Add simple graph conjugate test

ablab · Dec 13, 2024 · fa3be47 · fa3be47
1 parent 0b0a04c
commit fa3be47
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Showing 9 changed files with 43 additions and 1 deletion.
diff --git a/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.fasta b/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.fasta
@@ -0,0 +1,4 @@
+>path1
+ACATGCTCGATATAACGGTTGCTCACCGGAGAGACGACTTTATAGTTCTTGTAATGGGACTGGCGGGAGGAGAGTTACTACGTGTGGTATATCGGGGTTGGATCAGAGTAATCTGAAACAAAGAAGGTAAGATGTTAGACGGGCGGCATCTATATATATAGGGATACAGTTAGAAGAATAATTGGGATGTATGGTACCTCGTCTGTTGCGGCGTCGAAGTAGCGGTTCCATTTATCGCTGCCGTGCGAAATTAAACTGCGTGGATGCTCTCTTTCCGAGCTCCAACTTCTGTCTTGGCCAGGCGGCATCACTGCGGATCCCCCTTTTTGTGAGGGCCAGTTCCGACCCGTTCACTACAAGACTAGACTGTTCACGTGGCAACCTAGATCCCCAGGCGTACGAGGTCAACTCCTCTCGGAACACCGAAGATGCCGTGGTTGCCACTTAGAAGGCTCTATGACTTTGCACCTATTTTTTGAGAGAGTTATGTCTTGCATCGA
+>path2
+GGTACCTTGGAGGGACAATTCGGTTACGGATTCATTCATCTTAAGGCAAGACGTTTCCGCGTGTCGCTGTGGTGGCTCTCCCTCGCGTAGTTTCTATACGGATCAGAGTAATCTGAAACAAAGAAGGTAAGATGTTAGACGGGCGGCATCTATATATATAGGGATACAGTTAGAAGAATAATTGGGATGTATGGTACCTCCGGGACTGTTGGTCTTCCCCAAGGGTTCACACGCCCACTTGCGACTGGAGCACGAAATTGTCCAGAATGGCTGCGCTTATGAGACTGGACCCTATCCTCGCGGATTTACGTAATGTTCTACGTACCTATTCCGGCGCCACCAGGTCATGTCCGGCTTGCGCACTTAATTGCGCTATGATGTCCGGAGGCAGCCGACCCAG
diff --git a/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.gfa b/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.gfa
@@ -0,0 +1,11 @@
+H	VN:Z:1.0
+S	edge1	ACATGCTCGATATAACGGTTGCTCACCGGAGAGACGACTTTATAGTTCTTGTAATGGGACTGGCGGGAGGAGAGTTACTACGTGTGGTATATCGGGGTTGGATCAGAGTAATCTGAAACAAAGAAGGTAAGATGTTAGACGGGCGGCATCTATATATATAGGGATACAGTTAGAAGAATAATTGGGATGTATGGTACCTC
+S	edge2	GGTACCTTGGAGGGACAATTCGGTTACGGATTCATTCATCTTAAGGCAAGACGTTTCCGCGTGTCGCTGTGGTGGCTCTCCCTCGCGTAGTTTCTATACGGATCAGAGTAATCTGAAACAAAGAAGGTAAGATGTTAGACGGGCGGCATCTATATATATAGGGATACAGTTAGAAGAATAATTGGGATGTATGGTACCTC
+S	edge3	GATCAGAGTAATCTGAAACAAAGAAGGTAAGATGTTAGACGGGCGGCATCTATATATATAGGGATACAGTTAGAAGAATAATTGGGATGTATGGTACCTCGTCTGTTGCGGCGTCGAAGTAGCGGTTCCATTTATCGCTGCCGTGCGAAATTAAACTGCGTGGATGCTCTCTTTCCGAGCTCCAACTTCTGTCTTGGCCAGGCGGCATCACTGCGGATCCCCCTTTTTGTGAGGGCCAGTTCCGACCCGTTCACTACAAGACTAGACTGTTCACGTGGCAACCTAGATCCCCAGGCGTACGAGGTCAACTCCTCTCGGAACACCGAAGATGCCGTGGTTGCCACTTAGAAGGCTCTATGACTTTGCACCTATTTTTTGAGAGAGTTATGTCTTGCATCGA
