From 112bd7907267b80f2b0d5b577d26f593d0892b97 Mon Sep 17 00:00:00 2001 From: "J. Christian Heide" Date: Tue, 5 Sep 2023 09:24:37 +0200 Subject: [PATCH] Update dependencies --- Cargo.lock | 100 +++++++++++++++++++++++------------------------------ Cargo.toml | 2 +- 2 files changed, 44 insertions(+), 58 deletions(-) diff --git a/Cargo.lock b/Cargo.lock index 470cb6c..fc897c8 100644 --- a/Cargo.lock +++ b/Cargo.lock @@ -10,9 +10,9 @@ checksum = "f26201604c87b1e01bd3d98f8d5d9a8fcbb815e8cedb41ffccbeb4bf593a35fe" [[package]] name = "aho-corasick" -version = "1.0.4" +version = "1.0.5" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "6748e8def348ed4d14996fa801f4122cd763fff530258cdc03f64b25f89d3a5a" +checksum = "0c378d78423fdad8089616f827526ee33c19f2fddbd5de1629152c9593ba4783" dependencies = [ "memchr", ] @@ -140,7 +140,7 @@ dependencies = [ "serde_derive", "statrs", "strum", - "strum_macros 0.25.2", + "strum_macros", "thiserror", "triple_accel", "vec_map", @@ -148,14 +148,14 @@ dependencies = [ [[package]] name = "bio-types" -version = "1.0.0" +version = "1.0.1" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "c915bf6c578d40e1e497f8c571a4514bc89c3195cec2abb8be6dd5500405c752" +checksum = "9d45749b87f21808051025e9bf714d14ff4627f9d8ca967eade6946ea769aa4a" dependencies = [ "derive-new", "lazy_static", "regex", - "strum_macros 0.24.3", + "strum_macros", "thiserror", ] @@ -329,23 +329,22 @@ dependencies = [ [[package]] name = "clap" -version = "4.4.1" +version = "4.4.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "7c8d502cbaec4595d2e7d5f61e318f05417bd2b66fdc3809498f0d3fdf0bea27" +checksum = "6a13b88d2c62ff462f88e4a121f17a82c1af05693a2f192b5c38d14de73c19f6" dependencies = [ "clap_builder", ] [[package]] name = "clap_builder" -version = "4.4.1" +version = "4.4.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "5891c7bc0edb3e1c2204fc5e94009affabeb1821c9e5fdc3959536c5c0bb984d" +checksum = "2bb9faaa7c2ef94b2743a21f5a29e6f0010dff4caa69ac8e9d6cf8b6fa74da08" dependencies = [ "anstream", "anstyle", "clap_lex", - "once_cell", "strsim", ] @@ -970,9 +969,9 @@ dependencies = [ [[package]] name = "memchr" -version = "2.6.0" +version = "2.6.3" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "76fc44e2588d5b436dbc3c6cf62aef290f90dab6235744a93dfe1cc18f451e2c" +checksum = "8f232d6ef707e1956a43342693d2a31e72989554d58299d7a88738cc95b0d35c" [[package]] name = "memoffset" @@ -1080,9 +1079,9 @@ dependencies = [ [[package]] name = "noodles" -version = "0.49.0" +version = "0.50.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "e794d22f646a9292fcb0c95fb0c7ffe8dff5688ce78fedf147f2b2d1f57857a0" +checksum = "86c1d34ec18d6b3d7699fae207ba766a5b969764d2cad072dc769cb6eca06b36" dependencies = [ "noodles-bam", "noodles-bgzf", @@ -1095,9 +1094,9 @@ dependencies = [ [[package]] name = "noodles-bam" -version = "0.43.0" +version = "0.44.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "1f45f59e68ac877deeb576a5786478b4d3f234970dbd023f7cf821f300e22def" +checksum = "7a2f966b53ae5bfec1e31cab74f8dcabcd95438d1132d08db3c15e3eb81c6c79" dependencies = [ "bit-vec", "byteorder", @@ -1110,9 +1109,9 @@ dependencies = [ [[package]] name = "noodles-bgzf" -version = "0.23.0" +version = "0.24.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "674b3bedaa6a0ee2f2b581428ba472e5873c3f07ae581a478f388a026494561b" +checksum = "8f4c43ff0879c542c1d8fd570c03e368f629587721d10267f2619e36afc9c9b0" dependencies = [ "byteorder", "bytes", @@ -1128,9 +1127,9 @@ checksum = "94fbe3192fe33acacabaedd387657f39b0fc606f1996d546db0dfe14703b843a" [[package]] name = "noodles-cram" -version = "0.40.0" +version = "0.41.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "6a7ed5d7713c0c2b5f0ec5dc7ac13ff075a53f3dda4e50edaac7b1cb0ce65375" +checksum = "ef57b37c8b20341c41a6a8e43ed1f58b04f5fcbe2ab59e3eef71afc7510fb801" dependencies = [ "bitflags 2.4.0", "byteorder", @@ -1147,9 +1146,9 @@ dependencies = [ [[package]] name = "noodles-csi" -version = "0.23.0" +version = "0.24.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "8cfc861de7505bfee33662ec69eba023d60eafebf176f08027084c0fa7e69a66" +checksum = "1b2bb780250c88bc9ea69b56c1aa9df75decc6b79035f3f5ab10c0cd84d24fc6" dependencies = [ "bit-vec", "byteorder", @@ -1160,9 +1159,9 @@ dependencies = [ [[package]] name = "noodles-fasta" -version = "0.28.0" +version = "0.29.