Cargo.toml

[package]
name = "hiphase"
version = "1.4.5"
authors = ["J. Matthew Holt <mholt@pacificbiosciences.com>"]
description = "A tool for jointly phasing small, structural, and tandem repeat variants for PacBio sequencing data"
edition = "2021"
license-file="LICENSE.md"

[build-dependencies]
vergen = { version = "8.2.4", features = ["git", "gitcl"] }

# See more keys and their definitions at https://doc.rust-lang.org/cargo/reference/manifest.html
# Note: cmake is required, module load cmake/3.20.2 for initial compiles

[dependencies]
bio = "1.2.0"
bit-vec = "0.6.3"
chrono = "0.4.24"
clap = { version = "4.0.13", features = ["derive"] }
cpu-time = "1.0.0"
csv = "1.1.6"
env_logger = "0.9.1"
exitcode = "1.1.2"
flate2 = "1.0.26"
lazy_static = "1.4.0"
log = "0.4.17"
priority-queue = "1.2.3"
# consider the older version if we run into build issues later
# rust-htslib = { version = "0.37.0", default-features = false }
rust-htslib = { version = "0.39.5", default-features = false, features = ["static"] }
rustc-hash = "1.1.0"
serde = "1.0.147"
simple-error = "0.2.3"
thiserror = "1.0.56"
threadpool = "1.8.1"

[profile.release]
lto = "fat"
codegen-units = 1