From b2db0323972196a370133ed98c2edcfe260592d2 Mon Sep 17 00:00:00 2001 From: "J. Christian Heide" Date: Tue, 15 Aug 2023 11:22:19 +0200 Subject: [PATCH] Update dependencies --- Cargo.lock | 180 ++++++++++++++++++++++++++++------------------------- Cargo.toml | 2 +- 2 files changed, 95 insertions(+), 87 deletions(-) diff --git a/Cargo.lock b/Cargo.lock index 754c03d..1908f02 100644 --- a/Cargo.lock +++ b/Cargo.lock @@ -10,9 +10,9 @@ checksum = "f26201604c87b1e01bd3d98f8d5d9a8fcbb815e8cedb41ffccbeb4bf593a35fe" [[package]] name = "aho-corasick" -version = "1.0.2" +version = "1.0.4" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "43f6cb1bf222025340178f382c426f13757b2960e89779dfcb319c32542a5a41" +checksum = "6748e8def348ed4d14996fa801f4122cd763fff530258cdc03f64b25f89d3a5a" dependencies = [ "memchr", ] @@ -64,9 +64,9 @@ dependencies = [ [[package]] name = "anstyle-wincon" -version = "1.0.1" +version = "1.0.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "180abfa45703aebe0093f79badacc01b8fd4ea2e35118747e5811127f926e188" +checksum = "c677ab05e09154296dd37acecd46420c17b9713e8366facafa8fc0885167cf4c" dependencies = [ "anstyle", "windows-sys 0.48.0", @@ -74,9 +74,9 @@ dependencies = [ [[package]] name = "anyhow" -version = "1.0.72" +version = "1.0.73" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "3b13c32d80ecc7ab747b80c3784bce54ee8a7a0cc4fbda9bf4cda2cf6fe90854" +checksum = "f768393e7fabd388fe8409b13faa4d93ab0fef35db1508438dfdb066918bcf38" [[package]] name = "approx" @@ -182,9 +182,9 @@ checksum = "bef38d45163c2f1dde094a7dfd33ccf595c92905c8f8f4fdc18d06fb1037718a" [[package]] name = "bitflags" -version = "2.3.3" +version = "2.4.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "630be753d4e58660abd17930c71b647fe46c27ea6b63cc59e1e3851406972e42" +checksum = "b4682ae6287fcf752ecaabbfcc7b6f9b72aa33933dc23a554d853aea8eea8635" [[package]] name = "block-buffer" @@ -286,11 +286,12 @@ checksum = "37b2a672a2cb129a2e41c10b1224bb368f9f37a2b16b612598138befd7b37eb5" [[package]] name = "cc" -version = "1.0.79" +version = "1.0.82" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "50d30906286121d95be3d479533b458f87493b30a4b5f79a607db8f5d11aa91f" +checksum = "305fe645edc1442a0fa8b6726ba61d422798d37a52e12eaecf4b022ebbb88f01" dependencies = [ "jobserver", + "libc", ] [[package]] @@ -328,18 +329,18 @@ dependencies = [ [[package]] name = "clap" -version = "4.3.19" +version = "4.3.21" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "5fd304a20bff958a57f04c4e96a2e7594cc4490a0e809cbd48bb6437edaa452d" +checksum = "c27cdf28c0f604ba3f512b0c9a409f8de8513e4816705deb0498b627e7c3a3fd" dependencies = [ "clap_builder", ] [[package]] name = "clap_builder" -version = "4.3.19" +version = "4.3.21" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "01c6a3f08f1fe5662a35cfe393aec09c4df95f60ee93b7556505260f75eee9e1" +checksum = "08a9f1ab5e9f01a9b81f202e8562eb9a10de70abf9eaeac1be465c28b75aa4aa" dependencies = [ "anstream", "anstyle", @@ -496,6 +497,12 @@ version = "0.1.7" source = "registry+https://github.com/rust-lang/crates.io-index" checksum = "ef8ae57c4978a2acd8b869ce6b9ca1dfe817bff704c220209fdef2c0b75a01b9" +[[package]] +name = "deranged" +version = "0.3.7" +source = "registry+https://github.com/rust-lang/crates.io-index" +checksum = "7684a49fb1af197853ef7b2ee694bc1f5b4179556f1e5710e1760c5db6f5e929" + [[package]] name = "derive-new" version = "0.5.9" @@ -551,9 +558,9 @@ checksum = "5443807d6dff69373d433ab9ef5378ad8df50ca6298caf15de6e52e24aaf54d5" [[package]] name = "errno" -version = "0.3.1" +version = "0.3.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "4bcfec3a70f97c962c307b2d2c56e358cf1d00b558d74262b5f929ee8cc7e73a" +checksum = "6b30f669a7961ef1631673d2766cc92f52d64f7ef354d4fe0ddfd30ed52f0f4f" dependencies = [ "errno-dragonfly", "libc", @@ -590,9 +597,9 @@ checksum = "0ce7134b9999ecaf8bcd65542e436736ef32ddca1b3e06094cb6ec5755203b80" [[package]] name = "flate2" -version = "1.0.26" +version = "1.0.27" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "3b9429470923de8e8cbd4d2dc513535400b4b3fef0319fb5c4e1f520a7bef743" +checksum = "c6c98ee8095e9d1dcbf2fcc6d95acccb90d1c81db1e44725c6a984b1dbdfb010" dependencies = [ "crc32fast", "miniz_oxide", @@ -893,15 +900,15 @@ dependencies = [ [[package]] name = "linux-raw-sys" -version = "0.4.3" +version = "0.4.5" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "09fc20d2ca12cb9f044c93e3bd6d32d523e6e2ec3db4f7b2939cd99026ecd3f0" +checksum = "57bcfdad1b858c2db7c38303a6d2ad4dfaf5eb53dfeb0910128b2c26d6158503" [[package]] name = "log" -version = "0.4.19" +version = "0.4.20" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "b06a4cde4c0f271a446782e3eff8de789548ce57dbc8eca9292c27f4a42004b4" +checksum = "b5e6163cb8c49088c2c36f57875e58ccd8c87c7427f7fbd50ea6710b2f3f2e8f" [[package]] name = "lzma-sys" @@ -1074,9 +1081,9 @@ dependencies = [ [[package]] name = "noodles" -version = "0.46.0" +version = "0.47.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "b7375dbfcd8a0f37bc8f9ac105614bc821860ed1bc085d2b2b0b4025fd8375c6" +checksum = "81d4b0a3ab1f641a362ca7ea097fbfea625c8d0b9879c0353c44690f80fa9ae7" dependencies = [ "noodles-bam", "noodles-bgzf", @@ -1089,9 +1096,9 @@ dependencies = [ [[package]] name = "noodles-bam" -version = "0.40.0" +version = "0.41.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "719973d977642a2e7ff85770e14a9d0b3d53810caad12589369da23dc713e76d" +checksum = "e7f03049d18f83d8866800e18d4e0a22bec9cbfa8cda5ccabf05bf36dfc20a53" dependencies = [ "bit-vec", "byteorder", @@ -1122,11 +1129,11 @@ checksum = "94fbe3192fe33acacabaedd387657f39b0fc606f1996d546db0dfe14703b843a" [[package]] name = "noodles-cram" -version = "0.37.0" +version = "0.38.