Add command to propagate annotations

ginkgobioworks · Nov 12, 2024 · d34fd80 · d34fd80
1 parent e32bb2c
commit d34fd80
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Showing 10 changed files with 313 additions and 114 deletions.
diff --git a/Cargo.lock b/Cargo.lock
diff --git a/Cargo.toml b/Cargo.toml
@@ -16,7 +16,7 @@ include_dir = "0.7.4"
 intervaltree = "0.2.7"
 itertools = "0.13.0"
 lexical-core = "1.0.2"
-noodles = { version = "0.78.0", features = ["bgzf", "core", "vcf", "fasta", "async"] }
+noodles = { version = "0.85.0", features = ["async", "bgzf", "core", "fasta", "gff", "vcf"] }
 petgraph = "0.6.5"
 remove_dir_all = "0.8.4"
 rusqlite = { version = "0.31.0", features = ["bundled", "array", "session"] }

diff --git a/fixtures/aa.fa b/fixtures/aa.fa
@@ -0,0 +1,2 @@
+>m123
+AA
diff --git a/fixtures/simple.gff b/fixtures/simple.gff
@@ -0,0 +1,3 @@
+##gff-version 3
+m123	      gen-test	Region	1	34	.	+	.	ID=m123_region;Is_circular=false;genome=chromosome;mol_type=genomic DNA
+m123	      gen-test	Gene	5	20	.	+	.	ID=gene-a0001;gene_biotype=protein_coding
diff --git a/src/annotations.rs b/src/annotations.rs
@@ -0,0 +1 @@
+pub mod gff;