From 14ab247eceb63ae48c97a778fbaf4842b06c595f Mon Sep 17 00:00:00 2001 From: Hugo Buddelmeijer Date: Wed, 17 Dec 2025 21:29:47 +0100 Subject: [PATCH] gnu: python-mappy: Switch to pyproject. * gnu/packages/bioinformatics.scm (python-mappy): [source]: Switch to git-fetch. [build-system]: Switch to pyproject-build-system. [arguments]<#test-backend, #test-flags>: Replace check phase with example (no tests). [native-inputs]: Add python-setuptools. Change-Id: I9561de7e0ee94dbd1134c23c608d262169407456 Modified-by: Sharlatan Hellseher Signed-off-by: Sharlatan Hellseher --- gnu/packages/bioinformatics.scm | 27 +++++++++++++++++++-------- 1 file changed, 19 insertions(+), 8 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 0fca39a8e62..5b31e175eec 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -18689,15 +18689,26 @@ cases include: (package (name "python-mappy") (version "2.24") - (source (origin - (method url-fetch) - (uri (pypi-uri "mappy" version)) - (sha256 - (base32 - "1ycszza87p9qvx8mis9v1hry0ac465x1xcxbsn1k45qlxxrzp8im")))) - (build-system python-build-system) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/lh3/minimap2") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0k658659ivxk2xnyawrfqdhcji6a3xcqdr5a9r5myzb2ivypnjmh")))) + (build-system pyproject-build-system) + (arguments + (list + #:test-backend #~'custom + #:test-flags + #~(list "-c" (string-append "import mappy;" + " print(mappy.revcomp(" + "mappy.Aligner('test/MT-human.fa')" + ".seq('MT_human', 100, 200)))")))) (native-inputs - (list python-cython)) + (list python-cython python-setuptools)) (inputs (list zlib)) (home-page "https://github.com/lh3/minimap2")