Mercurial > repos > greg > affy2vcf

changeset 1:c15d12a508e5 draft

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Uploaded
author greg
date Thu, 04 Oct 2018 10:14:01 -0400
parents a39ee5dae75e
children 197a77374215
files affy2vcf.xml
diffstat 1 files changed, 9 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/affy2vcf.xml	Wed Oct 03 12:58:15 2018 -0400
+++ b/affy2vcf.xml	Thu Oct 04 10:14:01 2018 -0400
@@ -25,8 +25,16 @@
 --threads \${GALAXY_SLOTS:-4}
     ]]></command>
     <inputs>
-        <param name="fasta_ref" type="data" format="fasta" label="Fasta reference sequence" />
         <param name="annot" type="data" format="csv" label="Probeset annotation file" />
+        <param name="fasta_ref" type="select" format="fasta" label="Fasta reference sequence" />
+            <options from_data_table="all_fasta">
+                <column name="name" index="1"/>
+                <column name="value" index="2"/>
+                <column name="path" index="2"/>
+                <filter type="sort_by" column="1"/>
+                <validator type="no_options" message="No Fasta genome references are available.  Use the Fetch Genome DBKeys All Fasta Data Manager tool in Galaxy to install and populate the all_fasta data table."/>
+            </options>
+        </param>
         <conditional name="output_gender_estimate_cond">
             <param name="output_gender_estimate" type="select" force_select="true" label="Output apt-probeset-genotype gender estimate?">
                 <option value="no" selected="true">No</option>