diff fastq_dump.xml @ 30:4317d3cb6cba draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/sra-tools commit 173bdd37f6353cd869526d193e8d06038ae12787

--- a/fastq_dump.xml	Fri Jun 23 21:32:08 2023 +0000
+++ b/fastq_dump.xml	Mon Sep 11 08:37:23 2023 +0000
@@ -22,7 +22,7 @@
         fastq-dump --accession "\$acc"
         --split-files
     #end if
-    --defline-seq '@\$sn[_\$rn]/\$ri'
+    --defline-seq '$adv.defline_seq'
     --defline-qual '+'
 
     $adv.split
@@ -91,6 +91,7 @@
             <option value="fastqsanger.bz2">bzip2 compressed fastq</option>
         </param>
         <section name="adv" title="Advanced Options" expanded="False">
+            <expand macro="defline" defline_param="--defline-seq" defline_default="@$sn[_$rn]/$ri"/>
             <param name="minID" type="integer" label="Minimum spot ID" optional="true" help="Minimum spot id to be dumped." argument="--minSpotId"/>
             <param name="maxID" type="integer" label="Maximum spot ID" optional="true" help="Maximum spot id to be dumped." argument="--maxSpotId"/>
             <param name="minlen" type="integer" label="Minimum read length" optional="true" help="Filter by sequence length. Will dump only reads longer or equal to this value." argument="--minReadLen"/>