From 903f62acad11f34437cab499ebdd6b1e3fff752c Mon Sep 17 00:00:00 2001
From: Emilio Palumbo <emiliopalumbo@gmail.com>
Date: Fri, 11 Jan 2019 13:39:52 +0100
Subject: [PATCH] Add tests for the new '--match-mates' sort option

---
 test/match_mates.bam | Bin 0 -> 1107 bytes
 test/test_suite.sh   |  14 ++++++++++++++
 2 files changed, 14 insertions(+)
 create mode 100644 test/match_mates.bam

diff --git a/test/match_mates.bam b/test/match_mates.bam
new file mode 100644
index 0000000000000000000000000000000000000000..3a654fdbeee091c8a18d538ee4059e84669f7e56
GIT binary patch
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diff --git a/test/test_suite.sh b/test/test_suite.sh
index 3aa71734..4f009f83 100755
--- a/test/test_suite.sh
+++ b/test/test_suite.sh
@@ -75,6 +75,20 @@ testSortPicard() {
     assertEquals "2d9af987d7aeaf3a38396870a2f30dca" `$sambamba $opts view -f unpack $outfn |$md5sum|cut -c 1-32`
 }
 
+testSortByNameMatchMates() {
+    outfn=$outdir/match_mates_nameSorted.bam
+    $sambamba $opts sort -t2 -n -M -m 300K test/match_mates.bam -o $outfn
+    assertEquals 0 $?
+    assertEquals "8a0b62e1ac85185c31cf66126c876217" `$sambamba $opts view -f unpack $outfn |$md5sum|cut -c 1-32`
+}
+
+testNaturalSortMatchMates() {
+    outfn=$outdir/match_mates_naturalSorted.bam
+    $sambamba $opts sort -t2 -N -M -m 300K test/match_mates.bam -o $outfn
+    assertEquals 0 $?
+    assertEquals "8a0b62e1ac85185c31cf66126c876217" `$sambamba $opts view -f unpack $outfn |$md5sum|cut -c 1-32`
+}
+
 testSlice() {
     $sambamba $opts slice $sortedbam chr1 -o /dev/null
     assertEquals 0 $?