Rebuilt for Python 3.14.0rc3 bytecode

- Since the patch offered upstream introduces a "test" extra, use it
- Assert that .dist-info contains a license file

.gitignore

@@ -1 +1,9 @@
 /python-nixio-1.4.3.tar.gz
+/python-nixio-1.4.5.tar.gz
+/python-nixio-1.4.6.tar.gz
+/python-nixio-1.4.9.tar.gz
+/nixpy-1.5.1.tar.gz
+/nixpy-1.5.2.tar.gz
+/nixpy-1.5.3.tar.gz
+/nixpy-1.5.3-filtered.tar.gz
+/nixpy-1.5.4-filtered.tar.gz

0001-Remove-deprecated-pytest-runner-dependency.patch

@@ -0,0 +1,34 @@
+From b550f88e64c01194029a50b92d94955c39bf169f Mon Sep 17 00:00:00 2001
+From: Sandro <devel@penguinpee.nl>
+Date: Tue, 24 Dec 2024 09:08:28 +0100
+Subject: [PATCH] Remove deprecated pytest-runner dependency
+
+The `pytest-runner` project has been deprecated since 2019 and has been
+archived on git hub in December 2024.
+
+This removes the dependency on the deprecated package and also removes
+deprecated keywords from `setup.py` related to it.
+---
+ setup.py | 6 +++---
+ 1 file changed, 3 insertions(+), 3 deletions(-)
+
+diff --git a/setup.py b/setup.py
+index 16379a5..be594d5 100644
+--- a/setup.py
++++ b/setup.py
+@@ -75,9 +75,9 @@ setup(
+     packages=packages,
+     scripts=[],
+     python_requires=">=3.6",
+-    tests_require=['pytest', 'scipy', 'pillow', 'matplotlib'],
+-    test_suite='pytest',
+-    setup_requires=['pytest-runner'],
++    extras_require={
++        "test": ['pytest', 'scipy', 'pillow', 'matplotlib'],
++    },
+     install_requires=['numpy', 'h5py', 'six', 'enum34;python_version<"3.4"'],
+     package_data={'nixio': [license_text, description_text]},
+     include_package_data=True,
+-- 
+2.48.1
+

changelog

@@ -0,0 +1,91 @@
+* Fri Jan 20 2023 Fedora Release Engineering <releng@fedoraproject.org> - 1.5.3-4
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_38_Mass_Rebuild
+
+* Fri Jul 22 2022 Fedora Release Engineering <releng@fedoraproject.org> - 1.5.3-3
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild
+
+* Wed Jun 15 2022 Python Maint <python-maint@redhat.com> - 1.5.3-2
+- Rebuilt for Python 3.11
+
+* Sat Apr 02 2022 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.5.3-1
+- Update to latest release
+
+* Fri Jan 21 2022 Fedora Release Engineering <releng@fedoraproject.org> - 1.5.2-2
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild
+
+* Thu Dec 30 2021 Vanessa Christopher <vanessaigwe1@gmail.com> - 1.5.2-1
+- Update to latest release
+
+* Sun Oct 03 2021 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.5.1-1
+- Update to latest release
+
+* Fri Jul 23 2021 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.9-14
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild
+
+* Fri Jun 04 2021 Python Maint <python-maint@redhat.com> - 1.4.9-13
+- Rebuilt for Python 3.10
+
+* Wed Jan 27 2021 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.9-12
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_34_Mass_Rebuild
+
+* Wed Jul 29 2020 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.9-11
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_33_Mass_Rebuild
+
+* Thu Jun 25 2020 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.9-10
+- Explicitly BR setuptools
+
+* Tue May 26 2020 Miro Hrončok <mhroncok@redhat.com> - 1.4.9-9
+- Rebuilt for Python 3.9
+
+* Thu Jan 30 2020 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.9-8
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_32_Mass_Rebuild
+
+* Thu Oct 03 2019 Miro Hrončok <mhroncok@redhat.com> - 1.4.9-7
+- Rebuilt for Python 3.8.0rc1 (#1748018)
+
+* Mon Aug 19 2019 Miro Hrončok <mhroncok@redhat.com> - 1.4.9-6
+- Rebuilt for Python 3.8
+
+* Fri Jul 26 2019 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.9-5
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild
+
+* Wed Jul 10 2019 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.9-4
+- Fix build: rhbz 1706159
+
+* Sat Feb 02 2019 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.9-3
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild
+
+* Tue Jan 15 2019 Igor Gnatenko <ignatenkobrain@fedoraproject.org> - 1.4.9-2
+- Enable python dependency generator
+
+* Sat Jan 12 2019 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.9-1
+- Update to 1.4.9
+
+* Thu Oct 18 2018 Zbigniew Jędrzejewski-Szmek <zbyszek@in.waw.pl> - 1.4.6-2
+- Subpackage python2-nixio has been removed
+  See https://fedoraproject.org/wiki/Changes/Mass_Python_2_Package_Removal
+
+* Wed Jul 18 2018 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.6-1
+- Update to 1.4.6
+
+* Sat Jul 14 2018 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.5-3
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild
+
+* Tue Jun 19 2018 Miro Hrončok <mhroncok@redhat.com> - 1.4.5-2
+- Rebuilt for Python 3.7
+
+* Sat Jun 09 2018 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.5-1
+- Update to latest upstream release
+
+* Fri Feb 09 2018 Fedora Release Engineering <releng@fedoraproject.org> - 1.4.3-2
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild
+
+* Sun Jan 21 2018 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.3-1
+- Use newer release and GitHub sources
+- Run tests
+- Define summary macro
+- Add doc sub package
+
+* Fri Jan 12 2018 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.2-1
+- Initial build
+- use pydist macro