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "abe86b983aa434fbcff4b5eb53769622ad28b75435b883b084c8c4cc1e3e71f0" +checksum = "1012431f881aad1912f9650a8d33e7f7493c6202bc2e889949ec1bc26a55f26d" dependencies = [ "bytes", "memchr", @@ -1181,9 +1180,9 @@ dependencies = [ [[package]] name = "noodles-sam" -version = "0.40.0" +version = "0.41.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "6a7b6d6f6dde8e9e7ed7537dd8153afd8ccfb751075f2fc4d863e1e8ce2f8dad" +checksum = "25168f31309cb35103ea5216e30beb1dfbff5f173889c0a056b8f3d7c32e5105" dependencies = [ "bitflags 2.4.0", "indexmap", @@ -1457,9 +1456,9 @@ dependencies = [ [[package]] name = "regex" -version = "1.9.4" +version = "1.9.5" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "12de2eff854e5fa4b1295edd650e227e9d8fb0c9e90b12e7f36d6a6811791a29" +checksum = "697061221ea1b4a94a624f67d0ae2bfe4e22b8a17b6a192afb11046542cc8c47" dependencies = [ "aho-corasick", "memchr", @@ -1469,9 +1468,9 @@ dependencies = [ [[package]] name = "regex-automata" -version = "0.3.7" +version = "0.3.8" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "49530408a136e16e5b486e883fbb6ba058e8e4e8ae6621a77b048b314336e629" +checksum = "c2f401f4955220693b56f8ec66ee9c78abffd8d1c4f23dc41a23839eb88f0795" dependencies = [ "aho-corasick", "memchr", @@ -1495,9 +1494,9 @@ dependencies = [ [[package]] name = "rustix" -version = "0.38.10" +version = "0.38.11" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "ed6248e1caa625eb708e266e06159f135e8c26f2bb7ceb72dc4b2766d0340964" +checksum = "c0c3dde1fc030af041adc40e79c0e7fbcf431dd24870053d187d7c66e4b87453" dependencies = [ "bitflags 2.4.0", "errno", @@ -1574,7 +1573,7 @@ checksum = "4eca7ac642d82aa35b60049a6eccb4be6be75e599bd2e9adb5f875a737654af2" dependencies = [ "proc-macro2", "quote", - "syn 2.0.29", + "syn 2.0.31", ] [[package]] @@ -1674,19 +1673,6 @@ version = "0.25.0" source = "registry+https://github.com/rust-lang/crates.io-index" checksum = "290d54ea6f91c969195bdbcd7442c8c2a2ba87da8bf60a7ee86a235d4bc1e125" -[[package]] -name = "strum_macros" -version = "0.24.3" -source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "1e385be0d24f186b4ce2f9982191e7101bb737312ad61c1f2f984f34bcf85d59" -dependencies = [ - "heck", - "proc-macro2", - "quote", - "rustversion", - "syn 1.0.109", -] - [[package]] name = "strum_macros" version = "0.25.2" @@ -1697,7 +1683,7 @@ dependencies = [ "proc-macro2", "quote", "rustversion", - "syn 2.0.29", + "syn 2.0.31", ] [[package]] @@ -1713,9 +1699,9 @@ dependencies = [ [[package]] name = "syn" -version = "2.0.29" +version = "2.0.31" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "c324c494eba9d92503e6f1ef2e6df781e78f6a7705a0202d9801b198807d518a" +checksum = "718fa2415bcb8d8bd775917a1bf12a7931b6dfa890753378538118181e0cb398" dependencies = [ "proc-macro2", "quote", @@ -1737,22 +1723,22 @@ dependencies = [ [[package]] name = "thiserror" -version = "1.0.47" +version = "1.0.48" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "97a802ec30afc17eee47b2855fc72e0c4cd62be9b4efe6591edde0ec5bd68d8f" +checksum = "9d6d7a740b8a666a7e828dd00da9c0dc290dff53154ea77ac109281de90589b7" dependencies = [ "thiserror-impl", ] [[package]] name = "thiserror-impl" -version = "1.0.47" +version = "1.0.48" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "6bb623b56e39ab7dcd4b1b98bb6c8f8d907ed255b18de254088016b27a8ee19b" +checksum = "49922ecae66cc8a249b77e68d1d0623c1b2c514f0060c27cdc68bd62a1219d35" dependencies = [ "proc-macro2", "quote", - "syn 2.0.29", + "syn 2.0.31", ] [[package]] @@ -1952,7 +1938,7 @@ dependencies = [ "once_cell", "proc-macro2", "quote", - "syn 2.0.29", + "syn 2.0.31", "wasm-bindgen-shared", ] @@ -1974,7 +1960,7 @@ checksum = "54681b18a46765f095758388f2d0cf16eb8d4169b639ab575a8f5693af210c7b" dependencies = [ "proc-macro2", "quote", - "syn 2.0.29", + "syn 2.0.31", "wasm-bindgen-backend", "wasm-bindgen-shared", ] diff --git a/Cargo.toml b/Cargo.toml index 07fea19..04fba7e 100644 --- a/Cargo.toml +++ b/Cargo.toml @@ -26,7 +26,7 @@ min-max-heap = { git = "https://github.com/tov/min-max-heap-rs", branch = "maste slab = "0.4" anyhow = "1.0" mimalloc = { version = "0.1", default-features = false } -noodles = { version = "0.49", features = ["bam", "bgzf", "core", "cram", "fasta", "fastq", "sam"] } +noodles = { version = "0.50", features = ["bam", "bgzf", "core", "cram", "fasta", "fastq", "sam"] } time = { version = "0.3", features = ["local-offset"] } flate2 = "1.0"