# HG changeset patch
# User pitagora <yamanaka@genome.rcast.u-tokyo.ac.jp>
# Date 1415230927 -32400
# Node ID 8a042383d39fe4b4c85cfcd6a66b8443280f3a39

commit

diff -r 000000000000 -r 8a042383d39f download_ref.sh
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/download_ref.sh	Thu Nov 06 08:42:07 2014 +0900
@@ -0,0 +1,8 @@
+#!/usr/bin/sh
+ID=$1
+ID_URL="http://download.pitagora-galaxy.org/data/reference/$ID"
+LOG=$2
+cd /disk/reference
+wget $ID_URL 2>$LOG
+tar xvzf $ID >$LOG
+rm $ID
diff -r 000000000000 -r 8a042383d39f download_ref.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/download_ref.xml	Thu Nov 06 08:42:07 2014 +0900
@@ -0,0 +1,25 @@
+<tool id="download_ref" name="Download References" version="0.0.1">
+  <description>Data for Pitagora-Galaxy</description>
+  <command interpreter="sh">download_ref.sh $id $log</command>
+  <inputs>
+    <param name="id" type="select" label="Reference Data">
+      <option value="hg19_fasta.tar.gz">Fasta UCSC hg19</option>
+      <option value="hg18_fasta.tar.gz">Fasta UCSC hg18</option>
+      <option value="mm10_fasta.tar.gz">Fasta UCSC mm10</option>
+      <option value="mm9_fasta.tar.gz">Fasta UCSC mm9</option>
+      <option value="dm3_fasta.tar.gz">Fasta UCSC dm3</option>
+      <option value="hg19_bwa_0.5.x.tar.gz">BWA Index (0.5.x) UCSC hg19</option>
+      <option value="hg18_bwa_0.5.x.tar.gz">BWA Index (0.5.x) UCSC hg18</option>
+      <option value="mm10_bwa_0.5.x.tar.gz">BWA Index (0.5.x) UCSC mm10</option>
+      <option value="mm9_bwa_0.5.x.tar.gz">BWA Index (0.5.x) UCSC mm9</option>
+      <option value="dm3_bwa_0.5.x.tar.gz">BWA Index (0.5.x) UCSC dm3</option>
+      <option value="test.tar.gz">Test</option>
+    </param>
+  </inputs>
+  <outputs>
+    <data name="log" format="txt" label="${tool.name} on $id (Log)"/>
+  </outputs>
+  <help>
+**What it does**
+  </help>
+</tool>