diff chira_quantify.xml @ 10:e0f08a05b24c draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chira commit 51f68a6d51d9e87f8e54021ce760b1506a3589b8"

--- a/chira_quantify.xml	Sat Jun 06 08:12:49 2020 -0400
+++ b/chira_quantify.xml	Sun Jun 14 17:36:19 2020 -0400
@@ -25,7 +25,7 @@
                  Always set this value relative to your sequencing depth. Setting this to lower leads
                  CRLs of random multimappings Also consider setting the --crl_share option
                  along with this"/>
-       <param name="em_threshold" type="float" value="1" label="EM threshold"
+       <param name="em_threshold" type="float" value="0.1" label="EM threshold"
               help="The maximum difference of transcripts expression between two consecutive iterations of EM algorithm to converge."/>
        <param name="crl" type="boolean" truevalue="-crl" falsevalue="" checked="true"
               label="Create CRLs" help="Create CRLs and qunatify them or use the loci further without creating the CRLs" />
@@ -37,6 +37,7 @@
     <tests>
         <test expect_num_outputs="1">
             <param name="segments" value="segments.bed"/>
+            <param name="em_threshold" value="1"/>
             <param name="merged" value="merged.bed"/>
             <param name="min_locus_size" value="5"/>
             <output name="loci" file="loci.counts"/>