diff regex_tabular.xml @ 2:538933d9fccc draft

"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/regex_find_replace commit 8871a847daed1f996c0a2069c3e876685bf8d220"

--- a/regex_tabular.xml	Thu Jan 19 11:26:15 2017 -0500
+++ b/regex_tabular.xml	Tue Apr 07 11:31:27 2020 -0400
@@ -1,15 +1,23 @@
-<tool id="regexColumn1" name="Column Regex Find And Replace" version="1.0.0">
+<tool id="regexColumn1" name="Column Regex Find And Replace" version="1.0.1">
   <description></description>
-  <command interpreter="python">regex.py --input '$input' --output '$out_file1' --column $field --input_display_name '$input.display_name'
-    #for $check in $checks:
-    --pattern='$check.pattern' --replacement='$check.replacement'
-    #end for
+  <requirements>
+    <requirement type="package" version="3.7">python</requirement>
+  </requirements>
+  <command>
+    python '$__tool_requirements__/regex.py'
+      --input '$input'
+      --output '$out_file1'
+      --column $field
+      --input_display_name '$input.display_name'
+      #for $check in $checks:
+        --pattern='$check.pattern' --replacement='$check.replacement'
+      #end for
   </command>
   <inputs>
     <param format="tabular" name="input" type="data" label="Select cells from"/>
     <param name="field" label="using column" type="data_column" data_ref="input" />
     <repeat name="checks" title="Check">
-      <param name="pattern" size="40" type="text" value="chr([0-9A-Za-z])+" label="Find Regex" help="here you can enter text or regular expression (for syntax check lower part of this frame)">
+      <param name="pattern" type="text" value="chr([0-9A-Za-z])+" label="Find Regex" help="here you can enter text or regular expression (for syntax check lower part of this frame)">
         <sanitizer>
           <valid>
             <add preset="string.printable"/>
@@ -22,7 +30,7 @@
           </mapping>
         </sanitizer>
       </param>
-      <param name="replacement" size="40" type="text" value="newchr\1" label="Replacement">
+      <param name="replacement" type="text" value="newchr\1" label="Replacement">
         <sanitizer>
           <valid>
             <add preset="string.printable"/>