Mercurial > repos > iuc > dada2_learnerrors

diff dada2_learnErrors.xml @ 2:c48d42d65d2b draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit f2a33fe115fef9d711112b53136cf7619f1b19be"
author iuc
date Mon, 16 Mar 2020 07:44:03 -0400
parents 39638e0aff59
children afdfa35a89d9
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line diff
--- a/dada2_learnErrors.xml	Thu Dec 05 18:00:17 2019 -0500
+++ b/dada2_learnErrors.xml	Mon Mar 16 07:44:03 2020 -0400
@@ -35,7 +35,7 @@
     </configfiles>
     <inputs>
         <param argument="fls" type="data" multiple="true" format="fastq,fastq.gz" label="Short read data" help="forward or reverse reads should be processed separately"/>
-        <param argument="nbases" type="integer" value="8" min="0" label="Magnitide of number of bases to use for learning"/>
+        <param argument="nbases" type="integer" value="8" min="0" label="Magnitude of number of bases to use for learning"/>
         <section name="advanced" title="Advanced Option">
             <expand macro="errorEstimationFunction"/>
             <param argument="randomize" type="boolean" checked="false" truevalue="TRUE" falsevalue="FALSE" label="Randomize samples" help="Pick samples at random, otherwise samples are read in the provided order until enough reads are obtained (default)."/>
@@ -57,13 +57,13 @@
     </outputs>
     <tests>
         <test>
-            <param name="fls" value="filterAndTrim_F3D0_R1.fq.gz" ftype="fastqsanger.gz"/>
-            <output name="errors" value="learnErrors_F3D0_R1.Rdata" ftype="dada2_errorrates" compare="sim_size" delta="7000"/>
-            <output name="plot" value="learnErrors_F3D0_R1.pdf" ftype="pdf" compare="sim_size" delta="5000" />
+            <param name="fls" value="filterAndTrim_F3D0_R1.fq.gz,filterAndTrim_F3D141_R1.fq.gz" ftype="fastqsanger.gz"/>
+            <output name="errors" value="learnErrors_R1.Rdata" ftype="dada2_errorrates" compare="sim_size" delta="7000"/>
+            <output name="plot" value="learnErrors_R1.pdf" ftype="pdf" compare="sim_size" delta="5000" />
         </test>
         <!-- test w non-default parameters -->
         <test>
-            <param name="fls" value="filterAndTrim_F3D0_R1.fq.gz" ftype="fastqsanger.gz"/>
+            <param name="fls" value="filterAndTrim_F3D0_R1.fq.gz,filterAndTrim_F3D141_R1.fq.gz" ftype="fastqsanger.gz"/>
             <param name="nbases" value="6" />
             <param name="advanced|errfoo" value="noqualErrfun" />
             <param name="advanced|randomize" value="TRUE" />
@@ -73,10 +73,9 @@
             <param name="plotopt|err_out" value="FALSE" />
             <param name="plotopt|err_in" value="TRUE" />
             <param name="plotopt|nominalQ" value="FALSE"/>
-            <output name="errors" value="learnErrors_F3D0_R1.Rdata" ftype="dada2_errorrates" compare="sim_size" delta="13000"/>
-            <output name="plot" value="learnErrors_F3D0_R1.pdf" ftype="pdf" compare="sim_size" delta="5000" />
+            <output name="errors" value="learnErrors_R1.Rdata" ftype="dada2_errorrates" compare="sim_size" delta="13000"/>
+            <output name="plot" value="learnErrors_R1.pdf" ftype="pdf" compare="sim_size" delta="5000" />
         </test>
-        <!-- TODO test w multiple inputs -->
     </tests>
     <help><![CDATA[
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