Use different parser

ginkgobioworks · Aug 13, 2024 · a53fb76 · a53fb76
1 parent f3df118
commit a53fb76
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Showing 4 changed files with 133 additions and 116 deletions.
diff --git a/Cargo.lock b/Cargo.lock
diff --git a/Cargo.toml b/Cargo.toml
@@ -6,7 +6,7 @@ edition = "2021"
 [dependencies]
 bio = "2.0.0"
 clap = { version = "4.5.8", features = ["derive"] }
-gfa = "0.10.1"
+gfa-reader = { git = "https://github.com/MoinSebi/gfa-reader", branch = "master" }
 include_dir = "0.7.4"
 rusqlite = { version = "0.31.0", features = ["bundled", "array"] }
 rusqlite_migration = { version = "1.2.0" , features = ["from-directory"]}

diff --git a/fixtures/walk.gfa b/fixtures/walk.gfa
@@ -0,0 +1,9 @@
+H	VN:Z:1.2
+S	1	ACCT	SN:Z:291344	SO:i:0	SR:i:0
+S	2	ACAA	SN:Z:291344	SO:i:4	SR:i:0
+S	3	ATTC	SN:Z:291344	SO:i:8	SR:i:0
+S	4	AAAC	SN:Z:291344	SO:i:12	SR:i:0
+L	1	+	2	+	*
+L	2	+	3	+	*
+L	3	+	4	+	*
+W	291344	0	291344	0	16	>1>2>3>4	*