From dd00231840f0288a30c6da2c63925a581e559204 Mon Sep 17 00:00:00 2001
From: "Thomas A. Christensen II" <25492070+MillironX@users.noreply.github.com>
Date: Mon, 5 Dec 2022 15:34:39 -0600
Subject: [PATCH] Add test for soft clips

---
 test/runtests.jl | 10 ++++++++++
 1 file changed, 10 insertions(+)

diff --git a/test/runtests.jl b/test/runtests.jl
index c1eeb37..673201a 100644
--- a/test/runtests.jl
+++ b/test/runtests.jl
@@ -106,3 +106,13 @@ end
     @test refbases(Variation(dna"ATCGA", "1C")) == dna"A"
     @test altbases(Variation(dna"ATCGA", "1C")) == dna"CA"
 end
+
+@testset "SoftclipVariant" begin
+    refseq = dna"GATTACA"
+    mutseq = dna"GATTACAAAA"
+
+    refvar = Variant(refseq, SequenceVariation.Edit{typeof(refseq), eltype(refseq)}[])
+
+    # Test for ending soft clip
+    @test Variant(PairwiseAlignment(AlignedSequence(mutseq, Alignment("7=3S", 1, 1)), refseq)) == refvar
+end