# HG changeset patch
# User iuc
# Date 1567726495 14400
# Node ID b4cf5fca877321f520a56b688e5f7b45b52913bb
# Parent  df28283b37786b8639d218b09ceeab5ad7c4b827
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit e2a10eeee8765ba6cf03847562e56cdaeaf4ba5c"

diff -r df28283b3778 -r b4cf5fca8773 bamToBed.xml
--- a/bamToBed.xml	Mon Apr 29 05:54:22 2019 -0400
+++ b/bamToBed.xml	Thu Sep 05 19:34:55 2019 -0400
@@ -9,7 +9,7 @@
     <expand macro="stdio" />
     <command><![CDATA[
 #if $input.extension == 'bam' and $option == "-bedpe":
-    samtools sort -n '${input}' ./input &&
+    samtools sort -n -T "\${TMPDIR:-.}" '${input}' ./input &&
 #else
     ln -s '${input}' ./input.bam &&
 #end if