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Merge remote-tracking branch 'origin/go-team'
Change-Id: I3672a7dc248a41b1a83e4c488523f62cf1806710
This commit is contained in:
Sharlatan Hellseher
commit
75437dbb76
45 changed files with 16348 additions and 7310 deletions
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@ -24460,9 +24460,9 @@ for nanopore cDNA, native RNA, and PacBio sequencing reads.")
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functions.")
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(license license:bsd-3)))
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(define-public go-github-com-biogo-store-interval
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(define-public go-github-com-biogo-store
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(package
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(name "go-github-com-biogo-store-interval")
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(name "go-github-com-biogo-store")
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(version "0.0.0-20201120204734-aad293a2328f")
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(source (origin
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(method git-fetch)
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@ -24475,8 +24475,9 @@ functions.")
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"0skizrp1j6vgbl0g1kmh73picagqlvwckaqs0gkl6rai5lckxj8a"))))
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(build-system go-build-system)
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(arguments
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'(#:import-path "github.com/biogo/store/interval"
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#:unpack-path "github.com/biogo/store"))
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(list
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#:skip-build? #t
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#:import-path "github.com/biogo/store"))
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(propagated-inputs
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(list go-gopkg-in-check-v1
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go-github-com-kr-pretty))
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@ -24487,45 +24488,9 @@ functions.")
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useful for bioinformatic analysis.")
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(license license:bsd-3)))
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(define-public go-github-com-biogo-store-kdtree
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(define-public go-github-com-biogo-hts
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(package
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(inherit go-github-com-biogo-store-interval)
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(name "go-github-com-biogo-store-kdtree")
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(arguments
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'(#:import-path "github.com/biogo/store/kdtree"
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#:unpack-path "github.com/biogo/store"))
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(propagated-inputs
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(list go-gopkg-in-check-v1
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go-github-com-kr-pretty))
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(synopsis "kdtree store type for biogo")))
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(define-public go-github-com-biogo-store-llrb
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(package
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(inherit go-github-com-biogo-store-interval)
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(name "go-github-com-biogo-store-llrb")
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(arguments
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'(#:import-path "github.com/biogo/store/llrb"
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#:unpack-path "github.com/biogo/store"))
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(propagated-inputs
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(list go-gopkg-in-check-v1
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go-github-com-kr-pretty))
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(synopsis "LLRB store for biogo")))
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(define-public go-github-com-biogo-store-step
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(package
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(inherit go-github-com-biogo-store-interval)
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(name "go-github-com-biogo-store-step")
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(arguments
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'(#:import-path "github.com/biogo/store/step"
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#:unpack-path "github.com/biogo/store"))
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(propagated-inputs
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(list go-gopkg-in-check-v1
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go-github-com-kr-pretty))
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(synopsis "Step store for biogo")))
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(define-public go-github-com-biogo-hts-bam
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(package
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(name "go-github-com-biogo-hts-bam")
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(name "go-github-com-biogo-hts")
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(version "1.4.4")
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(source (origin
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(method git-fetch)
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@ -24538,91 +24503,22 @@ useful for bioinformatic analysis.")
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"1vkcqxyajghx5p5j7g2i376nbsxh8q2smk0smlv8mi34yr7hlw5b"))))
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(build-system go-build-system)
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(arguments
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'(#:import-path "github.com/biogo/hts/bam"
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#:unpack-path "github.com/biogo/hts"))
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(propagated-inputs
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(list
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#:skip-build? #t
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#:import-path "github.com/biogo/hts"
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;; Tests try to get samples from <https://github.com/samtools/htslib>.
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#:test-flags #~(list "-skip" "TestHasEOF|TestRead")))
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(native-inputs
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(list go-gopkg-in-check-v1))
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(home-page "https://github.com/biogo/hts")
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(synopsis "HTS BAM module for biogo")
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(description "This package provides tools for handling BAM files.")
