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Merged
jkotan merged 2 commits into from
May 6, 2026
Merged

Issue 237: bump the version to 3.4.0 #238

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c931ec7
bump the version to 3.4.0
jkotan May 6, 2026
deb9e02
change tests to ub26.04
jkotan May 6, 2026
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2 changes: 1 addition & 1 deletion .ci/debian11_py3/Dockerfile
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Expand Up @@ -12,7 +12,7 @@ RUN chmod 644 /etc/apt/trusted.gpg.d/debian-hdri-repo.gpg
RUN add-apt-repository "deb http://repos.pni-hdri.de/apt/debian bullseye main" -y
# RUN apt-get -qq update && apt-get -qq -y dist-upgrade
RUN apt-get -qq update && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py hdf5-plugin-bshuf hdf5-plugin-bz2 hdf5-plugin-lz4 git python3-pytest cmake doxygen python3-sphinx libboost-all-dev
RUN apt-get install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py hdf5-plugin-bshuf hdf5-plugin-bz2 hdf5-plugin-lz4 git python3-pytest cmake doxygen python3-sphinx libboost-all-dev
RUN useradd -ms /bin/bash tango
RUN apt-get -qq install -y adduser
RUN /bin/bash -c 'sleep 10'
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2 changes: 1 addition & 1 deletion .ci/debian12_py3/Dockerfile
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Expand Up @@ -13,7 +13,7 @@ RUN chmod 644 /etc/apt/trusted.gpg.d/debian-hdri-repo.gpg
RUN cd /etc/apt/sources.list.d && wget http://repos.pni-hdri.de/bookworm-pni-hdri.list
RUN apt-get -qq update && apt-get -qq -y dist-upgrade
RUN apt-get -qq update && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py git python3-pytest cmake doxygen python3-sphinx libboost-all-dev hdf5-filter-plugin hdf5-plugin-bshuf
RUN apt-get install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py git python3-pytest cmake doxygen python3-sphinx libboost-all-dev hdf5-filter-plugin hdf5-plugin-bshuf
# hdf5-plugin-bz2 hdf5-plugin-lz4

RUN useradd -ms /bin/bash tango
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2 changes: 1 addition & 1 deletion .ci/debian13_py3/Dockerfile
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Expand Up @@ -13,7 +13,7 @@ RUN chmod 644 /etc/apt/trusted.gpg.d/debian-hdri-repo.gpg
RUN cd /etc/apt/sources.list.d && wget http://repos.pni-hdri.de/trixie-pni-hdri.list
RUN apt-get -qq update && apt-get -qq -y dist-upgrade
RUN apt-get -qq update && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev cython3 python3-setuptools libboost-python-dev python3-numpy-dev g++ python3-h5py git python3-pytest cmake doxygen python3-sphinx libboost-all-dev hdf5-filter-plugin bitshuffle
RUN apt-get install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev cython3 python3-setuptools libboost-python-dev python3-numpy-dev g++ python3-h5py git python3-pytest cmake doxygen python3-sphinx libboost-all-dev hdf5-filter-plugin bitshuffle
# hdf5-plugin-bz2 hdf5-plugin-lz4

RUN useradd -ms /bin/bash tango
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2 changes: 1 addition & 1 deletion .ci/ubuntu22.04_py3/Dockerfile
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Expand Up @@ -12,7 +12,7 @@ RUN chmod 644 /etc/apt/trusted.gpg.d/debian-hdri-repo.gpg
RUN add-apt-repository "deb http://repos.pni-hdri.de/apt/ubuntu jammy main" -y
RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq dist-upgrade
RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get -qq install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py
RUN apt-get -qq install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py
RUN apt-get -qq install -y hdf5-plugin-bshuf hdf5-plugin-bz2 hdf5-plugin-lz4 python3-pytest git cmake doxygen python3-sphinx libboost-all-dev
RUN useradd -ms /bin/bash tango

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2 changes: 1 addition & 1 deletion .ci/ubuntu24.04_py3/Dockerfile
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Expand Up @@ -15,7 +15,7 @@ RUN cd /etc/apt/sources.list.d && wget http://repos.pni-hdri.de/noble-pni-hdri.l

RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq dist-upgrade
RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get -qq install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py
RUN apt-get -qq install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0 python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-abi9 g++ python3-h5py
RUN apt-get -qq install -y hdf5-filter-plugin hdf5-plugin-bshuf python3-pytest git cmake doxygen python3-sphinx libboost-all-dev
RUN useradd -ms /bin/bash tango

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2 changes: 1 addition & 1 deletion .ci/ubuntu25.04_py3/Dockerfile
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Expand Up @@ -16,7 +16,7 @@ RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq d
RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get -qq install -y python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev libatlas-base-dev cython3 python3-setuptools libboost-python-dev python3-numpy-dev g++ python3-h5py
RUN apt-get -qq install -y hdf5-filter-plugin bitshuffle-serial-links python3-pytest git cmake doxygen python3-sphinx libboost-all-dev
RUN apt-get -qq install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1
RUN apt-get -qq install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0
RUN useradd -ms /bin/bash tango

# # install latest h5cpp
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2 changes: 1 addition & 1 deletion .ci/ubuntu25.10_py3/Dockerfile
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Expand Up @@ -16,7 +16,7 @@ RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq d
RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get -qq install -y python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev cython3 python3-setuptools libboost-python-dev python3-numpy-dev g++ python3-h5py
RUN apt-get -qq install -y hdf5-filter-plugin bitshuffle python3-pytest git cmake doxygen python3-sphinx libboost-all-dev
RUN apt-get -qq install -y libpninexus3.3.0-dev libpninexus3.3.0 libh5cpp0.7.1-dev libh5cpp0.7.1
RUN apt-get -qq install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0
RUN useradd -ms /bin/bash tango

# # install latest h5cpp
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45 changes: 45 additions & 0 deletions .ci/ubuntu26.04_py3/Dockerfile
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@@ -0,0 +1,45 @@
FROM ubuntu:26.04

# MAINTAINER DESY, Jan Kotanski <jankotan@gmail.com>

RUN sed -i 's|http://archive|http://de.archive|g' /etc/apt/sources.list.d/ubuntu.sources
RUN apt-get update
RUN apt-get install -y base-passwd apt-utils dialog -y
RUN echo 'debconf debconf/frontend select Noninteractive' | debconf-set-selections
RUN apt-get -qq update && apt-get -qq install -y libterm-readline-gnu-perl software-properties-common coreutils gnupg2 procps curl apt-transport-https gnupg2 ca-certificates wget gpg-agent

RUN curl -s http://repos.pni-hdri.de/debian_repo.pub.gpg | gpg --no-default-keyring --keyring gnupg-ring:/etc/apt/trusted.gpg.d/debian-hdri-repo.gpg --import
RUN chmod 644 /etc/apt/trusted.gpg.d/debian-hdri-repo.gpg
RUN cd /etc/apt/sources.list.d && wget http://repos.pni-hdri.de/resolute-pni-hdri.sources

RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq dist-upgrade
RUN apt-get -qq update && export DEBIAN_FRONTEND=noninteractive && apt-get -qq install -y python3-sphinx apt-utils net-tools
RUN apt-get -qq install -y python3-numpy libhdf5-dev libboost-regex-dev libboost-program-options-dev libboost-system-dev libboost-date-time-dev libboost-filesystem-dev libblas-dev cython3 python3-setuptools libboost-python-dev python3-numpy-dev g++ python3-h5py
RUN apt-get -qq install -y hdf5-filter-plugin bitshuffle python3-pytest git cmake doxygen python3-sphinx libboost-all-dev
RUN apt-get -qq install -y libpninexus3.4.0-dev libpninexus3.4.0 libh5cpp0.8.0-dev libh5cpp0.8.0
RUN useradd -ms /bin/bash tango

# # install latest h5cpp
# RUN mkdir -p /opt/h5cpp
# RUN mkdir -p /h5cpp-src
# RUN cd /h5cpp-src && git clone https://github.com/ess-dmsc/h5cpp && mkdir build
# RUN cd /h5cpp-src/build && cmake -DCMAKE_INSTALL_PREFIX=/opt/h5cpp -DCMAKE_BUILD_TYPE=Release -DH5CPP_CONAN=DISABLE -DH5CPP_DISABLE_TESTS=True -DH5CPP_WITH_BOOST=OFF ../h5cpp && make install -j4
# ENV CPLUS_INCLUDE_PATH=/opt/h5cpp/include
# ENV LD_LIBRARY_PATH=/opt/h5cpp/lib
# ENV H5CPP=/opt/h5cpp/lib/cmake/h5cpp-0.6
# ENV H5CPP_LOCAL_PATH=/opt/h5cpp
# ENV HDF5_HL_LOCAL_PATH=/usr/lib/x86_64-linux-gnu/hdf5/serial/

