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From: Marius Bakke <marius@gnu.org>
To: 58587@debbugs.gnu.org
Subject: [bug#58587] [PATCH 06/14] gnu: flair: Switch to pyproject-build-system.
Date: Mon, 17 Oct 2022 22:11:53 +0200	[thread overview]
Message-ID: <20221017201201.4808-6-marius@gnu.org> (raw)
In-Reply-To: <20221017201201.4808-1-marius@gnu.org>

* gnu/packages/bioinformatics.scm (flair)[build-system]: Switch to
PYPROJECT-BUILD-SYSTEM.
[arguments]: Remove #:phases.
[native-inputs]: Remove.
---
 gnu/packages/bioinformatics.scm | 23 +++--------------------
 1 file changed, 3 insertions(+), 20 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index f2de09aa32..3588f4e3fd 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -56,6 +56,7 @@ (define-module (gnu packages bioinformatics)
   #:use-module (guix build-system meson)
   #:use-module (guix build-system ocaml)
   #:use-module (guix build-system perl)
+  #:use-module (guix build-system pyproject)
   #:use-module (guix build-system python)
   #:use-module (guix build-system qt)
   #:use-module (guix build-system r)
@@ -16928,33 +16929,15 @@ (define-public flair
        (sha256
         (base32
          "106swb2q7l20ki58fca1hg95q5f79bgp9gjb0clr2243ycrzyxf8"))))
-    (build-system python-build-system)
+    (build-system pyproject-build-system)
     (arguments
-     (list
-      #:tests? #false ;there are none
-      #:phases
-      #~(modify-phases %standard-phases
-          ;; TODO: implement as a feature of python-build-system (PEP-621,
-          ;; PEP-631, PEP-660)
-          (replace 'build
-            (lambda _
-              (setenv "SETUPTOOLS_SCM_PRETEND_VERSION" #$version)
-              ;; ZIP does not support timestamps before 1980.
-              (setenv "SOURCE_DATE_EPOCH" "315532800")
-              (invoke "python" "-m" "build" "--wheel" "--no-isolation" ".")))
-          (replace 'install
-            (lambda _
-              (apply invoke "pip" "--no-cache-dir" "--no-input"
-                     "install" "--no-deps" "--prefix" #$output
-                     (find-files "dist" "\\.whl$")))))))
+     (list #:tests? #false)) ;there are none
     (propagated-inputs
      (list python-mappy
            python-ncls
            python-pybedtools
            python-pysam
            python-tqdm))
-    (native-inputs
-     (list python-pypa-build python-setuptools))
     (home-page "https://flair.readthedocs.io/en/latest/")
     (synopsis "Full-length alternative isoform analysis of RNA")
     (description "This package implements FLAIR (Full-Length Alternative
-- 
2.38.0





  parent reply	other threads:[~2022-10-17 20:13 UTC|newest]

