294 lines
8.7 KiB
RPMSpec
294 lines
8.7 KiB
RPMSpec
%global debug_package %{nil}
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%global middle_release 0
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%bcond_without check
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%bcond_without test_api
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%bcond_without test_header
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%bcond_without benchmark
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# Documentation needs external online `cppreference-doc/releases/download/v20220201/html-book-20220201.tar.xz`
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%bcond_with doc
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# SeqAn3 aims to support any 64-bit architecture running Linux/POSIX;
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# currently big-endian CPU architectures like s390x are less supported.
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ExclusiveArch: %{power64} x86_64 aarch64
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%if 0%{?middle_release}
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%global commit 8c604d98e0d291bc3909ecbad78ca778b3ad5a5c
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%global date .20230403git
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%global shortcommit %(c=%{commit}; echo ${c:0:8})
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%else
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%global commit %{nil}
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%global date %{nil}
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%global shortcommit %{nil}
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%endif
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Name: seqan3
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Summary: The modern C++ library for sequence analysis
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Version: 3.3.0
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Release: 0.6.rc2%{date}%{shortcommit}%{?dist}
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License: BSD
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URL: http://www.seqan.de/
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# Source code archive generated by:
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# git clone -b 3.3.0 --depth 1 --single-branch --progress --recursive https://github.com/seqan/seqan3.git
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# find seqan3 -name '.git*' -exec rm -rf {} ';'
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# find seqan3 -name '.git*' -exec rm -f {} ';'
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# tar -czvf seqan3-%%{version}.tar.gz seqan3
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%if 0%{?middle_release}
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Source0: https://github.com/seqan/%{name}/archive/%{commit}/%{name}-%{commit}.tar.gz
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%else
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Source0: https://github.com/seqan/%{name}/archive/%{version}-rc.1/%{name}-%{version}-rc.2.tar.gz
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%endif
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BuildRequires: gcc, gcc-c++, dos2unix
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BuildRequires: ccache
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BuildRequires: cmake >= 3.4
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BuildRequires: cereal-devel >= 1.3.2
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BuildRequires: sdsl-lite-devel >= 3.0.1
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BuildRequires: make
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BuildRequires: zlib-devel >= 1.2
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BuildRequires: bzip2-devel >= 1.0
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BuildRequires: range-v3-devel >= 0.11.0
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BuildRequires: coin-or-lemon-devel
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%if %{with check}
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BuildRequires: google-benchmark-devel
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BuildRequires: gtest-devel >= 1.10.0
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%endif
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%if %{with doc}
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BuildRequires: texlive-newunicodechar
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BuildRequires: doxygen >= 1.9.4
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%endif
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# Patches for unbundling libraries and fix some errors
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Patch0: %{name}-unbundle_benchmark.patch
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Patch1: %{name}-unbundle_sdsl.patch
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%description
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SeqAn3 is the new version of the popular SeqAn template
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library for the analysis of biological sequences.
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It enables the rapid development of high-performance
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solutions by providing generic algorithms and
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data structures for:
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- sequence representation and transformation
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- full-text indexing and efficient search
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- sequence alignment
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- input/output of common file formats
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%package devel
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Summary: SeqAn3 header only files
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Requires: cmake%{?_isa} >= 3.4
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Requires: cereal-devel%{?_isa} >= 1.3.2
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Requires: sdsl-lite-devel%{?_isa} >= 3.0.1
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Requires: zlib-devel%{?_isa} >= 1.2
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Requires: bzip2-devel%{?_isa} >= 1.0
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Requires: range-v3-devel%{?_isa} >= 0.11.0
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%description devel
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C++ headers files of SeqAn3, including CMake configuration files.
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%package doc
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Summary: SeqAn3 documentation
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BuildArch: noarch
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%description doc
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SeqAn3 documentation.
