Mercurial > repos > iuc > mothur_remove_seqs

diff remove.seqs.xml @ 4:d71c95ed484d draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 38a2bbee32eaaceeb22d7549b13dbc0c613ee173
author iuc
date Tue, 20 Mar 2018 13:56:11 -0400
parents cfab052e5e8a
children
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line diff
--- a/remove.seqs.xml	Wed Feb 14 09:54:43 2018 -0500
+++ b/remove.seqs.xml	Tue Mar 20 13:56:11 2018 -0400
@@ -101,6 +101,7 @@
         <param name="taxonomy_in" type="data" format="mothur.seq.taxonomy" optional="true" label="taxonomy - Taxonomy"/>
         <param name="count_in" type="data" format="mothur.count_table" optional="true" label="count - a count_table" help="generated by count.seqs"/>
         <param name="dups" type="boolean" truevalue="" falsevalue=",dups=false" checked="true" label="dups - Apply to duplicates"/>
+        <expand macro="param-savelog"/>
     </inputs>
     <outputs>
         <expand macro="logfile-output"/>
@@ -137,6 +138,7 @@
             <param name="accnos" value="Mock_S280_L001_R1_001_small.trim.contigs.bad.accnos"/>
             <param name="fasta_in" value="Mock_S280_L001_R1_001_small.trim.contigs.fasta"/>
             <param name="dups" value=""/>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
             <output name="fasta_out">
                 <assert_contents>
@@ -148,6 +150,7 @@
         <test>
             <param name="accnos" value="Mock_S280_L001_R1_001_small.trim.contigs.bad.accnos"/>
             <param name="fastq_in" value="Mock_S280_L001_R1_001_small.fastq"/>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
             <output name="fastq_out">
                 <assert_contents>
@@ -161,6 +164,7 @@
             <param name="fasta_in" value="Mock_S280_L001_R1_001_small.trim.contigs.fasta"/>
             <param name="fastq_in" value="Mock_S280_L001_R1_001_small.fastq"/>
             <param name="dups" value=",dups=false"/>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
             <output name="fasta_out">
                 <assert_contents>
@@ -178,6 +182,7 @@
         <test>
             <param name="accnos" value="amazon.bad.accnos"/>
             <param name="count_in" value="amazon.count_table"/>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
             <output name="count_out">
                 <assert_contents>