Thread overview: 65+ messages / expand[flat|nested]  mbox.gz  Atom feed  top
2022-10-17 20:06 [bug#58587] [PATCH 00/14] Introducing pyproject-build-system Marius Bakke
2022-10-17 20:11 ` [bug#58587] [PATCH 01/14] gnu: python-setuptools: Move to python-build Marius Bakke
2022-10-17 20:11   ` [bug#58587] [PATCH 02/14] gnu: pypy: Move to separate module Marius Bakke
2022-10-27 13:28     ` Maxim Cournoyer
2022-10-17 20:11   ` [bug#58587] [PATCH 03/14] gnu: python-pip: Move to (gnu packages python-build) Marius Bakke
2022-10-27 13:29     ` Maxim Cournoyer
2022-10-17 20:11   ` [bug#58587] [PATCH 04/14] build-system: Add pyproject-build-system Marius Bakke
2022-10-27 14:23     ` Maxim Cournoyer
2022-10-27 15:17       ` Lars-Dominik Braun
2022-10-27 17:12         ` Maxim Cournoyer
2022-10-27 17:23       ` Marius Bakke
2022-10-27 19:32         ` bug#58587: " Marius Bakke
2022-10-28  1:12           ` [bug#58587] " Maxim Cournoyer
2022-10-17 20:11   ` [bug#58587] [PATCH 05/14] gnu: python-autopage: Use pyproject-build-system Marius Bakke
2022-10-27 14:24     ` Maxim Cournoyer
2022-10-17 20:11   ` Marius Bakke [this message]
2022-10-17 20:11   ` [bug#58587] [PATCH 07/14] gnu: python-pydyf: " Marius Bakke
2022-10-17 20:11   ` [bug#58587] [PATCH 08/14] gnu: weasyprint: " Marius Bakke
2022-10-17 20:11   ` [bug#58587] [PATCH 09/14] gnu: python-glyphslib: " Marius Bakke
2022-10-17 20:11   ` [bug#58587] [PATCH 10/14] gnu: python-statmake: " Marius Bakke
2022-10-17 20:11   ` [bug#58587] [PATCH 11/14] gnu: python-ufolib2: " Marius Bakke
2022-10-17 20:11   ` [bug#58587] [PATCH 12/14] gnu: python-mypy-protobuf: Switch to pyproject-build-system Marius Bakke
2022-10-17 20:12   ` [bug#58587] [PATCH 13/14] gnu: python-tempora: " Marius Bakke
2022-10-17 20:12   ` [bug#58587] [PATCH 14/14] gnu: python-pygmsh: Use pyproject-build-system Marius Bakke
2022-10-27 14:26     ` Maxim Cournoyer
2022-10-27 13:25   ` [bug#58587] [PATCH 01/14] gnu: python-setuptools: Move to python-build Maxim Cournoyer
2022-10-27 14:08     ` Marius Bakke
2022-10-27 17:34       ` Maxim Cournoyer
2022-10-18  9:33 ` [bug#58587] [PATCH 00/14] Introducing pyproject-build-system zimoun
2022-10-18 21:51   ` Marius Bakke
2022-10-19  9:49     ` zimoun
2022-10-19 23:11       ` Marius Bakke
2022-10-19 23:17         ` Marius Bakke
2022-10-20  8:08         ` zimoun
2022-10-22 19:06           ` Marius Bakke
2022-10-22 19:09             ` [bug#58587] [PATCH v2 01/22] gnu: python-setuptools: Move to python-build Marius Bakke
2022-10-22 19:09               ` [bug#58587] [PATCH v2 02/22] gnu: pypy: Move to separate module Marius Bakke
2022-10-22 19:09               ` [bug#58587] [PATCH v2 03/22] gnu: python-pip: Move to (gnu packages python-build) Marius Bakke
2022-10-22 19:09               ` [bug#58587] [PATCH v2 04/22] build-system: Add pyproject-build-system Marius Bakke
2022-10-22 19:09               ` [bug#58587] [PATCH v2 05/22] news: Add entry for 'pyproject-build-system' Marius Bakke
2022-10-22 22:20             ` [bug#58587] [PATCH v3 01/22] gnu: python-setuptools: Move to python-build Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 02/22] gnu: pypy: Move to separate module Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 03/22] gnu: python-pip: Move to (gnu packages python-build) Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 04/22] build-system: Add pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 05/22] news: Add entry for 'pyproject-build-system' Marius Bakke
2022-10-24 16:36                 ` pelzflorian (Florian Pelz)
2022-10-24 18:01                   ` Julien Lepiller
2022-10-22 22:20               ` [bug#58587] [PATCH v3 06/22] gnu: python-autopage: Use pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 07/22] gnu: flair: Switch to pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 08/22] gnu: python-pydyf: Use pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 09/22] gnu: weasyprint: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 10/22] gnu: python-glyphslib: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 11/22] gnu: python-statmake: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 12/22] gnu: python-ufolib2: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 13/22] gnu: python-mypy-protobuf: Switch to pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 14/22] gnu: python-tempora: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 15/22] gnu: python-pygmsh: Use pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 16/22] gnu: zabbix-cli: Switch to pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 17/22] gnu: python-openapi-schema-validator: Use pyproject-build-system Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 18/22] gnu: python-openapi-spec-validator: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 19/22] gnu: python-path: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 20/22] gnu: python-cattrs: " Marius Bakke
2022-10-22 22:20               ` [bug#58587] [PATCH v3 21/22] gnu: python-scikit-build: Switch to pyproject-build-system Marius Bakke
2022-10-22 22:21               ` [bug#58587] [PATCH v3 22/22] gnu: python-deepmerge: Use pyproject-build-system Marius Bakke
2022-10-27 13:10             ` [bug#58587] [PATCH 00/14] Introducing pyproject-build-system Maxim Cournoyer

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