# 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 = "2021"
name = "exon"
version = "0.32.2"
build = false
exclude = ["test-data/*"]
autobins = false
autoexamples = false
autotests = false
autobenches = false
description = "A platform for scientific data processing and analysis."
homepage = "https://www.wheretrue.dev/docs/exon/"
readme = "README.md"
keywords = [
    "biology",
    "science",
    "arrow",
]
license = "Apache-2.0"
repository = "https://github.com/wheretrue/exon"

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

[[test]]
name = "sqllogictests"
path = "tests/sqllogictests/src/main.rs"
harness = false

[[bench]]
name = "reverse_complement"
path = "benches/reverse_complement.rs"
harness = false

[dependencies.arrow]
version = "52.2.0"

[dependencies.async-trait]
version = "0.1.82"

[dependencies.bytes]
version = "1.7.1"

[dependencies.datafusion]
version = "41"
features = [
    "compression",
    "parquet",
]

[dependencies.deltalake]
version = "0.19.0"
features = [
    "datafusion",
    "deltalake-aws",
    "s3",
]
optional = true

[dependencies.exon-bam]
version = "0.32.2"

[dependencies.exon-bcf]
version = "0.32.2"

[dependencies.exon-bed]
version = "0.32.2"

[dependencies.exon-bigwig]
version = "0.32.2"

[dependencies.exon-common]
version = "0.32.2"

[dependencies.exon-cram]
version = "0.32.2"

[dependencies.exon-fasta]
version = "0.32.2"

[dependencies.exon-fastq]
version = "0.32.2"

[dependencies.exon-fcs]
version = "0.32.2"
optional = true

[dependencies.exon-genbank]
version = "0.32.2"
optional = true

[dependencies.exon-gff]
version = "0.32.2"

[dependencies.exon-gtf]
version = "0.32.2"

[dependencies.exon-io]
version = "0.32.2"

[dependencies.exon-mzml]
version = "0.32.2"
optional = true

[dependencies.exon-sam]
version = "0.32.2"

[dependencies.exon-sdf]
version = "0.32.2"

[dependencies.exon-vcf]
version = "0.32.2"

[dependencies.futures]
version = "0.3"

[dependencies.fxhash]
version = "0.2.1"

[dependencies.itertools]
version = "0.13"

[dependencies.lazy_static]
version = "1.5.0"

[dependencies.noodles]
version = "0.79"
features = [
    "bed",
    "tabix",
    "core",
    "async",
    "bcf",
    "vcf",
    "bgzf",
    "csi",
    "gtf",
]

[dependencies.num_cpus]
version = "1.16.0"

[dependencies.object_store]
version = "0.10.2"
features = [
    "aws",
    "gcp",
]

[dependencies.pin-project]
version = "1.1.5"
optional = true

[dependencies.regex]
version = "1.10.6"

[dependencies.serde]
version = "1.0.209"
features = ["derive"]

[dependencies.tokio]
version = "1"
features = [
    "io-util",
    "rt-multi-thread",
]

[dependencies.tokio-util]
version = "0.7.11"
features = ["compat"]

[dependencies.tracing]
version = "0.1.40"

[dependencies.tracing-subscriber]
version = "0.3.18"

[dependencies.url]
version = "2.5.2"

[dev-dependencies.clap]
version = "4"
features = [
    "derive",
    "env",
]

[dev-dependencies.criterion]
version = "0.5"
features = ["async_tokio"]

[dev-dependencies.rand]
version = "0.8"

[dev-dependencies.sqllogictest]
version = "0.21.0"

[features]
all = [
    "ffi",
    "genbank",
    "mzml",
    "fcs",
    "deltalake",
]
default = [
    "ffi",
    "genbank",
    "mzml",
    "fcs",
]
deltalake = ["dep:deltalake"]
fcs = ["dep:exon-fcs"]
ffi = [
    "arrow/ffi",
    "dep:pin-project",
]
fixtures = []
genbank = ["dep:exon-genbank"]
mzml = ["dep:exon-mzml"]