# HG changeset patch
# User iuc
# Date 1647503070 0
# Node ID 81cbb6a4c1ca3b925ac3e27d0f839f00e5b9a251
# Parent  6d44c9f1a42b4200ec447097571fdd1441613745
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bbtools commit 08ae36bc77634de84d9613a71552a3e64a71a3f7"

diff -r 6d44c9f1a42b -r 81cbb6a4c1ca bbmap.xml
--- a/bbmap.xml	Thu Feb 03 21:13:25 2022 +0000
+++ b/bbmap.xml	Thu Mar 17 07:44:30 2022 +0000
@@ -1,4 +1,4 @@
-<tool id="bbtools_bbmap" name="BBTools: BBMap" version="@WRAPPER_VERSION@+galaxy3" profile="@PROFILE@">
+<tool id="bbtools_bbmap" name="BBTools: BBMap" version="@WRAPPER_VERSION@+galaxy4" profile="@PROFILE@">
     <description>short-read aligner</description>
     <macros>
         <import>macros.xml</import>
@@ -30,7 +30,7 @@
     #end if
 #else:
     #set read1 = $input_type_cond.reads_collection['forward']
-    #set read1_identifier = re.sub('[^\s\w\-]', '_', str($read1.name))
+    #set read1_identifier = re.sub('[^\s\w\-]', '_', str($read1.element_identifier))
     ## bbmap uses the file extension to determine the input format.
     #set ext = $read1_identifier + '.fastq'
     #if $read1.ext.endswith('.gz'):
@@ -39,7 +39,7 @@
     #set read1_file = $read1_identifier + $ext
     ln -s '${read1}' '${read1_file}' &&
     #set read2 = $input_type_cond.reads_collection['reverse']
-    #set read2_identifier = re.sub('[^\s\w\-]', '_', str($read2.name))
+    #set read2_identifier = re.sub('[^\s\w\-]', '_', str($read2.element_identifier))
     #set read2_file = $read2_identifier + $ext
     ln -s '${read2}' '${read2_file}' &&
 #end if