Mercurial > repos > jjohnson > defuse

diff create_reference_dataset.xml @ 34:3099cec648e7

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Update tool_dependencies, add help
author Jim Johnson <jj@umn.edu>
date Tue, 15 Oct 2013 17:02:23 -0500
parents 1af6f32ff592
children a004033614d4
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line diff
--- a/create_reference_dataset.xml	Fri Sep 06 08:20:41 2013 -0500
+++ b/create_reference_dataset.xml	Tue Oct 15 17:02:23 2013 -0500
@@ -89,7 +89,12 @@
       <param name="rrna_gene_sources" type="hidden" value="Mt_rRNA,rRNA,rRNA_pseudogene"/>
     </when>
     <when value="user_specified">
-      <param name="ensembl_organism" type="text" value="" label="Ensembl Organism Name" help="Examples: homo_sapiens, mus_musculus, rattus_norvegicus"/>
+      <param name="ensembl_organism" type="text" value="" label="Ensembl Organism Name">
+       <help>
+       Examples: homo_sapiens, mus_musculus, rattus_norvegicus
+       ftp://ftp.ensembl.org/pub/release-$ensembl_version/fasta/$ensembl_organism/dna/$ensembl_prefix.$ensembl_genome_version.$ensembl_version.dna.chromosome.$chromosome.fa.gz
+       </help>
+       </param>
       <param name="ensembl_prefix" type="text" value="" label="Ensembl Organism prefix" help="Examples: Homo_sapiens, Mus_musculus, Rattus_norvegicus"/>
       <param name="ensembl_genome_version" type="text" value="" label="Ensembl Genome Version" help="Examples: GRCh37, GRCm38, Rnor_5.0"/>
       <param name="ensembl_version" type="integer" value="" label="Ensembl Release Version" help="Example: 71"/>