Merge pull request #2 from PacificBiosciences/v1.0.0

Version 1.0
- Major improvements to D4Z4, now reporting a comprehensive set of information for all D4Z4 alleles in a sample.

Author: xiao-chen-xc

Cargo.lock

@@ -0,0 +1,36 @@
+[package]
+name = "kivvi"
+version = "1.0.0"
+authors = ["Xiao Chen <xchen@pacificbiosciences.com>"]
+description = "Kivvi: KIV2/D4Z4 genotyper using HiFi WGS data"
+edition = "2021"
+
+[workspace]
+members = ["crates/paraphase"]
+
+[dependencies]
+clap = { version = "=4.0", features = ["derive"] }
+chrono = "0.4.24"
+log = "0.4.17"
+env_logger = "0.9.1"
+lazy_static = "1.4.0"
+itertools = "0.10.5"
+url = "2.4.1"
+rust-htslib = { version = "0.49.0", default-features = false, features = ["static"] }
+minimap2 = { version = "0.1.23", features = ["simde", "htslib", "static"]}
+threadpool = "1.8.1"
+simple-error = "0.3"
+static_assertions = "1.1.0"
+serde_json = {version = "1.0.48", features = ["std", "arbitrary_precision"]}
+serde = { version = "1.0.104", features = ["derive"] }
+regex = "1.3.9"
+rand = {version = "0.8.5", features = ["small_rng"]}
+tempfile = "3.3.0"
+counter = "0.5.7"
+bit-vec = "0.6.3"
+priority-queue = "1.2.3"
+rustc-hash = "1.1.0"
+strum_macros = "0.27.1"
+thiserror = "1.0.56"
+paraphase = { path = "crates/paraphase" }
+