get_source

@@ -0,0 +1,50 @@
+#!/bin/sh
+set -o errexit
+set -o nounset
+
+if [ "$#" != '1' ]
+then
+	cat 1>&2 <<EOF
+Usage: $0 VERSION
+
+Downloads the requested version and creates a filtered source tarball.
+EOF
+	exit 1
+fi
+
+VERSION="${1}"
+OUTDIR="${PWD}"
+TMPDIR="$(mktemp -d)"
+trap "rm -rf '${TMPDIR}'" INT TERM EXIT
+
+cd "${TMPDIR}"
+REPO="https://github.com/G-node/nixpy"
+URL="${REPO}/archive/${VERSION}/nixpy-${VERSION}.tar.gz"
+echo "--> Downloading: ${URL}" 1>&2
+curl -L -O "${URL}"
+
+ARCHIVE="$(find . -mindepth 1 -maxdepth 1 -type f -name '*.tar.gz' -print -quit)"
+echo "--> Extracting: $(basename "${ARCHIVE}")" 1>&2
+tar -xzf "${ARCHIVE}"
+echo '--> Removing Lenna/Lena image due to licensing and other issues' 1>&2
+TARDIR="$(basename "${ARCHIVE}" '.tar.gz')"
+MTIME="$(stat -c '%Y' "${TARDIR}")"
+# https://github.com/G-Node/nixpy/issues/545
+find "${TARDIR}" -type f -name lenna.png -print -delete
+# Make sure the original mtime is preserved even if we modified the base
+# directory by removing something at the top level. (So far, we didn’t.)
+touch -d @"${MTIME}" "${TARDIR}"
+FILTERED="$(basename "${ARCHIVE}" .tar.gz)-filtered.tar.gz"
+echo "--> Re-archiving: ${FILTERED}" 1>&2
+# https://www.gnu.org/software/tar/manual/html_section/Reproducibility.html
+TZ=UTC LC_ALL=C tar \
+    --create \
+    --sort=name \
+    --format=posix \
+    --numeric-owner --owner=0 --group=0 \
+    --mode=go+u,go-w \
+    --pax-option='delete=atime,delete=ctime' \
+    "${TARDIR}/" |
+  gzip -9 > "${FILTERED}"
+mv -v "${FILTERED}" "${OUTDIR}"
+echo 'Done.' 1>&2

