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gnu: jellyfish: Update to 2.3.0.
* gnu/packages/bioinformatics.scm (jellyfish): Update to 2.3.0. [arguments]: Disable SSE to avoid tuning to the build node's CPU. [native-inputs]: Replace python-2 with python-wrapper. [license]: Update.
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1 changed files with 8 additions and 9 deletions
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@ -4715,7 +4715,7 @@ (define-public idr
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(define-public jellyfish
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(package
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(name "jellyfish")
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(version "2.2.10")
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(version "2.3.0")
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(source (origin
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(method url-fetch)
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(uri (string-append "https://github.com/gmarcais/Jellyfish/"
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@ -4723,14 +4723,15 @@ (define-public jellyfish
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"/jellyfish-" version ".tar.gz"))
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(sha256
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(base32
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"1k4pc3fvv6w1km2yph4m5sd78fbxp21d6xyzgmy0gjihzc6mb249"))))
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"0npa62wzasdibas5zp3n8j3armsci4kyvh0jw7jr0am4gg7vg5g1"))))
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(build-system gnu-build-system)
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(outputs '("out" ;for library
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"ruby" ;for Ruby bindings
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"python")) ;for Python bindings
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(arguments
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`(#:configure-flags
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(list (string-append "--enable-ruby-binding="
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(list "--without-sse" ; configure script probes for CPU features when SSE is enabled.
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(string-append "--enable-ruby-binding="
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(assoc-ref %outputs "ruby"))
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(string-append "--enable-python-binding="
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(assoc-ref %outputs "python")))
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@ -4740,13 +4741,12 @@ (define-public jellyfish
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(lambda _
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;; generator_manager.hpp either uses /bin/sh or $SHELL
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;; to run tests.
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(setenv "SHELL" (which "bash"))
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#t)))))
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(setenv "SHELL" (which "bash")))))))
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(native-inputs
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`(("bc" ,bc)
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("time" ,time)
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("ruby" ,ruby)
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("python" ,python-2)
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("python" ,python-wrapper)
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("pkg-config" ,pkg-config)))
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(inputs
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`(("htslib" ,htslib)))
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@ -4762,9 +4762,8 @@ (define-public jellyfish
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(home-page "http://www.genome.umd.edu/jellyfish.html")
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;; JELLYFISH seems to be 64-bit only.
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(supported-systems '("x86_64-linux" "aarch64-linux" "mips64el-linux"))
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;; The combined work is published under the GPLv3 or later. Individual
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;; files such as lib/jsoncpp.cpp are released under the Expat license.
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(license (list license:gpl3+ license:expat))))
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;; One of these licenses may be picked
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(license (list license:gpl3+ license:bsd-3))))
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(define-public khmer
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(package
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