guix_mirror_bot pushed a commit to branch next-master
in repository guix.
commit 2aa7e12727085d79502c4409519af103b2a49394
Author: Nicolas Graves <[email protected]>
AuthorDate: Wed Jan 7 00:05:22 2026 +0100
gnu: python-pyspoa: Switch to pyproject.
* gnu/packages/bioinformatics.scm (python-pyspoa):
[build-system]: Switch to pyproject-build-system.
[arguments]: Improve style.
<#:phases>: Migrate phase 'check to <#:test-backend, #:test-flags>.
[native-inputs]: Add python-setuptools.
Change-Id: Ib38a5779d6b73050126c377f6b0c5d5a53ef25aa
Signed-off-by: Sharlatan Hellseher <[email protected]>
---
gnu/packages/bioinformatics.scm | 44 ++++++++++++++++++-----------------------
1 file changed, 19 insertions(+), 25 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index e1ec20e387..839dc6f18f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -24290,34 +24290,28 @@ browser.")
(uri (git-reference
(url "https://github.com/nanoporetech/pyspoa";)
(commit (string-append "v" version))
- (recursive? #true)))
+ (recursive? #t)))
(file-name (git-file-name name version))
(sha256
- (base32
- "1lgf2shzhxkcsircd6vy46h27pjljd5q95fyz1cm3lkk702qbnzx"))))
- (build-system python-build-system)
+ (base32 "1lgf2shzhxkcsircd6vy46h27pjljd5q95fyz1cm3lkk702qbnzx"))))
+ (build-system pyproject-build-system)
(arguments
- `(#:phases
- (modify-phases %standard-phases
- (add-before 'build 'build-libspoa
- (lambda _
- (mkdir-p "src/build")
- (with-directory-excursion "src/build"
- (invoke "cmake"
- "-Dspoa_optimize_for_portability=ON"
- "-DCMAKE_BUILD_TYPE=Release"
- "-DCMAKE_CXX_FLAGS=\"-I ../vendor/cereal/include/\"
-fPIC"
- "..")
- (invoke "make"))))
- (replace 'check
- (lambda* (#:key inputs outputs tests? #:allow-other-keys)
- (when tests?
- (add-installed-pythonpath inputs outputs)
- (invoke "python" "tests/test_pyspoa.py")))))))
- (propagated-inputs
- (list pybind11))
- (native-inputs
- `(("cmake" ,cmake-minimal)))
+ (list
+ #:test-backend #~'custom
+ #:test-flags #~(list "tests/test_pyspoa.py")
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-before 'build 'build-libspoa
+ (lambda _
+ (mkdir-p "src/build")
+ (with-directory-excursion "src/build"
+ (invoke "cmake" "-Dspoa_optimize_for_portability=ON"
+ "-DCMAKE_BUILD_TYPE=Release"
+ "-DCMAKE_CXX_FLAGS=\"-I ../vendor/cereal/include/\" -fPIC"
+ "..")
+ (invoke "make")))))))
+ (propagated-inputs (list pybind11))
+ (native-inputs (list cmake-minimal python-setuptools))
(home-page "https://github.com/nanoporetech/pyspoa";)
(synopsis "Python bindings for the SIMD partial order alignment library")
(description
