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Hello community,
here is the log from the commit of package python-tables for openSUSE:Factory
checked in at 2023-02-27 12:55:02
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Comparing /work/SRC/openSUSE:Factory/python-tables (Old)
and /work/SRC/openSUSE:Factory/.python-tables.new.31432 (New)
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Package is "python-tables"
Mon Feb 27 12:55:02 2023 rev:19 rq:1067858 version:3.8.0
Changes:
--------
--- /work/SRC/openSUSE:Factory/python-tables/python-tables.changes
2022-03-30 20:35:53.065314000 +0200
+++ /work/SRC/openSUSE:Factory/.python-tables.new.31432/python-tables.changes
2023-02-27 12:55:05.179318649 +0100
@@ -1,0 +2,47 @@
+Sat Feb 25 18:35:30 UTC 2023 - Ben Greiner <c...@bnavigator.de>
+
+- Promote tables-debundled-blosc2.patch to
+ tables-pr1000-debundled-blosc2.patch
+ * Do not require python-blosc2 for anything
+ * gh#PyTables/PyTables#1000
+- Remove pre-compiled libblosc2.so gh#PyTables/PyTables#1001
+- Split out test into multibuilds: Even the "light" test suite
+ takes more than 1 hour for all 4 python flavors executed
+ sequentially
+
+-------------------------------------------------------------------
+Fri Feb 17 21:15:02 UTC 2023 - Ben Greiner <c...@bnavigator.de>
+
+- Use python-blosc2 and c-blosc2
+- Drop environement vars which would have only been used with
+ embedded c-blosc
+- Disable building docs (sphinx update broke it)
+- Add tables-debundled-blosc2.patch gh#PyTables/PyTables#1000
+
+-------------------------------------------------------------------
+Wed Feb 8 18:39:24 UTC 2023 - Arun Persaud <a...@gmx.de>
+
+- specfile:
+ * update copyright year
+ * require python >= 3.8
+
+- update to version 3.8.0:
+ * Improvements
+ + Support for Python 3.11 has been added (PR #962).
+ + Support for Python 3.6 and Python 3.7 has been dropped (PR
+ #966).
+ + Added a new (registered) HDF5 filter for Blosc2 compressor (PR
+ #969).
+ + Added optimized paths for Blosc2 reading and writing in
+ tables. This bypasses the HDF5 filter pipeline by building the Blosc2
CFrames
+ and sending them to the HDF5 direct chunking machinery (PR #969).
+ + Internal C-Blosc sources updated to 1.21.2.
+ + Thanks to Oscar Guiñon, Francesc Alted for implementing Blosc2
+ the support and NumFOCUS for providing a grant for that.
+ * Other changes
+ + Starting form this release, C source files generated by Cython
+ are no longer included in the source distribution package.
+ + Pre-built HTML documentation is no longer included in the source
+ package.
+
+-------------------------------------------------------------------
Old:
----
tables-3.7.0.tar.gz
New:
----
_multibuild
tables-3.8.0.tar.gz
tables-pr1000-debundled-blosc2.patch
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Other differences:
------------------
++++++ python-tables.spec ++++++
--- /var/tmp/diff_new_pack.LPuuXK/_old 2023-02-27 12:55:06.599327359 +0100
+++ /var/tmp/diff_new_pack.LPuuXK/_new 2023-02-27 12:55:06.603327383 +0100
@@ -1,7 +1,7 @@
#
-# spec file for package python-tables
+# spec file
#
-# Copyright (c) 2022 SUSE LLC
+# Copyright (c) 2023 SUSE LLC
#
# All modifications and additions to the file contributed by third parties
# remain the property of their copyright owners, unless otherwise agreed
@@ -16,35 +16,79 @@
#
-%{?!python_module:%define python_module() python3-%{**}}
-%define skip_python2 1
-Name: python-tables
-Version: 3.7.0
+%define psuffix %{nil}
+%global flavor @BUILD_FLAVOR@%{nil}
+%if "%{flavor}" == "test-py38"
+%define psuffix -test-py38
+%define skip_python39 1
+%define skip_python310 1
+%define skip_python311 1
+%bcond_without test
+%endif
+%if "%{flavor}" == "test-py39"
+%define psuffix -test-py39
+%define skip_python38 1
+%define skip_python310 1
+%define skip_python311 1
+%bcond_without test
+%endif
+%if "%{flavor}" == "test-py310"
+%define psuffix -test-py310
+%define skip_python38 1
+%define skip_python39 1
+%define skip_python311 1
+%bcond_without test
+%endif
+%if "%{flavor}" == "test-py311"