+S	edge4	GATCAGAGTAATCTGAAACAAAGAAGGTAAGATGTTAGACGGGCGGCATCTATATATATAGGGATACAGTTAGAAGAATAATTGGGATGTATGGTACCTCCGGGACTGTTGGTCTTCCCCAAGGGTTCACACGCCCACTTGCGACTGGAGCACGAAATTGTCCAGAATGGCTGCGCTTATGAGACTGGACCCTATCCTCGCGGATTTACGTAATGTTCTACGTACCTATTCCGGCGCCACCAGGTCATGTCCGGCTTGCGCACTTAATTGCGCTATGATGTCCGGAGGCAGCCGACCCAG
+L	edge1	+	edge3	+	100M
+L	edge4	-	edge1	-	100M
+L	edge3	-	edge2	-	100M
+L	edge4	-	edge2	-	100M
+P	path1	edge1+,edge3+	100M
+P	path2	edge2+,edge4+	100M
diff --git a/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.graph b/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.graph
@@ -0,0 +1,21 @@
+bone
+4
+edge1	200
+edge2	200
+edge3	400
+edge4	300
+1
+vertex1	100
+4
+edge1	vertex1
+edge2	vertex1
+vertex1	edge3
+vertex1	edge4
+4
+edge1	edge3	100
+edge1	edge4	100
+edge2	edge3	100
+edge2	edge4	100
+2
+path1	edge1	edge3
+path2	edge2	edge4
diff --git a/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.ops b/src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone.ops
@@ -0,0 +1,5 @@
+1
+split edge1	edge3
+2
+path1	2   edge1	edge3
+path2	2   edge2	edge4
diff --git a/...raph_fragments/v_overlaps/conjugate.fasta → ...agments/v_overlaps/conjugate_triple.fasta b/...raph_fragments/v_overlaps/conjugate.fasta → ...agments/v_overlaps/conjugate_triple.fasta
diff --git a/.../graph_fragments/v_overlaps/conjugate.gfa → ...fragments/v_overlaps/conjugate_triple.gfa b/.../graph_fragments/v_overlaps/conjugate.gfa → ...fragments/v_overlaps/conjugate_triple.gfa
diff --git a/...raph_fragments/v_overlaps/conjugate.graph → ...agments/v_overlaps/conjugate_triple.graph b/...raph_fragments/v_overlaps/conjugate.graph → ...agments/v_overlaps/conjugate_triple.graph
diff --git a/.../graph_fragments/v_overlaps/conjugate.ops → ...fragments/v_overlaps/conjugate_triple.ops b/.../graph_fragments/v_overlaps/conjugate.ops → ...fragments/v_overlaps/conjugate_triple.ops
diff --git a/src/test/debruijn/v_overlaps.cpp b/src/test/debruijn/v_overlaps.cpp
@@ -229,6 +229,7 @@ void CheckGraphWithPaths(const std::filesystem::path &graph_basename) {
 
 TEST(VariableOverlaps, BasicOperations) {
     CheckGraphWithPaths("src/test/debruijn/graph_fragments/v_overlaps/bone");
-    CheckGraphWithPaths("src/test/debruijn/graph_fragments/v_overlaps/conjugate");
+    CheckGraphWithPaths("src/test/debruijn/graph_fragments/v_overlaps/conjugate_bone");
+    CheckGraphWithPaths("src/test/debruijn/graph_fragments/v_overlaps/conjugate_triple");
     CheckGraphWithPaths("src/test/debruijn/graph_fragments/v_overlaps/triple_repeat");
 }