Mercurial > repos > devteam > picard

diff picard_macros.xml @ 33:3f254c5ced1d draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 9ecbbb878d68a980ba35a90865e524c723ca3ed8
author: iuc
date: Sun, 03 Mar 2024 16:06:11 +0000
parents: f9242e01365a
--- a/picard_macros.xml	Mon Sep 25 08:32:17 2023 +0000
+++ b/picard_macros.xml	Sun Mar 03 16:06:11 2024 +0000
@@ -18,7 +18,8 @@
        </sanitizer>
     </xml>
 
-    <token name="@TOOL_VERSION@">2.18.2</token>
+    <token name="@TOOL_VERSION@">3.1.1</token>
+    <token name="@PROFILE@">22.05</token>
 
     <xml name="requirements">
         <requirements>
@@ -30,7 +31,7 @@
     <token name="@symlink_element_identifier@"><![CDATA[
     #import re
     #set escaped_element_identifier = re.sub('[^\w\-]', '_', str($inputFile.element_identifier))
-    ln -f -s '$inputFile' '$escaped_element_identifier' &&
+    ln -sf '$inputFile' '$escaped_element_identifier' &&
     ]]></token>
 
     <token name="@java_options@"><![CDATA[
@@ -40,7 +41,7 @@
 
     <token name="@handle_reference_source@"><![CDATA[
     #if str( $reference_source.reference_source_selector ) == "history":
-        ln -s '${reference_source.ref_file}' '${reference_fasta_filename}' &&
+        ln -sf '${reference_source.ref_file}' '${reference_fasta_filename}' &&
     #else:
         #set $reference_fasta_filename = str( $reference_source.ref_file.fields.path )
     #end if
@@ -112,7 +113,6 @@
 
 This will be added shortly
 
-
     </token>
 
     <xml name="citations">
@@ -128,5 +128,4 @@
         </citations>
     </xml>
 
-
 </macros>