Mercurial > repos > iuc > gemini
diff gemini_load.xml @ 2:93bb0cfacefb draft
Uploaded
author | iuc |
---|---|
date | Mon, 12 Jan 2015 15:31:50 -0500 |
parents | 720cbfb4190d |
children |
line wrap: on
line diff
--- a/gemini_load.xml Wed Aug 27 02:26:19 2014 -0400 +++ b/gemini_load.xml Mon Jan 12 15:31:50 2015 -0500 @@ -12,7 +12,9 @@ --annotation-dir ${annotation_databases.fields.path} @BINARY@ -v "${ infile }" - -t $annotation_type + #if str( $annotation_type ) != "None": + -t $annotation_type + #end if #if $ped: -p $ped @@ -34,7 +36,8 @@ <param name="infile" type="data" format="vcf" label="VCF file to be loaded in the GEMINI database" /> <param name="annotation_type" type="select" label="The annotations to be used with the input vcf" help="(-t)"> - <option value="snpEff">snpEff annotated VCF file</option> + <option value="None">None (not recommended)</option> + <option value="snpEff" selected="True">snpEff annotated VCF file</option> <option value="VEP">VEP annotated VCF file</option> </param> <param name="ped" type="data" format="tablar" optional="True" label="Sample information file in PED+ format" help="(-p)" /> @@ -60,7 +63,7 @@ </inputs> <outputs> - <data name="outfile" format="sqlite" label="${tool.name} on ${on_string}" /> + <data name="outfile" format="gemini.sqlite" /> </outputs> <tests> <test>