diff bowtie_genome_wrapper/bowtie_genomic_wrapper.xml @ 14:a1565147cdc8 draft default tip

Uploaded

--- a/bowtie_genome_wrapper/bowtie_genomic_wrapper.xml	Sat Aug 20 11:38:29 2022 +0000
+++ b/bowtie_genome_wrapper/bowtie_genomic_wrapper.xml	Mon Mar 27 09:38:54 2023 +0000
@@ -1,4 +1,4 @@
-<tool id="bowtie_genomic_wrapper" name="Bowtie Genome Alignment" version="1.6.0">
+<tool id="bowtie_genomic_wrapper" name="Bowtie Genome Alignment" version="1.7.1">
   <description>Align to the Genome with Bowtie</description>
   <requirements>
     <requirement type="package" version="1.2.0">bowtie</requirement>
@@ -162,7 +162,7 @@
       </param>
       <when value="indexed">
         <param name="index" type="select" label="Select a reference genome" help="if your genome of interest is not listed - contact Galaxy team">
-          <options from_data_table="bowtie_indexes">
+          <options from_data_table="bowtie_genome_refs2">
             <filter type="sort_by" column="2" />
             <validator type="no_options" message="No indexes are available" />
           </options>
@@ -424,7 +424,7 @@
     <param name="suppressHeader" type="boolean" truevalue="true" falsevalue="false" checked="False" label="Suppress the header in the output SAM file (--sam-nohead)" help="Bowtie produces SAM with several lines of header information by default" />
   </inputs>
   <outputs>
-    <data format="sam" name="output" label="${tool.name} on ${on_string}: mapped reads">
+    <data format="bam" name="output" label="${tool.name} on ${on_string}: mapped reads">
       <actions>
         <conditional name="refGenomeSource.genomeSource">
           <when value="indexed">