# HG changeset patch
# User iuc
# Date 1734041351 0
# Node ID 405c082a9a20567bed5bb31122c13b9e22175cee
# Parent  6b6c3cf23fe89ed43fedd95d3843924ff8d5cf4f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/halfdeep commit 8c89adcf33dc75d6bd315369bdeadb26fb6c17f9

diff -r 6b6c3cf23fe8 -r 405c082a9a20 halfdeep.xml
--- a/halfdeep.xml	Thu Dec 05 16:56:55 2024 +0000
+++ b/halfdeep.xml	Thu Dec 12 22:09:11 2024 +0000
@@ -30,9 +30,9 @@
         ## mapped reads
         ##
         #if $mapped_reads
-            ln -s '$mapped_reads' 'halfdeep/ref/mapped_reads/${reads_base}.bam' &&
-            ln -s '${reads_base}.bam' 'halfdeep/ref/mapped_reads/${reads_base}.sort.bam' &&
-            ln -s '$mapped_reads.metadata.bam_index' 'halfdeep/ref/mapped_reads/${reads_base}.sort.bam.bai' &&
+            ln -s '$mapped_reads' 'halfdeep/ref/mapped_reads/${reads_base}.${reads.ext}.bam' &&
+            ln -s '${reads_base}.${reads.ext}.bam' 'halfdeep/ref/mapped_reads/${reads_base}.${reads.ext}.sort.bam' &&
+            ln -s '$mapped_reads.metadata.bam_index' 'halfdeep/ref/mapped_reads/${reads_base}.${reads.ext}.sort.bam.bai' &&
         #end if
         ##
         ## run bam_depth.sh
diff -r 6b6c3cf23fe8 -r 405c082a9a20 macros.xml
--- a/macros.xml	Thu Dec 05 16:56:55 2024 +0000
+++ b/macros.xml	Thu Dec 12 22:09:11 2024 +0000
@@ -5,7 +5,7 @@
         </requirements>
     </xml>
     <token name="@TOOL_VERSION@">0.1.0</token>
-    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@VERSION_SUFFIX@">2</token>
     <token name="@PROFILE@">21.05</token>
     <xml name="citations">
         <citations>