fixed another mapped-read symlink

galaxyproject · Dec 11, 2024 · 602a063 · 602a063
1 parent 4a9e694
commit 602a063
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/tools/halfdeep/halfdeep.xml b/tools/halfdeep/halfdeep.xml
@@ -31,7 +31,7 @@
         ##
         #if $mapped_reads
             ln -s '$mapped_reads' 'halfdeep/ref/mapped_reads/${reads_base}${reads.ext}.bam' &&
-            ln -s '${reads_base}.bam' 'halfdeep/ref/mapped_reads/${reads_base}${reads.ext}.sort.bam' &&
+            ln -s '${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
         ##