[package]
authors = ["Mitchell R. Vollger <mrvollger@gmail.com>"]
build = "build.rs"
categories = ["command-line-utilities"]
description = "Fiber-seq toolkit in rust"
edition = "2021"
homepage = "https://fiberseq.github.io/"
keywords = ["cli", "bam", "bfx"]
license = "MIT"
name = "fibertools-rs"
readme = "README.md"
repository = "https://github.com/fiberseq/fibertools-rs"
version = "0.6.2"
# exclude py-ft and test data from cargo publish since they are too large
exclude = ["py-ft/", "tests/data/"]

[workspace]
exclude = ["py-ft"]

[[bin]]
name = "ft"
path = "src/main.rs"

[dependencies]
anstyle = "1.0.0"
anyhow = "1.0.58"
bio = "1.2.0"
clap = {version = "4.4.6", features = ["cargo", "string", "wrap_help", "color", "unstable-styles", "derive", "env"], optional = true}
clap_complete = {version = "4.0.6", optional = true}
clap_mangen = {version = "0.2.5", optional = true}
colored = "2.0.0"
console = {version = "0.15", optional = true}
env_logger = "0.9.0"
gbdt = {version = "=0.1.3"}
indicatif = {version = "0.17.7", features = ["rayon"]}
itertools = "0.10.5"
lazy_static = "1.4.0"
log = "0.4"
ordered-float = "3.4.0"
rayon = "1.10"
regex = "1.9.1"
rust-htslib = "0.43.0"

serde = {version = "1.0.104", features = ["derive"], optional = false}
serde_json = {version = "1.0.48", optional = false}
serde_yaml = "0.9"
spin = "0.9.8"
tch = {version = "0.15.0", optional = true}
tempfile = "3.3.0"
derive_builder = "0.12.0"
gzp = "0.11.3"
niffler = {version = "2.5.0", default-features = false, features = ["gz"]}
burn = { version = "0.12", optional = true, features = ["candle"] } # "wgpu",
num = "0.4.3"
rand = "0.8.5"
#polars = "0.38"

[build-dependencies]
burn-import = {version = "0.12"}
vergen-git2 = { version = "1.0.2", features = ["build", "cargo", "rustc", "si"] }


[dev-dependencies]
assert_cmd = "2.0.11"
predicates = "3.0.3"

[features]
cli = ["dep:clap", "dep:clap_complete", "dep:clap_mangen", "dep:console"]
default = ["cli", "burn"]
tch = ["dep:tch", "burn/tch"]
burn = ["dep:burn"]



# generated by 'cargo dist init'
[profile.dist]
inherits = "release"
split-debuginfo = "packed"

# generated by 'cargo wizard'
[profile.dev]
opt-level = 0
debug = 0

[profile.test]
opt-level = 2
inherits = "dev"
strip = "none"
lto = false
codegen-units = 256
incremental = true

[profile.release]
strip="debuginfo"
codegen-units = 1
debug = false
lto = true
panic = "abort"