Mercurial > repos > pitagora > download_ref
changeset 0:8a042383d39f
commit
| author | pitagora <yamanaka@genome.rcast.u-tokyo.ac.jp> |
|---|---|
| date | Thu, 06 Nov 2014 08:42:07 +0900 |
| parents | |
| children | 329bc367e387 |
| files | download_ref.sh download_ref.xml |
| diffstat | 2 files changed, 33 insertions(+), 0 deletions(-) [+] |
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--- /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
--- /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>