info.json

@@ -0,0 +1,10 @@
+{
+    "VERSION": "1.5.2",
+    "STATUS": "Release",
+    "RELEASE": "1.5.2 Release",
+    "AUTHOR": "Christian Kellner, Adrian Stoewer, Andrey Sobolev, Jan Grewe, Balint Morvai, Achilleas Koutsou",
+    "COPYRIGHT": "2014-2021, German Neuroinformatics Node, Christian Kellner, Adrian Stoewer, Andrey Sobolev, Jan Grewe, Balint Morvai, Achilleas Koutsou",
+    "CONTACT": "dev@g-node.org",
+    "BRIEF": "Python reimplementation of NIXIO (http://g-node.github.io/nix/)",
+    "HOMEPAGE": "https://github.com/G-Node/nixpy"
+}

python-nixio.spec

@@ -1,123 +1,91 @@
-%global srcname     nixio
+%global forgeurl    https://github.com/G-node/nixpy
-%global sum     Python bindings for NIX
 
-Name:       python-%{srcname}
+%global desc \
-Version:    1.4.3
+The NIX project started as an initiative within the Electrophysiology Task \
-Release:    1%{?dist}
+Force a part of the INCF Data sharing Program. The NIX data model allows to \
-Summary:    %{sum}
+store fully annotated scientific data-set, i.e. the data together with its \
+metadata within the same container. Our aim is to achieve standardization by \
+providing a common/generic data structure for a multitude of data types. See \
+the wiki for more information \
+ \
+The current implementations store the actual data using the HDF5 file format as \
+a storage backend.
 
-License:    BSD
+Name:       python-nixio
-URL:        https://github.com/G-node/nixpy
+Version:    1.5.4
-Source0:    https://github.com/G-node/nixpy/archive/%{version}/%{name}-%{version}.tar.gz
+Release:    %autorelease
+Summary:    Python bindings for NIX
 
+%global     tag     %version
+%forgemeta
+
+License:    BSD-3-Clause
+URL:        %forgeurl
+# We need to upload a filtered version of the source archive because
+# docs/source/examples/lenna.png has several issues, including the lack of a
+# license. We have asked upstream to deal with this in
+#   Please consider replacing lenna.png
+#   https://github.com/G-Node/nixpy/issues/545
+# but for now, we must obtain the filtered archive by running the script in
+# Source2:
+#   ./get_source ${VERSION}
+%dnl Source0:    %forgesource
+Source0:    nixpy-%{version}-filtered.tar.gz
+# The tagged snapshot on GitHub still says "dev" but the manually uploaded
+# release does not, so use the info.json from there
+# https://github.com/G-Node/nixpy/issues/528
+Source1:    info.json
+# * Script used to obtain Source0: ./get_source %%{version}
+Source2:    get_source
+
+# Remove deprecated pytest-runner dependency
+# https://github.com/G-Node/nixpy/pull/547
+# Rebased on 1.5.4, without changes to GitHub CI configuration
+# https://fedoraproject.org/wiki/Changes/DeprecatePythonPytestRunner
+Patch:          0001-Remove-deprecated-pytest-runner-dependency.patch
 
 BuildArch:      noarch
 # No need for nix, they're uncoupling it from the C++
 # https://github.com/G-Node/nixpy/pull/276
 
-%description
-The NIX project started as an initiative within the Electrophysiology Task
-Force a part of the INCF Data sharing Program. The NIX data model allows to
-store fully annotated scientific data-set, i.e. the data together with its
-metadata within the same container. Our aim is to achieve standardization by
-providing a common/generic data structure for a multitude of data types. See
-the wiki for more information
-
-The current implementations store the actual data using the HDF5 file format as
-a storage backend.
-
-%package -n python2-%{srcname}
-Summary:        %{sum}
-BuildRequires:  python2-devel
-BuildRequires:  %{py2_dist pytest numpy h5py pytest-runner}
-Requires:       %{py2_dist numpy h5py}
-%{?python_provide:%python_provide python2-%{srcname}}
-
-%description -n python2-%{srcname}
-The NIX project started as an initiative within the Electrophysiology Task
-Force a part of the INCF Data sharing Program. The NIX data model allows to
-store fully annotated scientific data-set, i.e. the data together with its
-metadata within the same container. Our aim is to achieve standardization by
-providing a common/generic data structure for a multitude of data types. See
-the wiki for more information
-
-The current implementations store the actual data using the HDF5 file format as
-a storage backend.
-
-
-%package -n python3-%{srcname}
-Summary:        %{sum}
 BuildRequires:  python3-devel
-BuildRequires:  %{py3_dist pytest numpy h5py pytest-runner}
-Requires:       %{py3_dist numpy h5py}
-%{?python_provide:%python_provide python3-%{srcname}}
 