+%define psuffix -test-py311
+%define skip_python38 1
+%define skip_python39 1
+%define skip_python310 1
+%bcond_without test
+%endif
+%if "%{flavor}" == ""
+%bcond_with test
+%endif
+
+Name: python-tables%{psuffix}
+Version: 3.8.0
Release: 0
Summary: Hierarchical datasets for Python
License: BSD-3-Clause
URL: https://github.com/PyTables/PyTables
Source0:
https://files.pythonhosted.org/packages/source/t/tables/tables-%{version}.tar.gz
-BuildRequires: %{python_module Cython}
+# PATCH-FIX-UPSTREAM tables-pr1000-debundled-blosc2.patch
gh#PyTables/PyTables#1000
+Patch0: tables-pr1000-debundled-blosc2.patch
+BuildRequires: %{python_module base >= 3.8}
+BuildRequires: python-rpm-macros
+%if ! %{with test}
+BuildRequires: %{python_module Cython >= 0.29.21}
BuildRequires: %{python_module devel}
BuildRequires: %{python_module numexpr >= 2.6.2}
BuildRequires: %{python_module numpy-devel >= 1.19}
BuildRequires: %{python_module packaging}
+BuildRequires: %{python_module pip}
+BuildRequires: %{python_module py-cpuinfo}
BuildRequires: %{python_module setuptools}
+BuildRequires: %{python_module wheel}
BuildRequires: blosc-devel >= 1.21.1
+BuildRequires: blosc2-devel
BuildRequires: fdupes
BuildRequires: gcc-c++
BuildRequires: hdf5-devel
BuildRequires: libbz2-devel
BuildRequires: lzo-devel
-BuildRequires: python-rpm-macros
-BuildRequires: python3-Sphinx >= 1.1
-BuildRequires: python3-jupyter_ipython
-BuildRequires: python3-numpydoc
-BuildRequires: python3-sphinx_rtd_theme
+%else
+# with test
+BuildRequires: %{python_module tables = %{version}}
+# usage of pkg_resources in tests
+BuildRequires: %{python_module setuptools}
+%endif
+Requires: python-Cython >= 0.29.21
Requires: python-numexpr >= 2.6.2
Requires: python-numpy >= 1.19
Requires: python-packaging
+Requires: python-py-cpuinfo
# boo#1196682
%requires_eq hdf5
Requires(post): update-alternatives
@@ -62,56 +106,37 @@
makes of it a fast, yet extremely easy to use tool for
interactively save and retrieve large amounts of data.
-%package -n %{name}-doc
-Summary: Documentation for %{name}
-Provides: %{python_module tables-doc = %{version}}
-
-%description -n %{name}-doc
-Documentation and help files for %{name}
-
%prep
%autosetup -p1 -n tables-%{version}
# make sure we use the system blosc
rm -r c-blosc
+# https://github.com/PyTables/PyTables/issues/1001
+rm tables/libblosc2.so
+%if !%{with test}
%build
export CFLAGS="%{optflags} -fno-strict-aliasing"
-# Never use SSE2 and AVX2 because obs buildbots might support it
-# but the target does not
-export DISABLE_SSE2=1
-export DISABLE_AVX2=1
-%python_build
+export PYTABLES_NO_EMBEDDED_LIBS=1
+%pyproject_wheel
+%endif
%install
-%python_install
+%if !%{with test}
+%pyproject_install
%python_clone -a %{buildroot}%{_bindir}/pttree
%python_clone -a %{buildroot}%{_bindir}/ptrepack
%python_clone -a %{buildroot}%{_bindir}/ptdump
%python_clone -a %{buildroot}%{_bindir}/pt2to3
-%{python_expand #
-rm %{buildroot}%{$python_sitearch}/tables/*.c
-rm %{buildroot}%{$python_sitearch}/tables/tests/*.c
-%fdupes %{buildroot}%{$python_sitearch}
-}
-
-pushd doc
-export PYTHONPATH=%{buildroot}%{python3_sitearch}
-make html
-rm build/html/.buildinfo
-popd
-# manual copy to buildroot so we can deduplicate
-mkdir -p %{buildroot}%{_docdir}/%{name}-doc/
-cp -r doc/build/html %{buildroot}%{_docdir}/%{name}-doc/
-cp -r examples %{buildroot}%{_docdir}/%{name}-doc/
-%fdupes %{buildroot}%{_docdir}/%{name}-doc/
+%python_expand %fdupes %{buildroot}%{$python_sitearch}
+%endif
+%if %{with test}
%check
pushd LICENSES
export VERBOSE=TRUE
-%{python_expand export PYTHONPATH=%{buildroot}%{$python_sitearch}
-$python -B -m tables.tests.test_all
-}
+%python_exec -B -m tables.tests.test_all
popd
+%endif
%post
%python_install_alternative pttree
@@ -125,6 +150,7 @@
%python_uninstall_alternative ptdump
%python_uninstall_alternative pt2to3
+%if !%{with test}
%files %{python_files}
%doc README.rst ANNOUNCE.txt THANKS
%license LICENSE.txt
@@ -134,11 +160,7 @@
%python_alternative %{_bindir}/ptrepack
%python_alternative %{_bindir}/pttree
%{python_sitearch}/tables/
