gnu: python-hicmatrix: Update to 15.

* gnu/packages/bioinformatics.scm (python-hicmatrix): Update to 15.
[arguments]: Enabled tests. Remove 'relax-requirements phase.
[native-inputs]: Add python-pytest.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
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Mădălin Ionel Patrașcu 2021-06-07 13:53:28 +02:00 committed by Ricardo Wurmus
parent c03da7edb0
commit dd3698c1ac
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@ -11822,29 +11822,26 @@ (define-public python-cooler
(define-public python-hicmatrix
(package
(name "python-hicmatrix")
(version "12")
(source
(origin
;; Version 12 is not available on pypi.
(method git-fetch)
(uri (git-reference
(url "https://github.com/deeptools/HiCMatrix")
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32
"1xhdyx16f3brgxgxybixdi64ki8nbbkq5vk4h9ahi11pzpjfn1pj"))))
(version "15")
(source
(origin
;;Pypi sources do not contain any test
(method git-fetch)
(uri (git-reference
(url "https://github.com/deeptools/HiCMatrix")
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32
"1dshjxgb16sdfg9k1bhw2yhyngac04k4ca7aqy8g3i3pprr068r5"))))
(build-system python-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'relax-requirements
(lambda _
(substitute* '("requirements.txt"
"setup.py")
(("cooler *=+ *0.8.5")
"cooler==0.8.*"))
#t)))))
(replace 'check
(lambda* (#:key tests? #:allow-other-keys)
(when tests?
(invoke "python" "-m" "pytest" "-v")))))))
(propagated-inputs
`(("python-cooler" ,python-cooler)
("python-intervaltree" ,python-intervaltree)
@ -11852,6 +11849,8 @@ (define-public python-hicmatrix
("python-pandas" ,python-pandas)
("python-scipy" ,python-scipy)
("python-tables" ,python-tables)))
(native-inputs
`(("python-pytest" ,python-pytest)))
(home-page "https://github.com/deeptools/HiCMatrix/")
(synopsis "HiCMatrix class for HiCExplorer and pyGenomeTracks")
(description