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "c1758a42f8b3063267f09d56116209028f2a542509dacd4da3332d20374ca9eb" +checksum = "cd05a0d0f2ab3ac3c6ec1174a7490963e3f4aa9124e3e8b73455bc0a0fff2c33" dependencies = [ - "bitflags 2.3.3", + "bitflags 2.4.0", "byteorder", "bytes", "bzip2", @@ -1175,11 +1182,11 @@ dependencies = [ [[package]] name = "noodles-sam" -version = "0.37.0" +version = "0.38.0" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "174066f6273cca871327768b20b2ce9b44bca09b020b240852b16789b324199e" +checksum = "f29592c750ccb0c109cc426b873c1ebef5ca3205af35f496e34b02bafeb19ea6" dependencies = [ - "bitflags 2.3.3", + "bitflags 2.4.0", "indexmap 2.0.0", "lexical-core", "memchr", @@ -1190,9 +1197,9 @@ dependencies = [ [[package]] name = "num-complex" -version = "0.4.3" +version = "0.4.4" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "02e0d21255c828d6f128a1e41534206671e8c3ea0c62f32291e808dc82cff17d" +checksum = "1ba157ca0885411de85d6ca030ba7e2a83a28636056c7c699b07c8b6f7383214" dependencies = [ "num-traits", ] @@ -1451,9 +1458,9 @@ dependencies = [ [[package]] name = "regex" -version = "1.9.1" +version = "1.9.3" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "b2eae68fc220f7cf2532e4494aded17545fce192d59cd996e0fe7887f4ceb575" +checksum = "81bc1d4caf89fac26a70747fe603c130093b53c773888797a6329091246d651a" dependencies = [ "aho-corasick", "memchr", @@ -1463,9 +1470,9 @@ dependencies = [ [[package]] name = "regex-automata" -version = "0.3.3" +version = "0.3.6" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "39354c10dd07468c2e73926b23bb9c2caca74c5501e38a35da70406f1d923310" +checksum = "fed1ceff11a1dddaee50c9dc8e4938bd106e9d89ae372f192311e7da498e3b69" dependencies = [ "aho-corasick", "memchr", @@ -1489,11 +1496,11 @@ dependencies = [ [[package]] name = "rustix" -version = "0.38.4" +version = "0.38.8" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "0a962918ea88d644592894bc6dc55acc6c0956488adcebbfb6e273506b7fd6e5" +checksum = "19ed4fa021d81c8392ce04db050a3da9a60299050b7ae1cf482d862b54a7218f" dependencies = [ - "bitflags 2.3.3", + "bitflags 2.4.0", "errno", "libc", "linux-raw-sys", @@ -1553,22 +1560,22 @@ dependencies = [ [[package]] name = "serde" -version = "1.0.177" +version = "1.0.183" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "63ba2516aa6bf82e0b19ca8b50019d52df58455d3cf9bdaf6315225fdd0c560a" +checksum = "32ac8da02677876d532745a130fc9d8e6edfa81a269b107c5b00829b91d8eb3c" dependencies = [ "serde_derive", ] [[package]] name = "serde_derive" -version = "1.0.177" +version = "1.0.183" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "401797fe7833d72109fedec6bfcbe67c0eed9b99772f26eb8afd261f0abc6fd3" +checksum = "aafe972d60b0b9bee71a91b92fee2d4fb3c9d7e8f6b179aa99f27203d99a4816" dependencies = [ "proc-macro2", "quote", - "syn 2.0.27", + "syn 2.0.28", ] [[package]] @@ -1694,9 +1701,9 @@ dependencies = [ [[package]] name = "syn" -version = "2.0.27" +version = "2.0.28" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "b60f673f44a8255b9c8c657daf66a596d435f2da81a555b06dc644d080ba45e0" +checksum = "04361975b3f5e348b2189d8dc55bc942f278b2d482a6a0365de5bdd62d351567" dependencies = [ "proc-macro2", "quote", @@ -1705,9 +1712,9 @@ dependencies = [ [[package]] name = "tempfile" -version = "3.7.0" +version = "3.7.1" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "5486094ee78b2e5038a6382ed7645bc084dc2ec433426ca4c3cb61e2007b8998" +checksum = "dc02fddf48964c42031a0b3fe0428320ecf3a73c401040fc0096f97794310651" dependencies = [ "cfg-if", "fastrand", @@ -1718,30 +1725,31 @@ dependencies = [ [[package]] name = "thiserror" -version = "1.0.44" +version = "1.0.45" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "611040a08a0439f8248d1990b111c95baa9c704c805fa1f62104b39655fd7f90" +checksum = "dedd246497092a89beedfe2c9f176d44c1b672ea6090edc20544ade01fbb7ea0" dependencies = [ "thiserror-impl", ] [[package]] name = "thiserror-impl" -version = "1.0.44" +version = "1.0.45" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "090198534930841fab3a5d1bb637cde49e339654e606195f8d9c76eeb081dc96" +checksum = "7d7b1fadccbbc7e19ea64708629f9d8dccd007c260d66485f20a6d41bc1cf4b3" dependencies = [ "proc-macro2", "quote", - "syn 2.0.27", + "syn 2.0.28", ] [[package]] name = "time" -version = "0.3.23" +version = "0.3.25" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "59e399c068f43a5d116fedaf73b203fa4f9c519f17e2b34f63221d3792f81446" +checksum = "b0fdd63d58b18d663fbdf70e049f00a22c8e42be082203be7f26589213cd75ea" dependencies = [ + "deranged", "itoa", "libc", "num_threads", @@ -1758,9 +1766,9 @@ checksum = "7300fbefb4dadc1af235a9cef3737cea692a9d97e1b9cbcd4ebdae6f8868e6fb" [[package]] name = "time-macros" -version = "0.2.10" +version = "0.2.11" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "96ba15a897f3c86766b757e5ac7221554c6750054d74d5b28844fce5fb36a6c4" +checksum = "eb71511c991639bb078fd5bf97757e03914361c48100d52878b8e52b46fb92cd" dependencies = [ "time-core", ] @@ -1932,7 +1940,7 @@ dependencies = [ "once_cell", "proc-macro2", "quote", - "syn 2.0.27", + "syn 2.0.28", "wasm-bindgen-shared", ] @@ -1954,7 +1962,7 @@ checksum = "54681b18a46765f095758388f2d0cf16eb8d4169b639ab575a8f5693af210c7b" dependencies = [ "proc-macro2", "quote", - "syn 2.0.27", + "syn 2.0.28", "wasm-bindgen-backend", "wasm-bindgen-shared", ] @@ -2042,17 +2050,17 @@ dependencies = [ [[package]] name = "windows-targets" -version = "0.48.1" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "05d4b17490f70499f20b9e791dcf6a299785ce8af4d709018206dc5b4953e95f" +checksum = "d1eeca1c172a285ee6c2c84c341ccea837e7c01b12fbb2d0fe3c9e550ce49ec8" dependencies = [ - "windows_aarch64_gnullvm 0.48.0", - "windows_aarch64_msvc 0.48.0", - "windows_i686_gnu 0.48.0", - "windows_i686_msvc 0.48.0", - "windows_x86_64_gnu 0.48.0", - "windows_x86_64_gnullvm 0.48.0", - "windows_x86_64_msvc 0.48.0", + "windows_aarch64_gnullvm 0.48.2", + "windows_aarch64_msvc 0.48.2", + "windows_i686_gnu 0.48.2", + "windows_i686_msvc 0.48.2", + "windows_x86_64_gnu 0.48.2", + "windows_x86_64_gnullvm 0.48.2", + "windows_x86_64_msvc 0.48.2", ] [[package]] @@ -2063,9 +2071,9 @@ checksum = "597a5118570b68bc08d8d59125332c54f1ba9d9adeedeef5b99b02ba2b0698f8" [[package]] name = "windows_aarch64_gnullvm" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "91ae572e1b79dba883e0d315474df7305d12f569b400fcf90581b06062f7e1bc" +checksum = "b10d0c968ba7f6166195e13d593af609ec2e3d24f916f081690695cf5eaffb2f" [[package]] name = "windows_aarch64_msvc" @@ -2075,9 +2083,9 @@ checksum = "e08e8864a60f06ef0d0ff4ba04124db8b0fb3be5776a5cd47641e942e58c4d43" [[package]] name = "windows_aarch64_msvc" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "b2ef27e0d7bdfcfc7b868b317c1d32c641a6fe4629c171b8928c7b08d98d7cf3" +checksum = "571d8d4e62f26d4932099a9efe89660e8bd5087775a2ab5cdd8b747b811f1058" [[package]] name = "windows_i686_gnu" @@ -2087,9 +2095,9 @@ checksum = "c61d927d8da41da96a81f029489353e68739737d3beca43145c8afec9a31a84f" [[package]] name = "windows_i686_gnu" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "622a1962a7db830d6fd0a69683c80a18fda201879f0f447f065a3b7467daa241" +checksum = "2229ad223e178db5fbbc8bd8d3835e51e566b8474bfca58d2e6150c48bb723cd" [[package]] name = "windows_i686_msvc" @@ -2099,9 +2107,9 @@ checksum = "44d840b6ec649f480a41c8d80f9c65108b92d89345dd94027bfe06ac444d1060" [[package]] name = "windows_i686_msvc" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "4542c6e364ce21bf45d69fdd2a8e455fa38d316158cfd43b3ac1c5b1b19f8e00" +checksum = "600956e2d840c194eedfc5d18f8242bc2e17c7775b6684488af3a9fff6fe3287" [[package]] name = "windows_x86_64_gnu" @@ -2111,9 +2119,9 @@ checksum = "8de912b8b8feb55c064867cf047dda097f92d51efad5b491dfb98f6bbb70cb36" [[package]] name = "windows_x86_64_gnu" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "ca2b8a661f7628cbd23440e50b05d705db3686f894fc9580820623656af974b1" +checksum = "ea99ff3f8b49fb7a8e0d305e5aec485bd068c2ba691b6e277d29eaeac945868a" [[package]] name = "windows_x86_64_gnullvm" @@ -2123,9 +2131,9 @@ checksum = "26d41b46a36d453748aedef1486d5c7a85db22e56aff34643984ea85514e94a3" [[package]] name = "windows_x86_64_gnullvm" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "7896dbc1f41e08872e9d5e8f8baa8fdd2677f29468c4e156210174edc7f7b953" +checksum = "8f1a05a1ece9a7a0d5a7ccf30ba2c33e3a61a30e042ffd247567d1de1d94120d" [[package]] name = "windows_x86_64_msvc" @@ -2135,15 +2143,15 @@ checksum = "9aec5da331524158c6d1a4ac0ab1541149c0b9505fde06423b02f5ef0106b9f0" [[package]] name = "windows_x86_64_msvc" -version = "0.48.0" +version = "0.48.2" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "1a515f5799fe4961cb532f983ce2b23082366b898e52ffbce459c86f67c8378a" +checksum = "d419259aba16b663966e29e6d7c6ecfa0bb8425818bb96f6f1f3c3eb71a6e7b9" [[package]] name = "winnow" -version = "0.5.1" +version = "0.5.10" source = "registry+https://github.com/rust-lang/crates.io-index" -checksum = "25b5872fa2e10bd067ae946f927e726d7d603eaeb6e02fa6a350e0722d2b8c11" +checksum = "5504cc7644f4b593cbc05c4a55bf9bd4e94b867c3c0bd440934174d50482427d" dependencies = [ "memchr", ] diff --git a/Cargo.toml b/Cargo.toml index 6aba116..f11ee72 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 = "0.46", features = ["bam", "bgzf", "core", "cram", "fasta", "fastq", "sam"] } +noodles = { version = "0.47", features = ["bam", "bgzf", "core", "cram", "fasta", "fastq", "sam"] } time = { version = "0.3", features = ["local-offset"] } flate2 = "1.0"