-%{python_sitearch}/tables-%{version}*-info
-
-%files -n %{name}-doc
-%license LICENSE.txt
-%license LICENSES/*
-%doc %{_docdir}/%{name}-doc/
+%{python_sitearch}/tables-%{version}.dist-info
+%endif
%changelog
++++++ _multibuild ++++++
<multibuild>
<package>test-py38</package>
<package>test-py39</package>
<package>test-py310</package>
<package>test-py311</package>
</multibuild>
++++++ tables-3.7.0.tar.gz -> tables-3.8.0.tar.gz ++++++
/work/SRC/openSUSE:Factory/python-tables/tables-3.7.0.tar.gz
/work/SRC/openSUSE:Factory/.python-tables.new.31432/tables-3.8.0.tar.gz differ:
char 5, line 1
++++++ tables-pr1000-debundled-blosc2.patch ++++++
Index: tables-3.8.0/requirements.txt
===================================================================
--- tables-3.8.0.orig/requirements.txt
+++ tables-3.8.0/requirements.txt
@@ -4,8 +4,5 @@
cython>=0.29.21
numpy>=1.19.0
numexpr>=2.6.2
-# blosc2 wheel is actually only needed when compiling on conda envs.
-# Otherwise, lib comes bundled in PyTables wheels (but it doesn't hurt either).
-blosc2~=2.0.0
packaging
py-cpuinfo
Index: tables-3.8.0/setup.py
===================================================================
--- tables-3.8.0.orig/setup.py
+++ tables-3.8.0/setup.py
@@ -109,7 +109,27 @@ def get_blosc2_version(headername):
def get_blosc2_directories():
- """Get Blosc2 directories for the C library by using wheel metadata"""
+ """Get Blosc2 directories for the C library"""
+ # If the system provides the library and headers,
+ # get them from environment variables or find by pkg-config
+ try:
+ include_path = Path(os.environ.get(
+ "BLOSC2_INCDIR",
+ subprocess.check_output(
+ [PKG_CONFIG, '--variable=includedir', 'blosc2'],
+ text=True).strip()))
+ library_path = Path(os.environ.get(
+ "BLOSC2_LIBDIR",
+ subprocess.check_output(
+ [PKG_CONFIG, '--variable=libdir', 'blosc2'],
+ text=True).strip()))
+ except CalledProcessError:
+ pass
+ else:
+ return include_path, library_path
+
+ # Otherwise get them from the PyPI published wheels for blosc2
+ # They package the library and headers directly
try:
import blosc2
except ModuleNotFoundError:
Index: tables-3.8.0/tables/__init__.py
===================================================================
--- tables-3.8.0.orig/tables/__init__.py
+++ tables-3.8.0/tables/__init__.py
@@ -8,20 +8,23 @@ to efficiently cope with extremely large
"""
import os
from ctypes import cdll
+from ctypes.util import find_library
import platform
# Load the blosc2 library, and if not found in standard locations,
# try this directory (it should be automatically copied in setup.py).
-current_dir = os.path.dirname(__file__)
-platform_system = platform.system()
-blosc2_lib = "libblosc2"
-if platform_system == "Linux":
- blosc2_lib += ".so"
-elif platform_system == "Darwin":
- blosc2_lib += ".dylib"
-else:
- blosc2_lib += ".dll"
+blosc2_lib = find_library("blosc2")
+if blosc2_lib is None:
+ current_dir = os.path.dirname(__file__)
+ platform_system = platform.system()
+ blosc2_lib = "libblosc2"
+ if platform_system == "Linux":
+ blosc2_lib += ".so"
+ elif platform_system == "Darwin":
+ blosc2_lib += ".dylib"
+ else:
+ blosc2_lib += ".dll"
try:
cdll.LoadLibrary(blosc2_lib)
except OSError:
Index: tables-3.8.0/tables/req_versions.py
===================================================================
--- tables-3.8.0.orig/tables/req_versions.py
+++ tables-3.8.0/tables/req_versions.py
@@ -3,12 +3,13 @@
from packaging.version import Version
# **********************************************************************
-# Keep these in sync with setup.cfg and user's guide
+# Keep these in sync with requirements.txt and user's guide
# **********************************************************************
# Minimum recommended versions for mandatory packages
-min_numpy_version = Version('1.9.3')
+min_numpy_version = Version('1.19.0')
min_numexpr_version = Version('2.6.2')
+# These are library versions, not the python modules
min_hdf5_version = Version('1.10.5')
min_blosc_version = Version('1.11.1')
min_blosc2_version = Version('2.5.0')
