# THIS FILE IS AUTOMATICALLY GENERATED BY CARGO
#
# When uploading crates to the registry Cargo will automatically
# "normalize" Cargo.toml files for maximal compatibility
# with all versions of Cargo and also rewrite `path` dependencies
# to registry (e.g., crates.io) dependencies.
#
# If you are reading this file be aware that the original Cargo.toml
# will likely look very different (and much more reasonable).
# See Cargo.toml.orig for the original contents.

[package]
edition = "2018"
name = "varlociraptor"
version = "8.4.11"
authors = [
    "Johannes Köster <johannes.koester@tu-dortmund.de>",
    "David Lähnemann <david.laehnemann@uni-duesseldorf.de>",
]
build = false
include = [
    "src/**/*",
    "Cargo.toml",
    "CHANGELOG.md",
    "README.md",
    "LICENSE",
    "templates/*",
]
autobins = false
autoexamples = false
autotests = false
autobenches = false
description = "A library for calling of genomic variants using a latent variable model."
readme = "README.md"
license = "GPL-3.0"
repository = "https://github.com/varlociraptor/varlociraptor"

[profile.develop]
lto = false
codegen-units = 128
inherits = "release"

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

[lib]
name = "varlociraptor"
path = "src/lib.rs"

[[bin]]
name = "varlociraptor"
path = "src/bin/varlociraptor.rs"

[dependencies.GSL]
version = "6.0"

[dependencies.anyhow]
version = "1.0"

[dependencies.approx]
version = "0.5.0"

[dependencies.askama]
version = "0.11.1"

[dependencies.auto_ops]
version = "0.3.0"

[dependencies.bincode]
version = "1.3"

[dependencies.bio]
version = "2.0.0"

[dependencies.bio-types]
version = ">=0.12"
features = ["serde"]

[dependencies.boolean_expression]
version = "0.4"

[dependencies.bv]
version = "0.11"

[dependencies.byteorder]
version = "1.3"

[dependencies.cached]
version = "0.42"

[dependencies.clap]
version = "2"
features = [
    "yaml",
    "color",
    "suggestions",
]

[dependencies.counter]
version = "0.5"

[dependencies.csv]
version = "1"

[dependencies.data-encoding]
version = "2.3"

[dependencies.derefable]
version = "0.1"

[dependencies.derive-new]
version = "0.5"

[dependencies.derive_builder]
version = "0.12.0"

[dependencies.eval]
version = "0.4"

[dependencies.fern]
version = "0.6"

[dependencies.getset]
version = "0.1.0"

[dependencies.half]
version = "2.3"
features = ["serde"]

[dependencies.itertools]
version = "0.10"

[dependencies.itertools-num]
version = "0.1"

[dependencies.jemallocator]
version = "0.5.0"

[dependencies.lazy_static]
version = "1"

[dependencies.linear-map]
version = "1.2"

[dependencies.log]
version = "0.4"

[dependencies.lru]
version = "0.7"

[dependencies.lru_time_cache]
version = "0.11"

[dependencies.ndarray]
version = "0.15"
features = ["serde"]

[dependencies.num-traits]
version = "0.2"

[dependencies.ordered-float]
version = "1"
features = ["serde"]

[dependencies.paste]
version = "1"

[dependencies.pest]
version = "2"

[dependencies.pest_derive]
version = "2"

[dependencies.petgraph]
version = "0.6"

[dependencies.progress-logger]
version = "0.3"

[dependencies.rand]
version = "0.8"

[dependencies.rayon]
version = "1"

[dependencies.regex]
version = "1"

[dependencies.ring]
version = "0.16"

[dependencies.rust-htslib]
version = "0.47.0"

[dependencies.rusty-machine]
version = "0.5"

[dependencies.serde]
version = "1"

[dependencies.serde_derive]
version = "1"

[dependencies.serde_json]
version = "1"

[dependencies.serde_yaml]
version = ">=0.8.4,<0.9"

[dependencies.shrinkwraprs]
version = "0.3.0"

[dependencies.statrs]
version = "0.16"

[dependencies.structopt]
version = "0.3"

[dependencies.strum]
version = ">= 0.16, < 0.26"

[dependencies.strum_macros]
version = ">= 0.16, < 0.26"

[dependencies.tempfile]
version = "3"

[dependencies.thiserror]
version = "1.0"

[dependencies.time]
version = "0.3"

[dependencies.typed-builder]
version = "0.12"

[dependencies.uuid]
version = "0.8"
features = ["v4"]

[dependencies.vec_map]
version = "0.8"

[dependencies.yaml-rust]
version = ">=0.4.1,<0.5"

[dev-dependencies.env_logger]
version = "0.9.0"

[dev-dependencies.serde_json]
version = "1"

[features]
default = []
use-intrinsics = ["half/use-intrinsics"]