X-Git-Url: https://git.arvados.org/lightning.git/blobdiff_plain/701b1d8a25780ae77f6a4d05ef25103b7ea2cbd8..99bea95b726805c44392c60da888f6b67b9ed3a1:/hgvs/diff_test.go

diff --git a/hgvs/diff_test.go b/hgvs/diff_test.go
index 9c04ea75b6..10acdb772c 100644
--- a/hgvs/diff_test.go
+++ b/hgvs/diff_test.go
@@ -1,6 +1,11 @@
+// Copyright (C) The Lightning Authors. All rights reserved.
+//
+// SPDX-License-Identifier: AGPL-3.0
+
 package hgvs
 
 import (
+	"strings"
 	"testing"
 
 	"gopkg.in/check.v1"
@@ -21,7 +26,7 @@ func (s *diffSuite) TestDiff(c *check.C) {
 		{
 			a:      "aaaaaaaaaa",
 			b:      "aaaaCaaaaa",
-			expect: []string{"5a>C"},
+			expect: []string{"5A>C"},
 		},
 		{
 			a:      "aaaacGcaaa",
@@ -56,12 +61,120 @@ func (s *diffSuite) TestDiff(c *check.C) {
 		{
 			a:      "aaGGttAAtttt",
 			b:      "aaCCttttttC",
-			expect: []string{"3_4delinsCC", "7_8del", "12_13insC"},
+			expect: []string{"3G>C", "4G>C", "7_8del", "12_13insC"},
+		},
+		{
+			// without cleanup, diffmatchpatch solves this as {"3del", "=A", "4_5insA"}
+			a:      "aggaggggg",
+			b:      "agAaggggg",
+			expect: []string{"3G>A"},
+		},
+		{
+			// without cleanup, diffmatchpatch solves this as {"3_4del", "=A", "5_6insAA"}
+			a:      "agggaggggg",
+			b:      "agAAaggggg",
+			expect: []string{"3G>A", "4G>A"},
+		},
+		{
+			// without cleanup, diffmatchpatch solves this as {"3_4del", "=A", "5_6insCA"}
+			a:      "agggaggggg",
+			b:      "agACaggggg",
+			expect: []string{"3G>A", "4G>C"},
+		},
+		{
+			// without cleanup, diffmatchpatch solves this as {"3_7del", "=A", "8_9insAAACA"}
+			a:      "aggggggaggggg",
+			b:      "agAAAACaggggg",
+			expect: []string{"3_7delinsAAAAC"},
+		},
+		{
+			// without cleanup, diffmatchpatch solves this as {"3_7del", "=AAAA", "11_12insCAAAA"}
+			a:      "aggggggaaaaggggg",
+			b:      "agAAAACaaaaggggg",
+			expect: []string{"3_7delinsAAAAC"},
+		},
+		{
+			a:      "agggaggggg",
+			b:      "agCAaggggg",
+			expect: []string{"3G>C", "4G>A"},
+		},
+		{
+			a:      "agggg",
+			b:      "agAAg",
+			expect: []string{"3G>A", "4G>A"},
+		},
+		{
+			a:      "aggggg",
+			b:      "agAAAg",
+			expect: []string{"3_5delinsAAA"},
+		},
+		{
+			a:      "acgtgaa",
+			b:      "acTtgaa",
+			expect: []string{"3G>T"},
+		},
+		{
+			a:      "tcagaagac",
+			b:      "tcaAaagac",
+			expect: []string{"4G>A"},
+		},
+		{
+			a:      "tcagatggac",
+			b:      "tcaAaCggac",
+			expect: []string{"4G>A", "6T>C"},
+		},
+		{
+			a:      "tcagatggac",
+			b:      "tcaAaCggTc",
+			expect: []string{"4G>A", "6T>C", "9A>T"},
+		},
+		{
+			a:      "tcagatggac",
+			b:      "tcaAaCCggTc",
+			expect: []string{"4G>A", "6delinsCC", "9A>T"},
+		},
+		{
+			a:      "tcatagagac",
+			b:      "tcacaagac",
+			expect: []string{"4T>C", "6del"},
+		},
+		{
+			a:      "tcatcgagac",
+			b:      "tcGCcgagac",
+			expect: []string{"3A>G", "4T>C"},
+		},
+		{
+			a:      "tcatcgagac",
+			b:      "tcGCcggac",
+			expect: []string{"3A>G", "4T>C", "7del"},
+		},
+		{
+			// should delete leftmost
+			a:      "acgacaTTtttacac",
+			b:      "acgacatttacac",
+			expect: []string{"7_8del"},
+		},
+		{
+			// should insert leftmost
+			a:      "acgacatttacac",
+			b:      "acgacaTTtttacac",
+			expect: []string{"6_7insTT"},
+		},
+		{
+			a:      "ccccaGATAtat",
+			b:      "ccccatat",
+			expect: []string{"6_9del"},
+		},
+		{
+			a:      "aGATAtat",
+			b:      "atat",
+			expect: []string{"2_5del"},
 		},
 	} {
 		c.Log(trial)
 		var vars []string
-		for _, v := range Diff(trial.a, trial.b, 0) {
+		diffs, _ := Diff(strings.ToUpper(trial.a), strings.ToUpper(trial.b), 0)
+		for _, v := range diffs {
 			vars = append(vars, v.String())
 		}
 		c.Check(vars, check.DeepEquals, trial.expect)