# # install latest linpninexus
# RUN mkdir -p /opt/libpninexus
# RUN mkdir -p /libpninexus-src
# RUN cd /libpninexus-src && git clone https://github.com/pni-libraries/libpninexus && mkdir build
# # RUN cd /libpninexus-src/build && cmake -Dh5cpp_DIR=$H5CPP -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/opt/h5cpp/ -DPNINEXUS_CONAN=DISABLE ../libpninexus && make -j4 && make install -j4
# RUN cd /libpninexus-src/build && cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/opt/libpninexus/ -DPNINEXUS_CONAN=DISABLE ../libpninexus && make -j4 && make install -j4
# ENV CPLUS_INCLUDE_PATH=$CPLUS_INCLUDE_PATH:/opt/libpninexus/include
# ENV LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/opt/libpninexus/lib
# ENV PNINEXUS_LOCAL_PATH=/opt/libpninexus

ENV PKG_CONFIG_PATH=/home/tango/lib/pkgconfig
USER tango
WORKDIR /home/tango
2 changes: 1 addition & 1 deletion .github/workflows/pixi/recipe.yaml
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@@ -1,5 +1,5 @@
context:
version: 3.3.0
version: 3.4.0

package:
name: pninexus
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26 changes: 13 additions & 13 deletions .github/workflows/tests.yml
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Expand Up @@ -65,24 +65,24 @@ jobs:
source .sh.sh
pixi run rattler-build build --recipe .github/workflows/pixi/recipe.yaml

windows-2025_tests:
runs-on: windows-2025
steps:
- uses: actions/checkout@v4
- uses: prefix-dev/setup-pixi@v0.9.4
with:
pixi-version: v0.62.2
cache: false
- name: build pninexus
run: |
pixi add rattler-build compilers libboost-headers=1.88.0 h5cpp libpninexus libboost=1.88.0 libboost-python=1.88.0 hdf5=1.14.6
pixi run rattler-build build --recipe .github/workflows/pixi/recipe.yaml
# windows-2025_tests:
# runs-on: windows-2025
# steps:
# - uses: actions/checkout@v4
# - uses: prefix-dev/setup-pixi@v0.9.4
# with:
# pixi-version: v0.62.2
# cache: false
# - name: build pninexus
# run: |
# pixi add rattler-build compilers libboost-headers=1.88.0 h5cpp libpninexus libboost=1.88.0 libboost-python=1.88.0 hdf5=1.14.6
# pixi run rattler-build build --recipe .github/workflows/pixi/recipe.yaml

deb_tests:
runs-on: ubuntu-latest
strategy:
matrix:
os: [debian13, debian12, debian11, ubuntu25.10, ubuntu24.04, ubuntu22.04]
os: [debian13, debian12, debian11, ubuntu26.04, ubuntu24.04, ubuntu22.04]
steps:
- uses: actions/checkout@v2
- uses: actions/setup-python@v2
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15 changes: 13 additions & 2 deletions CHANGELOG.md
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@@ -1,8 +1,19 @@
# ChangeLog

## 3.4.0 - 2026-05-05
- update tests for hdf5 2.0 )[#235](https://github.com/pni-libraries/python-pninexus/pull/235), [#233](https://github.com/pni-libraries/python-pninexus/pull/233)
- add support for windows ([#231](https://github.com/pni-libraries/python-pninexus/pull/231))
- cleaning setting string empty ([#229](https://github.com/pni-libraries/python-pninexus/pull/229))
- define empty python string with PyCONSTANT_EMPTY_STR ([#228](https://github.com/pni-libraries/python-pninexus/pull/228])
- cast dims.size explicitly for osx ([#227](https://github.com/pni-libraries/python-pninexus/pull/227))
- add -fno-lto flag ([#225](https://github.com/pni-libraries/python-pninexus/pull/225))
- fix warning on stopping CI docker ([#221](https://github.com/pni-libraries/python-pninexus/pull/221))
- add debian 13 test ([#220](https://github.com/pni-libraries/python-pninexus/pull/220))
- technical release for libpninexus v3.4.0 (https://github.com/pni-libraries/libpninexus/issues/252) and libh5cpp v0.8.0 (https://github.com/ess-dmsc/h5cpp/issues/679)

