Mercurial > repos > nml > mykrobe_parser

diff mykrobe_parser.xml @ 1:05ca0dbc9f46 draft

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planemo upload for repository https://github.com/phac-nml/mykrobe-parser commit 2d42861c536b44c4fe00bef20c442c6cc0e987dd-dirty
author nml
date Mon, 01 Oct 2018 14:54:34 -0400
parents 6eae14751768
children f2608dccd3e0
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--- a/mykrobe_parser.xml	Fri Sep 28 16:01:47 2018 -0400
+++ b/mykrobe_parser.xml	Mon Oct 01 14:54:34 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="mykrobe_parseR" name="mykrobe_parseR" version="0.1.0">
+<tool id="mykrobe_parseR" name="mykrobe_parseR" version="0.1.1">
     <requirements>
         <requirement type="package" version="3.4.1">r-base</requirement>
         <requirement type="package" version="1.5.0">r-jsonlite</requirement>
@@ -14,7 +14,7 @@
         #if $input.type == 'collection'
             mkdir collection_files &&
             #for $file in $input.collection
-                cp "$file" collection_files/"$file.name".json &&
+                ln -s "$file" collection_files/"$file.element_identifier".json &&
             #end for
         #end if