diff salmonKallistoMtxTo10x.xml @ 8:5675dc87bb8d draft

"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/salmon-kallisto-mtx-to-10x/.shed.yml commit bf9021c853da640771202920cde38f77cdeaf368"

--- a/salmonKallistoMtxTo10x.xml	Fri Nov 22 11:11:16 2019 -0500
+++ b/salmonKallistoMtxTo10x.xml	Wed Mar 04 06:44:57 2020 -0500
@@ -1,8 +1,8 @@
-<tool id="_salmon_kallisto_mtx_to_10x" name="salmonKallistoMtxTo10x" version="0.0.1+galaxy3">
+<tool id="_salmon_kallisto_mtx_to_10x" name="salmonKallistoMtxTo10x" version="0.0.1+galaxy4" profile="18.01">
     <description>Transforms .mtx matrix and associated labels into a format compatible with tools expecting old-style 10X data</description>
     <requirements>
-      <requirement type="package">scipy</requirement>
-      <requirement type="package">pandas</requirement>
+      <requirement type="package" version="1.4.1">scipy</requirement>
+      <requirement type="package" version="1.0.1">pandas</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
         file $mtx_file | grep 'gzip compressed' > /dev/null;
@@ -27,7 +27,7 @@
         <data name="barcodes_out" format="tabular" from_work_dir="barcodes.tsv" label="${tool.name} on ${on_string}: barcodes"/>
         <data name="matrix_out" format="mtx" from_work_dir="matrix.mtx" label="${tool.name} on ${on_string}: matrix" />
     </outputs>
-    
+
     <help><![CDATA[
 .. class:: infomark
 
@@ -39,13 +39,13 @@
 
 MTX and row and gene labels from the relevant tool. For Alevin this will be
 
- * Matrix file: quants_mat.mtx.gz 
+ * Matrix file: quants_mat.mtx.gz
  * Genes file: quants_mat_cols.txt
  * Barcodes file: quants_mat_rows.txt
 
 For Kallisto it will be:
 
- * Matrix file: [name].mtx.gz 
+ * Matrix file: [name].mtx.gz
  * Genes file: [name].genes.txt
  * Barcodes file: [name].barcodes.txt