Mercurial > repos > thanhlv > snippy

diff snippy.xml @ 5:e10e0c41a6f3 draft

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planemo upload commit 6844ab5e7c82adc0f3a28153f1769b9d6a865002-dirty
author thanhlv
date Mon, 09 Sep 2019 09:41:12 -0400
parents 4e478a5f2742
children d9c204f7042c
line wrap: on
line diff
--- a/snippy.xml	Mon Sep 09 08:23:04 2019 -0400
+++ b/snippy.xml	Mon Sep 09 09:41:12 2019 -0400
@@ -81,7 +81,7 @@
                 </param>
             </when>
             <when value="history">
-                <param name="ref_file" type="data" format="fasta" label="Use the following dataset as the reference sequence" help="You can upload a FASTA or FASTQ sequence to the history and use it as reference" />
+                <param name="ref_file" type="data" format="fasta,genbank" label="Use the following dataset as the reference sequence" help="You can upload a FASTA or FASTQ sequence to the history and use it as reference" />
             </when>
         </conditional>
         <conditional name="fastq_input">
@@ -169,7 +169,6 @@
     <tests>
 
         <test>            <!-- test 0 - fasta ref no snps -->
-            <!-- <param name="ref" value="reference.fasta" ftype="fasta" /> -->
             <param name="reference_source|reference_source_selector" value="history"/>
             <param name="reference_source|ref_file" value="reference.fasta" ftype="fasta"/>
             <param name="fastq_input_selector" value="paired" />
@@ -183,7 +182,6 @@
         </test>
 
         <test>            <!-- test 1 - fasta ref one snp -->
-            <!-- <param name="ref" value="reference.fasta" ftype="fasta" /> -->
             <param name="reference_source|reference_source_selector" value="history"/>
             <param name="reference_source|ref_file" value="reference.fasta" ftype="fasta"/>
             <param name="fastq_input_selector" value="paired" />
@@ -197,7 +195,6 @@
         </test>
 
         <test>            <!-- test 2 - fasta ref one snp paired_collection -->
-            <!-- <param name="ref" value="reference.fasta" ftype="fasta" /> -->
             <param name="reference_source|reference_source_selector" value="history"/>
             <param name="reference_source|ref_file" value="reference.fasta" ftype="fasta"/>
             <param name="fastq_input_selector" value="paired_collection" />
@@ -215,7 +212,6 @@
         </test>
 
         <test>            <!-- test 3 - fasta ref one snp single -->
-            <!-- <param name="ref" value="reference.fasta" ftype="fasta" /> -->
             <param name="reference_source|reference_source_selector" value="history"/>
             <param name="reference_source|ref_file" value="reference.fasta" ftype="fasta"/>
             <param name="fastq_input_selector" value="single" />