Mercurial > repos > jjohnson > defuse
changeset 14:d975e466d443
Add stdio tag to create_reference_dataset.xml
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Mon, 10 Jun 2013 05:43:53 -0500 |
| parents | 85693cb5339f |
| children | 337dc0fe0da1 |
| files | create_reference_dataset.xml |
| diffstat | 1 files changed, 9 insertions(+), 1 deletions(-) [+] |
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--- a/create_reference_dataset.xml Sun Jun 09 21:21:03 2013 -0500 +++ b/create_reference_dataset.xml Mon Jun 10 05:43:53 2013 -0500 @@ -9,7 +9,7 @@ </requirements> <command interpreter="command"> /bin/bash $shscript </command> <inputs> - <param name="ensembl_genome_version" type="text" value="" label="Esembl Genome Version" help="Example: GRCh37"/> + <param name="ensembl_genome_version" type="text" value="" label="Ensembl Genome Version" help="Example: GRCh37"/> <param name="ensembl_version" type="integer" value="" label="Esembl Release Version" help="Example: 71"/> <param name="ucsc_genome_version" type="text" value="" label="UCSC Genome Version" help="Example: hg19"/> <param name="chromosomes" type="text" value="" label="Chromosomes" help="Example: 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,X,Y,MT"/> @@ -21,6 +21,14 @@ <outputs> <data format="txt" name="config_txt" label="${tool.name} on ${on_string}: config.txt"/> </outputs> + <stdio> + <exit_code range="1:" level="fatal" description="Error running Create DeFuse Reference" /> + <regex match="Error:" + source="both" + level="fatal" + description="Error running Create DeFuse Reference" /> + + </stdio> <configfiles> <configfile name="defuse_config"> #import ast