diff fastq_dump_pe.xml @ 21:3c859d094074 draft default tip

planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/aurora-tools/rmarkdown_fastq_dump commit ffa886b188215708786e3c49877fc08fea60659e

--- a/fastq_dump_pe.xml	Wed Sep 27 21:38:54 2017 -0400
+++ b/fastq_dump_pe.xml	Wed Apr 04 10:10:26 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="rmarkdown_fastqc_dump_pe" name="fastqc-dump-pe" version="1.0.0">
+<tool id="rmarkdown_fastq_dump_pe" name="fastq-dump-pe" version="1.0.2">
     <requirements>
         <requirement type="package" version="1.15.0.6-0">pandoc</requirement>
         <requirement type="package" version="1.20.0">r-getopt</requirement>
@@ -22,7 +22,6 @@
         <![CDATA[
             Rscript '${__tool_directory__}/fastq_dump_pe_render.R'
                 -i '$sra_accession'
-                -e $echo
                 -f $format
 
                 -r $report
@@ -35,10 +34,10 @@
     <inputs>
         <param type="text" name="sra_accession" label="SRR/DRR/ERR accessions" optional="false"
                help="A list of SRR/DRR/ERR accessions separated by comma or space. e.g. SRR6077558,ERR343809"/>
-        <param type="boolean" name="format" truevalue="fastq" falsevalue="fasta" checked="true"
-               label="output files in fastq (Yes) or fasta (No)?"/>
-        <param type="boolean" name="echo" truevalue="TRUE" falsevalue="FALSE" checked="false"
-               label="Display analysis code in report?"/>
+        <param type="select" name="format" label="Output format">
+            <option value="fastq" selected="true">fastq</option>
+            <option value="fasta">fasta</option>
+        </param>
     </inputs>
     <outputs>
         <data format="html" name="report" label="Fastq-dump report" />