Mercurial > repos > ebi-gxa > garnett_classify_cells

diff garnett_classify_cells.xml @ 1:ad647e1d14dc draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"
author ebi-gxa
date Fri, 24 Apr 2020 11:22:06 -0400
parents 67e6c4455bb8
children
line wrap: on
line diff
--- a/garnett_classify_cells.xml	Wed Apr 08 06:22:12 2020 -0400
+++ b/garnett_classify_cells.xml	Fri Apr 24 11:22:06 2020 -0400
@@ -5,7 +5,17 @@
     </macros>
     <expand macro="requirements" />
     <command detect_errors="exit_code"><![CDATA[
-        garnett_classify_cells.R --cds-object '${cds_object}' --classifier-object '${classifier_object}' --database '${database}' --cds-gene-id-type '${cds_gene_id_type}' --cluster-extend '${cluster_extend}' --rank-prob-ratio '${rank_prob_ratio}' --cds-output-obj '${cds_output_obj}'
+        garnett_classify_cells.R --cds-object '${cds_object}' --classifier-object '${classifier_object}' --database '${database}' --cds-output-obj '${cds_output_obj}'
+
+        #if $cds_gene_id_type
+        --cds-gene-id-type '${cds_gene_id_type}'
+        #end if
+        #if $cluster_extend
+        --cluster-extend '${cluster_extend}'
+        #end if
+        #if $rank_prob_ratio
+        --rank-prob-ratio '${rank_prob_ratio}'
+        #end if
     ]]></command>
     <inputs>
         <param type="data" name="cds_object" label="CDS object" format="rdata" help="CDS object with expression data for training" />