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(license license:bsd-3)))
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(define-public go-github-com-biogo-hts-sam
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(package
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(inherit go-github-com-biogo-hts-bam)
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(name "go-github-com-biogo-hts-sam")
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(arguments
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'(#:import-path "github.com/biogo/hts/sam"
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#:unpack-path "github.com/biogo/hts"))
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(propagated-inputs
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(list go-gopkg-in-check-v1))
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(synopsis "HTS SAM module for biogo")
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(description "This package provides tools for handling SAM files.")))
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(define-public go-github-com-biogo-hts-tabix
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(package
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(inherit go-github-com-biogo-hts-bam)
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(name "go-github-com-biogo-hts-tabix")
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(arguments
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'(#:import-path "github.com/biogo/hts/tabix"
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#:unpack-path "github.com/biogo/hts"))
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(propagated-inputs
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(list go-gopkg-in-check-v1))
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(synopsis "HTS Tabix module for biogo")
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(description "This package provides tools for handling Tabix files.")))
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(define-public go-github-com-biogo-hts-bgzf
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(package
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(inherit go-github-com-biogo-hts-bam)
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(name "go-github-com-biogo-hts-bgzf")
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(arguments
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'(#:import-path "github.com/biogo/hts/bgzf"
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#:unpack-path "github.com/biogo/hts"))
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(propagated-inputs
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(list go-gopkg-in-check-v1))
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(synopsis "HTS bgzf module for biogo")
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(description "This package provides tools for handling bgzf files.")))
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(define-public go-github-com-biogo-hts-cram
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(package
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(inherit go-github-com-biogo-hts-bam)
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(name "go-github-com-biogo-hts-cram")
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(arguments
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'(#:import-path "github.com/biogo/hts/cram"
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#:unpack-path "github.com/biogo/hts"
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#:tests? #false)) ;require network access
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(propagated-inputs
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(list go-gopkg-in-check-v1
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go-github-com-ulikunitz-xz
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(list go-github-com-ulikunitz-xz
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go-github-com-kortschak-utter))
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(synopsis "HTS CRAM module for biogo")
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(description "This package provides tools for handling CRAM files.")))
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(define-public go-github-com-biogo-hts-csi
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(package
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(inherit go-github-com-biogo-hts-bam)
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(name "go-github-com-biogo-hts-csi")
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(arguments
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'(#:import-path "github.com/biogo/hts/csi"
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#:unpack-path "github.com/biogo/hts"))
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(propagated-inputs
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(list go-gopkg-in-check-v1))
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(synopsis "Coordinate sorted indexing for biogo")
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(description "This package implements CSIv1 and CSIv2 coordinate sorted
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indexing.")))
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(define-public go-github-com-biogo-hts-fai
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(package
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(inherit go-github-com-biogo-hts-bam)
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(name "go-github-com-biogo-hts-fai")
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(arguments
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'(#:import-path "github.com/biogo/hts/fai"
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#:unpack-path "github.com/biogo/hts"))
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(propagated-inputs
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(list go-gopkg-in-check-v1))
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(synopsis "Fasta sequence file index handling for biogo")
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(description "This package implements FAI fasta sequence file index
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handling.")))
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(home-page "https://github.com/biogo/hts")
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(synopsis "HTS module for biogo")
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(description
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"This package provides tools for handling BAM, SAM, Tabix, bgzf, CRAM,
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CSIv1, CSIv2 and FAI files.")
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(license license:bsd-3)))
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(define-public go-github-com-biogo-biogo
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(package
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@ -24642,11 +24538,8 @@ handling.")))
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'(#:import-path "github.com/biogo/biogo"))
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(propagated-inputs
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(list go-gopkg-in-check-v1
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go-github-com-biogo-store-interval
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go-github-com-biogo-store-kdtree
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go-github-com-biogo-store-llrb
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go-github-com-biogo-store-step
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go-github-com-biogo-hts-bam
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go-github-com-biogo-store
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go-github-com-biogo-hts
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go-github-com-biogo-graph))
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(home-page "https://github.com/biogo/biogo")
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(synopsis "Bioinformatics library for Go")
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