git: 4b2250f1aaf4 - main - science/py-nibabel: update 5.2.0 → 5.2.1

The branch main has been updated by yuri:

URL: https://cgit.FreeBSD.org/ports/commit/?id=4b2250f1aaf414e63fe23b2f1396500ac7a17846

commit 4b2250f1aaf414e63fe23b2f1396500ac7a17846
Author:     Yuri Victorovich <yuri@FreeBSD.org>
AuthorDate: 2024-04-14 15:59:52 +0000
Commit:     Yuri Victorovich <yuri@FreeBSD.org>
CommitDate: 2024-04-14 19:07:37 +0000

    science/py-nibabel: update 5.2.0 → 5.2.1
    
    Reported by:    portscout
---
 science/py-nibabel/Makefile              | 10 ++++++---
 science/py-nibabel/distinfo              |  6 +++---
 science/py-nibabel/files/patch-fix-tests | 37 --------------------------------
 3 files changed, 10 insertions(+), 43 deletions(-)

diff --git a/science/py-nibabel/Makefile b/science/py-nibabel/Makefile
index 90dbc234add4..9c8c273ebcef 100644
--- a/science/py-nibabel/Makefile
+++ b/science/py-nibabel/Makefile
@@ -1,6 +1,5 @@
 PORTNAME=	nibabel
-DISTVERSION=	5.2.0
-PORTREVISION=	1
+DISTVERSION=	5.2.1
 CATEGORIES=	science python
 MASTER_SITES=	PYPI
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
@@ -16,9 +15,14 @@ BUILD_DEPENDS=	${PYTHON_PKGNAMEPREFIX}hatch-vcs>0:devel/py-hatch-vcs@${PY_FLAVOR
 		${PYTHON_PKGNAMEPREFIX}hatchling>0:devel/py-hatchling@${PY_FLAVOR}
 RUN_DEPENDS=	${PYNUMPY} \
 		${PYTHON_PKGNAMEPREFIX}packaging>=17:devel/py-packaging@${PY_FLAVOR}
+TEST_DEPENDS=	${PYTHON_PKGNAMEPREFIX}pytest-cov>0:devel/py-pytest-cov@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}pytest-doctestplus>0:devel/py-pytest-doctestplus@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}pytest-httpserver>0:devel/py-pytest-httpserver@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}pytest-xdist>0:devel/py-pytest-xdist@${PY_FLAVOR}
+TEST_DEPENDS+=	${PYTHON_PKGNAMEPREFIX}pydicom>0:science/py-pydicom@${PY_FLAVOR}
 
 USES=		python:3.9+
-USE_PYTHON=	pep517 concurrent autoplist pytest # 1 tests fails, see https://github.com/nipy/nibabel/issues/1285
+USE_PYTHON=	pep517 concurrent autoplist pytest # 270 tests fail, see https://github.com/nipy/nibabel/issues/1317
 
 NO_ARCH=	yes
 
diff --git a/science/py-nibabel/distinfo b/science/py-nibabel/distinfo
index 1a3966dd0681..a084cf7c824c 100644
--- a/science/py-nibabel/distinfo
+++ b/science/py-nibabel/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1702404071
-SHA256 (nibabel-5.2.0.tar.gz) = 3df8f1ab981d1bd92f4331d565528d126ab9717fdbd4cfe68f43fcd1c2bf3f52
-SIZE (nibabel-5.2.0.tar.gz) = 4501846
+TIMESTAMP = 1713047802
+SHA256 (nibabel-5.2.1.tar.gz) = b6c80b2e728e4bc2b65f1142d9b8d2287a9102a8bf8477e115ef0d8334559975
+SIZE (nibabel-5.2.1.tar.gz) = 4503320
diff --git a/science/py-nibabel/files/patch-fix-tests b/science/py-nibabel/files/patch-fix-tests
deleted file mode 100644
index 1a3db66036b6..000000000000
--- a/science/py-nibabel/files/patch-fix-tests
+++ /dev/null
@@ -1,37 +0,0 @@
-- fix for the failing test from https://github.com/nipy/nibabel/issues/1285#issuecomment-1852612513
-
-diff --git nibabel/pkg_info.py nibabel/pkg_info.py
-index 7e816939..7232806a 100644
---- nibabel/pkg_info.py
-+++ nibabel/pkg_info.py
-@@ -1,6 +1,7 @@
- from __future__ import annotations
- 
- import sys
-+from contextlib import suppress
- from subprocess import run
- 
- from packaging.version import Version
-@@ -102,14 +103,16 @@ def pkg_commit_hash(pkg_path: str | None = None) -> tuple[str, str]:
-     ver = Version(__version__)
-     if ver.local is not None and ver.local.startswith('g'):
-         return 'installation', ver.local[1:8]
--    # maybe we are in a repository
--    proc = run(
--        ('git', 'rev-parse', '--short', 'HEAD'),
--        capture_output=True,
--        cwd=pkg_path,
--    )
--    if proc.stdout:
--        return 'repository', proc.stdout.decode().strip()
-+    # maybe we are in a repository, but consider that we may not have git
-+    with suppress(FileNotFoundError):
-+        proc = run(
-+            ('git', 'rev-parse', '--short', 'HEAD'),
-+            capture_output=True,
-+            cwd=pkg_path,
-+        )
-+        if proc.stdout:
-+            return 'repository', proc.stdout.decode().strip()
-+
-     return '(none found)', '<not found>'