sub all_species_array {
 	push (@spec_array, "Oryzias_latipes");
 	push (@spec_array, "Pediculus_humanus");
 	push (@spec_array, "Phoenix_dactylifera");
+	push (@spec_array, "Phyllostachys_heterocycla");
 	push (@spec_array, "Physcomitrella_patens");
 	push (@spec_array, "Populus_trichocarpa");
 	push (@spec_array, "Prunus_persica");
-- 
2.34.1