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%prep
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%autosetup -n %{name}-%{version}-rc.2 -N
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dos2unix test/cmake/seqan3_require_benchmark.cmake
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%patch 0 -p1 -b .backup
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%patch 1 -p1 -b .backup
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# Unbundle libraries already available in Fedora
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rm -rf submodules/cereal
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rm -rf submodules/range-v3
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rm -rf submodules/sdsl-lite
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# Fix file permissions
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find . -type f -name "*.hpp" -exec chmod 0644 '{}' \;
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%build
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%if %{with check}
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%if %{with test_api}
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mkdir -p build
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export CXXFLAGS="%{build_cxxflags} -std=c++20"
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%cmake -S test/unit -B build -DCMAKE_BUILD_TYPE=Release \
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-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
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-DSEQAN3_CEREAL:BOOL=ON \
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-DSEQAN3_LEMON:BOOL=ON \
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-DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON
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%define _vpath_builddir build
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%cmake_build
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%endif
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%if %{with test_header}
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mkdir -p build-header
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export CXXFLAGS="%{build_cxxflags} -std=c++20"
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%cmake -S test/header -B build-header -DCMAKE_BUILD_TYPE=Release \
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-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
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-DSEQAN3_CEREAL:BOOL=ON \
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-DSEQAN3_LEMON:BOOL=ON \
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-DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON
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%define _vpath_builddir build-header
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%cmake_build
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%endif
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%if %{with benchmark}
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mkdir -p build-performance
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export CXXFLAGS="%{build_cxxflags} -std=c++20"
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%cmake -S test/performance -B build-performance -DCMAKE_BUILD_TYPE=Release \
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-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
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-DSEQAN3_CEREAL:BOOL=ON \
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-DSEQAN3_LEMON:BOOL=ON \
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-DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON
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%define _vpath_builddir build-performance
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%cmake_build
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%endif
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%endif
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%if %{with doc}
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mkdir -p build-doc
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%cmake -S test/documentation -B build-doc -DCMAKE_BUILD_TYPE=Release
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%define _vpath_builddir build-doc
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%cmake_build -- -j1
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%endif
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%install
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mkdir -p %{buildroot}%{_libdir}/cmake/%{name}
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cp -a include %{buildroot}%{_prefix}/
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install -pm 644 build_system/*.cmake %{buildroot}%{_libdir}/cmake/%{name}/
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%if %{with doc}
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mkdir -p build-doc
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%cmake -S test/documentation -B build-doc -DCMAKE_BUILD_TYPE=Release
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%define _vpath_builddir build-doc
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%cmake_install
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%endif
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%if %{with check}
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%check
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# Tests the API of the library
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%if %{with test_api}
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%define _vpath_builddir build
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%ctest
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%endif
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# Tests that every header includes all required headers and detects linkage issues
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%if %{with test_header}
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%define _vpath_builddir build-header
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%ctest
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%endif
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# Microbenchmarks
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%if %{with benchmark}
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%define _vpath_builddir build-performance
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%ctest
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%endif
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%endif
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%files devel
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%license LICENSE.md
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%doc README.md
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%{_includedir}/%{name}/
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%{_libdir}/cmake/%{name}/
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%if %{with doc}
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%files doc
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#%%doc build-doc/doc_usr/html
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%doc doc/*
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%license LICENSE.md
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%doc README.md
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%endif
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%changelog
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* Thu Aug 10 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.6.rc2
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- Pre-release 3.3.0 RC2
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* Tue Jul 18 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.5.rc1
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- Pre-release 3.3.0 RC1
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* Thu Apr 06 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.4.20230403git8c604d98
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- Pre-release 3.3.0 commit #8c604d98
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* Thu Mar 30 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.3.20230330git174255ee
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- Pre-release 3.3.0 commit #174255ee
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- Disable tests
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- Disable benchmarks
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* Sat Mar 25 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.2.20230119gitc5ec15bd
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- Pre-release 3.3.0 commit #c5ec15bd
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* Tue Jan 24 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.1.20230119git404affbf
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- Pre-release 3.3.0 commit #404affbf
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* Sat Jan 21 2023 Fedora Release Engineering <releng@fedoraproject.org> - 3.2.0-3
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_38_Mass_Rebuild
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* Sat Jul 23 2022 Fedora Release Engineering <releng@fedoraproject.org> - 3.2.0-2
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild
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* Sun Jun 26 2022 Antonio Trande <sagitter@fedoraproject.org> - 3.2.0-1
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- Release 3.2.0
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* Wed Jun 15 2022 Antonio Trande <sagitter@fedoraproject.org> - 3.2.0-0.1.rc1.20220615git1148ce10
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- Pre-release 3.2.0
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- Enable tests
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* Sat Feb 05 2022 Fedora Release Engineering <releng@fedoraproject.org> - 3.1.0-3
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild
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- Patched for GCC-12
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* Mon Jan 17 2022 Kevin Fenzi <kevin@scrye.com> - 3.1.0-2
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- Rebuild for hiredis 1.0.2
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* Fri Nov 26 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.1.0-1
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- Release 3.1.0
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* Sun Sep 05 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.1.0-0.2.20210809git4604f1b2
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- Rebuild for gtest-1.11.0
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* Mon Aug 09 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.1.0-0.1.20210809git4604f1b2
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- Pre-release 3.1.0
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* Fri Jul 23 2021 Fedora Release Engineering <releng@fedoraproject.org> - 3.0.3-2
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild
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* Fri May 28 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.0.3-1
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- Release 3.0.3
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* Wed May 26 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.0.3-0.1.rc1
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- Pre-release 3.0.3-rc1
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* Sun Feb 14 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-7
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- Disable tests with GCC-11 (rhbz#1923593)
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_34_Mass_Rebuild
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* Fri Dec 11 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-6
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- Rebuild for GCC-11
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* Tue Nov 03 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-5
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- Bundle sdsl header files
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* Sat Oct 17 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-4
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- Remove old License file from bundled libraries
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- Redefine vpath builddir
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* Fri Oct 16 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-3
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- Fix Requires packages
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* Wed Oct 14 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-2
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- Use -std=c++2a flag
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- Patched for upstream bugs #2209 #2210
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* Tue Oct 13 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-1
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- Release 3.0.2
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* Fri Aug 07 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-0.2.20200806gitbf04354
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- Pre-release 3.0.2 with bundled range-v3
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* Thu Aug 06 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-0.1.20200806gitbf04354
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- Pre-release 3.0.2
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* Thu Mar 05 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.1-1
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- Execute header/performance tests
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- Build docs
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- First package
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