Mercurial > repos > iuc > stacks_assembleperead

changeset 8:a65aee7705b9 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks commit 2b0a6546733e3e090b19e83f4a8b87e09bb11424"
author iuc
date Sun, 19 Jan 2020 11:31:46 +0000
parents 5241eea2f4bd
children 5b1641b09017
files stacks_assembleperead.xml
diffstat 1 files changed, 3 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/stacks_assembleperead.xml	Thu Sep 26 10:16:22 2019 -0400
+++ b/stacks_assembleperead.xml	Sun Jan 19 11:31:46 2020 +0000
@@ -1,16 +1,14 @@
-<tool id="stacks_assembleperead" name="Stacks: assemble read pairs by locus" version="@WRAPPER_VERSION@.0">
+<tool id="stacks_assembleperead" name="Stacks: assemble read pairs by locus" version="@WRAPPER_VERSION@.1">
     <description>run the STACKS sort_read_pairs.pl and exec_velvet.pl wrappers</description>
     <macros>
         <import>macros.xml</import>
     </macros>
-    <expand macro="requirements"/>
+    <expand macro="requirements" />
     <expand macro="stdio"/>
     <command><![CDATA[
 
         mkdir stacks_inputs reads stacks_outputs
-
         &&
-
         #for $input_file in $stacks_col
             #set $ext = ""
             #if not str($input_file.element_identifier).endswith('.tsv')
@@ -51,7 +49,7 @@
 
         #if $velvet.use_velvet == "yes"
             ## remove possible empty files
-            && find stacks_outputs -type f -size 0 -delete
+            && find stacks_outputs -type f -size 0 -exec rm {} \;
 
             &&
             mkdir assembled