Author: plessy
Date: 2008-09-12 07:00:18 +0000 (Fri, 12 Sep 2008)
New Revision: 2485
Modified:
trunk/community/infrastructure/getData/getData
Log:
Added Human RefSeq and ENSEMBL.
Modified: trunk/community/infrastructure/getData/getData
===================================================================
--- trunk/community/infrastructure/getData/getData 2008-09-11 15:27:41 UTC
(rev 2484)
+++ trunk/community/infrastructure/getData/getData 2008-09-12 07:00:18 UTC
(rev 2485)
@@ -3,7 +3,7 @@
use strict;
use vars qw(%toBeMirrored $sharedWgetOptions);
-$sharedWgetOptions = "--recursive --no-host-directories --no-directories
--level 1 --no-parent";
+$sharedWgetOptions = "--continue --recursive --no-host-directories
--no-directories --level 1 --no-parent";
=head1 NAME
@@ -336,6 +336,11 @@
# B I O I N F O R M A T I C S
#
+ "ensembl.hsa" => {
+ name => "ENSEMBL flatfile dump -- Homo Sapiens",
+ source => "wget $sharedWgetOptions
ftp://ftp.ensembl.org/pub/current_embl/homo_sapiens/*";
+ },
+
"gene.ontology.rdf" => {
name => "GeneOntology - RDF-formatted, terms only.",
source => "wget $sharedWgetOptions
ftp://ftp.geneontology.org/pub/go/godatabase/archive/latest/go_*-termdb.rdf-xml.gz";,
@@ -395,6 +400,12 @@
source => "wget $sharedWgetOptions
http://www.reactome.org/download/interactions.README.txt
http://www.reactome.org/download/current/homo_sapiens.interactions.txt.gz";
},
+# Proof-of-principle for RefSeq. Does not include everything.
+ "refseq.hsa" => {
+ name => "The NCBI Reference Sequence project - Homo sapiens",
+ source => "wget $sharedWgetOptions
ftp://ftp.ncbi.nih.gov/refseq/H_sapiens/mRNA_Prot/*ff.gz";
+ },
+
"pfam-a" => {
name => "Pfam-A : Manually curated protein families and
domains, only the seed is presented.",
source => "wget $sharedWgetOptions
ftp://ftp.sanger.ac.uk/pub/databases/Pfam/current_release/Pfam-A-seed.gz";
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