## 3.3.0 - 2025-05-08
- fixes for writing utf8 strings ([#215](https://github.com/pni-libraries/python-pninexus/pull/215)), ([#213](https://github.com/pni-libraries/python-pninexus/pull/213)), ([#210](https://github.com/pni-libraries/python-pninexus/pull/210))
- technical release for libpninexus v3.3.0 (https://github.com/pni-libraries/libpninexus/issues/252) and libh5cpp v0.7.1 (https://github.com/ess-dmsc/h5cpp/issues/679)
- technical release for libpninexus v3.3.0 (https://github.com/pni-libraries/libpninexus/issues/272) and libh5cpp v0.7.1 (https://github.com/ess-dmsc/h5cpp/issues/698)

## 3.2.3 - 2025-01-12
- adapt code to python 3.12 ([#201](https://github.com/pni-libraries/python-pninexus/pull/201))
Expand All @@ -13,7 +24,7 @@

## 3.2.1 - 2023-10-12
- replace README.md by README.rst ([#190](https://github.com/pni-libraries/python-pninexus/pull/190))

](https://github.com/pni-libraries/python-pninexus/pull/
## 3.2.0 - 2023-10-12
- string parameters to has/get_dataset/group/node added ([#185](https://github.com/pni-libraries/python-pninexus/pull/185))
- get_numpy_include_dirs to numpy.get_include changed ([#184](https://github.com/pni-libraries/python-pninexus/pull/183))
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2 changes: 1 addition & 1 deletion README.rst
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Expand Up @@ -78,7 +78,7 @@ For Python3 just replace python with python3 in the above instructions.
Debian and Ubuntu packages
~~~~~~~~~~~~~~~~~~~~~~~~~~

Debian ``trixie``, ``bookworm``, ``bullseye`` or Ubuntu ``questing``,
Debian ``trixie``, ``bookworm``, ``bullseye`` or Ubuntu ``resolute``,
``noble``, ``jammy`` packages can be found in the HDRI repository.

To install the debian packages, add the PGP repository key
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1 change: 1 addition & 0 deletions doc/sphinx/conf.py
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Expand Up @@ -160,6 +160,7 @@

html_context = {
"docs_versions" : [
"v3.4.0",
"v3.3.0",
"v3.2.3", "v3.2.2", "v3.2.1", "v3.2.0", "v3.1.0",
"v3.0.3", "v3.0.2", "v3.0.1", "v3.0.0", "v2.0.0", "v1.3.4"]
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2 changes: 1 addition & 1 deletion doc/sphinx/installation.rst
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Expand Up @@ -78,7 +78,7 @@ and for Ubuntu (Noble)

$ wget http://repos.pni-hdri.de/noble-pni-hdri.list

Similarly, proceed for Trixie, Bookworm, Bullseye, Questing, Jammy.
Similarly, proceed for Trixie, Bookworm, Bullseye, Resolute, Noble, Jammy.
Once you have downloaded the file use

.. code-block:: bash
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8 changes: 5 additions & 3 deletions setup.py
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Expand Up @@ -19,10 +19,10 @@
BuildDoc = None

name = "pninexus"
version = "3.3.0"
# release = "3.3.0"
version = "3.4.0"
release = "3.4.0"
# documentation for release with one '.' is stored as v:latest
release = "3.3"
# release = "3.4"

if release.count(".") == 1:
docs_release = '(latest)'
Expand Down Expand Up @@ -302,6 +302,8 @@ def run(self):
'Programming Language :: Python :: 3.10',
'Programming Language :: Python :: 3.11',
'Programming Language :: Python :: 3.12',
'Programming Language :: Python :: 3.13',
'Programming Language :: Python :: 3.14',
],
# test_suite="test",
# test_loader="unittest:TestLoader",
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