Mercurial > repos > dfornika > uvp

changeset 7:679d120f8c09 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/dfornika/galaxytools/blob/master/tools/uvp commit 2482e856a9414983c82d94c9f59ff8985574895e-dirty"
author dfornika
date Fri, 11 Oct 2019 21:07:46 -0400
parents 869ab16717db
children 888953979f8c
files uvp.xml
diffstat 1 files changed, 6 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/uvp.xml	Fri Oct 11 20:48:39 2019 -0400
+++ b/uvp.xml	Fri Oct 11 21:07:46 2019 -0400
@@ -22,15 +22,15 @@
             --threads \${GALAXY_SLOTS:-1}
             #if $single_paired.single_paired_selector == 'yes'
                 -n 'sample'
-                -q '${single_paired.forward_input}'
-                -q2 '${single_paired.reverse_input}'
+                -q 'R1.fastq.gz'
+                -q2 'R2.fastq.gz'
             #elif $single_paired.single_paired_selector == "collection":
                 -n 'sample'
-                -q '${single_paired.input_pair.forward}'
-                -q2 '${single_paired.input_pair.reverse}'
+                -q 'R1.fastq.gz'
+                -q2 'R2.fastq.gz'
             #else:
                 -n 'sample'
-                -q '${single_paired.input_sequences}'
+                -q 'R1.fastq.gz'
             #end if
             --krakendb '${kraken_database.fields.path}'
             -r '${reference}'
@@ -65,6 +65,7 @@
     </inputs>
     <outputs>
         <data name="lineage_report" label="Lineage Report" format="tabular" from_work_dir="Results/sample/sample.lineage_report.txt"/>
+        <data name="validation_report" label="Validation Report" format="tabular" from_work_dir="Results/sample/validation/Validation_report.txt"/>
         <data name="low_quals" label="Low-quality" format="tabular" from_work_dir="QC/low_quals.txt"/>
     </outputs>
     <tests>