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Update FASTX to v2

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This commit is contained in:
Thomas A. Christensen II 2022-11-19 15:39:05 -06:00
parent a3cbfcaaee
commit d41c34b7b1
Signed by: millironx
GPG key ID: 139C07724802BC5D
3 changed files with 9 additions and 17 deletions
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23
Manifest.toml
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@ -599,10 +599,10 @@ uuid = "8f5d6c58-4d21-5cfd-889c-e3ad7ee6a615"
version = "1.1.0" version = "1.1.0"
[[FASTX]] [[FASTX]]
deps = ["Automa", "BioGenerics", "BioSequences", "BioSymbols", "TranscodingStreams"] deps = ["Automa", "BioGenerics", "BioSequences", "ScanByte", "StringViews", "TranscodingStreams"]
git-tree-sha1 = "2f080a912d3b82b6a5a22f90843be63a753a9e1d" git-tree-sha1 = "9c72011edd523a83bf00276c4697a3019cea2257"
uuid = "c2308a5c-f048-11e8-3e8a-31650f418d12" uuid = "c2308a5c-f048-11e8-3e8a-31650f418d12"
version = "1.3.0" version = "2.0.0"
[[FFMPEG]] [[FFMPEG]]
deps = ["FFMPEG_jll"] deps = ["FFMPEG_jll"]
@ -741,12 +741,6 @@ version = "0.5.0"
deps = ["Random"] deps = ["Random"]
uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820"
[[GFF3]]
deps = ["Automa", "BGZFStreams", "BioGenerics", "FASTX", "GenomicFeatures", "Indexes", "TranscodingStreams", "URIParser"]
git-tree-sha1 = "c88fbcfe5b9ee631531c4312c3604d5dcd9c1040"
uuid = "af1dc308-cb6b-11e8-32f0-31192efa90f6"
version = "0.2.2"
[[GLFW_jll]] [[GLFW_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libglvnd_jll", "Pkg", "Xorg_libXcursor_jll", "Xorg_libXi_jll", "Xorg_libXinerama_jll", "Xorg_libXrandr_jll"] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libglvnd_jll", "Pkg", "Xorg_libXcursor_jll", "Xorg_libXi_jll", "Xorg_libXinerama_jll", "Xorg_libXrandr_jll"]
git-tree-sha1 = "d972031d28c8c8d9d7b41a536ad7bb0c2579caca" git-tree-sha1 = "d972031d28c8c8d9d7b41a536ad7bb0c2579caca"
@ -2273,6 +2267,11 @@ git-tree-sha1 = "46da2434b41f41ac3594ee9816ce5541c6096123"
uuid = "892a3eda-7b42-436c-8928-eab12a02cf0e" uuid = "892a3eda-7b42-436c-8928-eab12a02cf0e"
version = "0.3.0" version = "0.3.0"
[[StringViews]]
git-tree-sha1 = "609585ed628a4cd46f4c142762be37f5ced5dc7d"
uuid = "354b36f9-a18e-4713-926e-db85100087ba"
version = "1.0.3"
[[StructArrays]] [[StructArrays]]
deps = ["Adapt", "DataAPI", "StaticArraysCore", "Tables"] deps = ["Adapt", "DataAPI", "StaticArraysCore", "Tables"]
git-tree-sha1 = "13237798b407150a6d2e2bce5d793d7d9576e99e" git-tree-sha1 = "13237798b407150a6d2e2bce5d793d7d9576e99e"
@ -2428,12 +2427,6 @@ git-tree-sha1 = "7282148766513eac708b96abdb7ab5bc555ed9c3"
uuid = "75842c30-9b2d-11e9-3f58-f17fe2b89951" uuid = "75842c30-9b2d-11e9-3f58-f17fe2b89951"
version = "0.2.0" version = "0.2.0"
[[URIParser]]
deps = ["Unicode"]
git-tree-sha1 = "53a9f49546b8d2dd2e688d216421d050c9a31d0d"
uuid = "30578b45-9adc-5946-b283-645ec420af67"
version = "0.4.1"
[[URIs]] [[URIs]]
git-tree-sha1 = "e59ecc5a41b000fa94423a578d29290c7266fc10" git-tree-sha1 = "e59ecc5a41b000fa94423a578d29290c7266fc10"
uuid = "5c2747f8-b7ea-4ff2-ba2e-563bfd36b1d4" uuid = "5c2747f8-b7ea-4ff2-ba2e-563bfd36b1d4"

1
Project.toml
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@ -30,7 +30,6 @@ Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
EzXML = "8f5d6c58-4d21-5cfd-889c-e3ad7ee6a615" EzXML = "8f5d6c58-4d21-5cfd-889c-e3ad7ee6a615"
FASTX = "c2308a5c-f048-11e8-3e8a-31650f418d12" FASTX = "c2308a5c-f048-11e8-3e8a-31650f418d12"
Formatting = "59287772-0a20-5a39-b81b-1366585eb4c0" Formatting = "59287772-0a20-5a39-b81b-1366585eb4c0"
GFF3 = "af1dc308-cb6b-11e8-32f0-31192efa90f6"
GLM = "38e38edf-8417-5370-95a0-9cbb8c7f171a" GLM = "38e38edf-8417-5370-95a0-9cbb8c7f171a"
GenomicAnnotations = "4f8a0a0a-376d-5ac0-ab14-e88793df67f0" GenomicAnnotations = "4f8a0a0a-376d-5ac0-ab14-e88793df67f0"
GenomicFeatures = "899a7d2d-5c61-547b-bef9-6698a8d05446" GenomicFeatures = "899a7d2d-5c61-547b-bef9-6698a8d05446"

2
README.md
View file

@ -68,7 +68,7 @@ plus
- [x] [FASTX](https://github.com/BioJulia/FASTX.jl) - [x] [FASTX](https://github.com/BioJulia/FASTX.jl)
- [x] [GenomicAnnotations](https://github.com/BioJulia/GenomicAnnotations.jl) - [x] [GenomicAnnotations](https://github.com/BioJulia/GenomicAnnotations.jl)
- [x] [GenomicFeatures](https://github.com/BioJulia/GenomicFeatures.jl) - [x] [GenomicFeatures](https://github.com/BioJulia/GenomicFeatures.jl)
- [x] [GFF3](https://github.com/BioJulia/GFF3.jl) - ~~[ ] [GFF3](https://github.com/BioJulia/GFF3.jl)~~ (Dependency mismatch with FASTX)
- [x] [MMTF](https://github.com/BioJulia/MMTF.jl) - [x] [MMTF](https://github.com/BioJulia/MMTF.jl)
- [x] [TwoBit](https://github.com/BioJulia/TwoBit.jl) - [x] [TwoBit](https://github.com/BioJulia/TwoBit.jl)
- [x] [VariantCallFormat](https://github.com/rasmushenningsson/VariantCallFormat.jl) - [x] [VariantCallFormat](https://github.com/rasmushenningsson/VariantCallFormat.jl)