From a6a7e5b085ba67059cd94178235fed38f90fde20 Mon Sep 17 00:00:00 2001 From: Chris Macklin Date: Mon, 22 Apr 2024 21:44:23 -0700 Subject: [PATCH] Update enclone_ranger. --- Cargo.lock | 59 +++++++++++++++++++++++++++--------------------------- 1 file changed, 29 insertions(+), 30 deletions(-) diff --git a/Cargo.lock b/Cargo.lock index f882e6982..f0e7823b3 100644 --- a/Cargo.lock +++ b/Cargo.lock @@ -35,7 +35,7 @@ dependencies = [ [[package]] name = "align_tools" version = "0.1.12" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "bio_edit", "debruijn", @@ -47,7 +47,7 @@ dependencies = [ [[package]] name = "amino" version = "0.1.7" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "debruijn", "string_utils", @@ -56,7 +56,7 @@ dependencies = [ [[package]] name = "ansi_escape" version = "0.1.3" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "string_utils", "vector_utils", @@ -247,7 +247,7 @@ dependencies = [ [[package]] name = "bio_edit" version = "0.1.1" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "bio-types", "bit-set", @@ -623,7 +623,7 @@ dependencies = [ [[package]] name = "dna" version = "0.1.3" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" [[package]] name = "doc-comment" @@ -646,7 +646,7 @@ checksum = "e78d4f1cc4ae33bbfc157ed5d5a5ef3bc29227303d595861deb238fcec4e9457" [[package]] name = "enclone" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "amino", "ansi_escape", @@ -670,7 +670,7 @@ dependencies = [ [[package]] name = "enclone_args" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "debruijn", "enclone_core", @@ -706,12 +706,11 @@ dependencies = [ [[package]] name = "enclone_core" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "amino", "ansi_escape", "anyhow", - "attohttpc 0.22.0", "bio_edit", "debruijn", "enclone_proto", @@ -852,7 +851,7 @@ dependencies = [ [[package]] name = "enclone_process" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "amino", "ansi_escape", @@ -884,7 +883,7 @@ dependencies = [ [[package]] name = "enclone_proto" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "bio_edit", "byteorder", @@ -897,7 +896,7 @@ dependencies = [ [[package]] name = "enclone_ranger" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "anyhow", "enclone", @@ -914,7 +913,7 @@ dependencies = [ [[package]] name = "enclone_stuff" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "amino", "debruijn", @@ -1028,7 +1027,7 @@ dependencies = [ [[package]] name = "enclone_vars" version = "0.5.219" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "io_utils", "itertools", @@ -1067,7 +1066,7 @@ dependencies = [ [[package]] name = "equiv" version = "0.1.3" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" [[package]] name = "errno" @@ -1109,7 +1108,7 @@ checksum = "1d4fd7bd9e32c1205549decf6f36772d7b606a579b26afaffa335ae148151a5d" [[package]] name = "exons" version = "0.1.5" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "io_utils", "string_utils", @@ -1119,7 +1118,7 @@ dependencies = [ [[package]] name = "expr_tools" version = "0.1.3" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "evalexpr", "statrs", @@ -1130,7 +1129,7 @@ dependencies = [ [[package]] name = "fasta_tools" version = "0.1.8" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "debruijn", "flate2", @@ -1294,7 +1293,7 @@ checksum = "6fb8d784f27acf97159b40fc4db5ecd8aa23b9ad5ef69cdd136d3bc80665f0c0" [[package]] name = "graph_simple" version = "0.1.5" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "petgraph", "vector_utils", @@ -1339,7 +1338,7 @@ name = "hdf5-sys" version = "0.8.1" source = "git+https://github.com/10XGenomics/hdf5-rust.git?branch=conda_nov2021#2d4a40b7ef75de530bc53fd2eb0fe75047e083ad" dependencies = [ - "attohttpc 0.18.0", + "attohttpc 0.22.0", "bzip2", "libc", "libloading", @@ -1401,7 +1400,7 @@ dependencies = [ [[package]] name = "hyperbase" version = "0.1.8" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "debruijn", "equiv", @@ -1435,7 +1434,7 @@ dependencies = [ [[package]] name = "io_utils" version = "0.3.2" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "bincode", "flate2", @@ -1501,7 +1500,7 @@ dependencies = [ [[package]] name = "kmer_lookup" version = "0.1.5" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "debruijn", "rayon", @@ -2554,12 +2553,12 @@ dependencies = [ [[package]] name = "stats_utils" version = "0.1.3" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" [[package]] name = "string_utils" version = "0.1.4" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "vector_utils", ] @@ -2623,7 +2622,7 @@ dependencies = [ [[package]] name = "tables" version = "0.1.5" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "io_utils", "itertools", @@ -2913,7 +2912,7 @@ dependencies = [ [[package]] name = "vdj_ann" version = "0.4.4" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "align_tools", "amino", @@ -2935,7 +2934,7 @@ dependencies = [ [[package]] name = "vdj_ann_ref" version = "0.2.1" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "debruijn", "exons", @@ -2951,7 +2950,7 @@ dependencies = [ [[package]] name = "vdj_types" version = "0.2.0" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "serde", ] @@ -2968,7 +2967,7 @@ dependencies = [ [[package]] name = "vector_utils" version = "0.1.5" -source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#8d956f9244712c4895354877a285e615180be9ec" +source = "git+https://github.com/10XGenomics/enclone_ranger?branch=macklin/clean-up-cli-arg-handling#1f4f0d7a6a0ce67190e64f8dd63146cb8c87cd2a" dependencies = [ "permutation", "superslice",