Mercurial > repos > bgruening > alevin

changeset 3:0a5258e41227 draft

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"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit cf916eb507ee224812b64663c1d6020eb59eb88c"
author bgruening
date Thu, 17 Oct 2019 17:05:18 -0400
parents e53f19161c59
children 917f8e439160
files alevin.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/alevin.xml	Tue Oct 15 12:02:30 2019 -0400
+++ b/alevin.xml	Thu Oct 17 17:05:18 2019 -0400
@@ -7,7 +7,7 @@
     <command detect_errors="exit_code"><![CDATA[
         mkdir ./index
         && mkdir ./output
-        #if '${refTranscriptSource.TranscriptSource}' != "indexed":
+        #if $refTranscriptSource.TranscriptSource != "indexed":
             && salmon index -i ./index
                 --kmerLen '${refTranscriptSource.s_index.kmer}'
                 --gencode
@@ -149,7 +149,7 @@
     </inputs>
     <outputs>
         <data name="quants_mat.tsv" label="quants_mat.tsv" format="txt" from_work_dir="quants_mat.tsv">
-            <filter>not optional["dumpMtx"]</filter>
+            <filter>optional["dumpMtx"] is not True</filter>
         </data>
         <data name="quants_mat.mtx.gz" label="quants_mat.mtx.gz" format="mtx" from_work_dir="output/alevin/quants_mat.mtx.gz">
             <filter>optional["dumpMtx"]</filter>