From: zimoun <zimon.toutoune@gmail.com>
To: 53017@debbugs.gnu.org
Cc: efraim@flashner.co.il, zimoun <zimon.toutoune@gmail.com>
Subject: [bug#53017] [PATCH 17/17] gnu: Add julia-bioalignments.
Date: Tue, 4 Jan 2022 23:47:55 +0100 [thread overview]
Message-ID: <20220104224755.1142897-17-zimon.toutoune@gmail.com> (raw)
In-Reply-To: <20220104224755.1142897-1-zimon.toutoune@gmail.com>
* gnu/packages/julia-xyz.scm (julia-bioalignments): New variable.
---
gnu/packages/julia-xyz.scm | 35 +++++++++++++++++++++++++++++++++++
1 file changed, 35 insertions(+)
diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index 2e726aed23..b7a4224694 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -361,6 +361,41 @@ (define-public julia-benchmarktools
benchmarks as well as comparing benchmark results.")
(license license:expat)))
+(define-public julia-bioalignments
+ (package
+ (name "julia-bioalignments")
+ (version "2.0.0")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/BioJulia/BioAlignments.jl")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "1wf6qgsada59r2fykxfj9hcr635wl8maqxbd3w8qpa01k9glxa0k"))))
+ (build-system julia-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'skip-test
+ (lambda _
+ ;; Test fails because an unexpected type representation from
+ ;; BioSequences. The aligned value is correct though.
+ (substitute* "test/runtests.jl"
+ (("@test sprint\\(show, aln\\)")
+ "@test_broken sprint(show, aln)")))))))
+ (propagated-inputs
+ (list julia-biogenerics
+ julia-biosequences
+ julia-biosymbols
+ julia-intervaltrees))
+ (home-page "https://github.com/BioJulia/BioAlignments.jl")
+ (synopsis "Sequence alignement algorithm and data structures")
+ (description "This package provides alignement algorithms and data
+structures for sequence of DNA, RNA, and amino acid sequences.")
+ (license license:expat)))
+
(define-public julia-biogenerics
;; No upstream release
(let ((commit "a75abaf459250e2b5e22b4d9adf25fd36d2acab6")
--
2.33.1
next prev parent reply other threads:[~2022-01-04 22:49 UTC|newest]
Thread overview: 19+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-01-04 22:45 [bug#53017] [PATCH 00/17] Add julia-biosequences and julia-bioalignments zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 01/17] gnu: julia-xyz: Adjust style zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 02/17] build: julia-build-system: Create 'Project.toml' file when missing zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 03/17] gnu: julia-zygote: Adjust style zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 04/17] gnu: julia-documentertools: " zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 05/17] gnu: julia-documenter: " zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 06/17] gnu: Add julia-biogenerics zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 07/17] gnu: Add julia-indexablebitvectors zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 08/17] gnu: Add julia-twiddle zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 09/17] gnu: Add julia-simd zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 10/17] gnu: Add julia-scanbyte zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 11/17] gnu: Add julia-automa zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 12/17] gnu: Add julia-stringencodings zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 13/17] gnu: Add julia-yaml zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 14/17] gnu: Add julia-biosymbols zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 15/17] gnu: Add julia-biosequences zimoun
2022-01-04 22:47 ` [bug#53017] [PATCH 16/17] gnu: Add julia-intervaltrees zimoun
2022-01-04 22:47 ` zimoun [this message]
2022-01-10 13:20 ` bug#53017: [PATCH 01/17] gnu: julia-xyz: Adjust style Efraim Flashner
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