-%description -n python3-%{srcname}
+%description %{desc}
-The NIX project started as an initiative within the Electrophysiology Task
-Force a part of the INCF Data sharing Program. The NIX data model allows to
-store fully annotated scientific data-set, i.e. the data together with its
-metadata within the same container. Our aim is to achieve standardization by
-providing a common/generic data structure for a multitude of data types. See
-the wiki for more information
 
-The current implementations store the actual data using the HDF5 file format as
+%package -n python3-nixio
-a storage backend.
+Summary:        %{summary}
 
-%package doc
+%description -n python3-nixio %{desc}
-Summary:        %{sum}
-BuildRequires:  python3-sphinx
-
-%description doc
-Documentation files for %{name}.
 
 %prep
-%autosetup -n nixpy-%{version}
+%autosetup -n nixpy-%{version} -p1
-rm -fr *egg-info
+
+# it sets examples_path based on the name of the cwd
+sed -i "s/nixpy/nixpy-%{version}/" nixio/test/test_doc_examples.py
+
+cp %{SOURCE1} nixio/info.json -v -p
+
+%generate_buildrequires
+%pyproject_buildrequires -x test
 
 %build
-%py2_build
+%pyproject_wheel
-%py3_build
-
-PYTHONPATH=. sphinx-build-3 docs/source html
-# Remove unneeded files
-rm -fr html/.{buildinfo,doctrees}
-
-# Remove shebang from documentation examples
-for f in html/_downloads/*.py; do
-    sed '1{\@^#!/usr/bin/env python@d}' $f > $f.new &&
-    touch -r $f $f.new &&
-    mv $f.new $f
-done
 
 %install
-%py2_install
+%pyproject_install
-%py3_install
+%pyproject_save_files -l nixio
 
 %check
-%{__python2} setup.py test
+# These require the removed lenna.png sample file:
-%{__python3} setup.py test
+k="${k-}${k+ and }not (TestDocumentationExamples and test_image_data)"
+k="${k-}${k+ and }not (TestDocumentationExamples and test_image_with_metadata)"
+k="${k-}${k+ and }not (TestDocumentationExamples and test_multiple_rois)"
+k="${k-}${k+ and }not (TestDocumentationExamples and test_single_roi)"
 
-%files -n python2-%{srcname}
+%pytest -k "${k-}"
-%license LICENSE
-%{python2_sitelib}/%{srcname}-%{version}-py?.?.egg-info
-%{python2_sitelib}/%{srcname}/
 
-%files -n python3-%{srcname}
+%files -n python3-nixio -f %{pyproject_files}
-%license LICENSE
+%{_bindir}/nixio
-%{python3_sitelib}/%{srcname}-%{version}-py?.?.egg-info
-%{python3_sitelib}/%{srcname}/
-
-%files doc
-%doc README.rst html
-%license LICENSE
 
 %changelog
-* Sun Jan 21 2018 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.3-1
+%autochangelog
-- Use newer release and GitHub sources
-- Run tests
-- Define summary macro
-- Add doc sub package
-
-* Fri Jan 12 2018 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 1.4.2-1
-- Initial build
-- use pydist macro

sources

@@ -1 +1 @@
-SHA512 (python-nixio-1.4.3.tar.gz) = 9311a05a43a85cc9bfb3bf0aa1f329d6864d5ac311ca52ff51fd4576edca641a86cf693cc4f49dcb0dde7738a1404f0a6cfff361793e7e856e3c7035b2eb4ab8
+SHA512 (nixpy-1.5.4-filtered.tar.gz) = 7842e1643df0b234b8de7f8c1c30875ad70ed2681561ecf570ffff2849f60ea9510e7dba3b6544e8f507eed2583925d52d29c348cc49b2d5da0a22c686e3173d