Rebuilt for https://fedoraproject.org/wiki/Fedora_45_Mass_Rebuild

Release 3.4.2
Release 3.4.0
2026-07-17 06:24:20 +00:00 · 2026-03-22 14:45:04 +01:00 · 2026-01-29 17:38:32 +01:00 · 2026-01-17 17:53:55 +00:00 · 2025-11-12 18:28:03 +01:00 · 2025-07-25 18:09:17 +00:00
8 changed files with 166 additions and 275 deletions
--- a/.gitignore
+++ b/.gitignore
@ -6,3 +6,12 @@
 /seqan3-3.2.0-rc1.tar.gz
 /seqan3-3.2.0.tar.gz
 /seqan3-404affbf6ee31aeda30ed9cc321b3700a50e5eae.tar.gz
+/seqan3-174255eea53d4847e7ce8cb0dc29415f177dc54d.tar.gz
+/seqan3-8c604d98e0d291bc3909ecbad78ca778b3ad5a5c.tar.gz
+/seqan3-3.3.0-rc.1.tar.gz
+/seqan3-3.3.0-rc.2.tar.gz
+/seqan3-3.4.0-rc.1.tar.gz
+/seqan3-3.4.0-rc.2.tar.gz
+/seqan3-3.4.0-rc.3.tar.gz
+/seqan3-3.4.0.tar.gz
+/seqan3-3.4.2.tar.gz
--- a/seqan3-3.4.0-disable_CPM.patch
+++ b/seqan3-3.4.0-disable_CPM.patch
@ -0,0 +1,80 @@
+--- a/cmake/seqan3-config.orig.cmake	2024-12-13 18:42:15.000000000 +0100
+++ b/cmake/seqan3-config.cmake	2025-01-19 21:13:45.692446573 +0100
+@@ -113,11 +113,7 @@
+ # ----------------------------------------------------------------------------
+ 
+ # This will be true for git clones and source packages, but not for installed packages.
+-if (EXISTS "${CMAKE_CURRENT_LIST_DIR}/CPM.cmake")
+-    set (SEQAN3_HAS_CPM TRUE)
+-else ()
+-    set (SEQAN3_HAS_CPM FALSE)
+-endif ()
+set (SEQAN3_HAS_CPM FALSE)
+ 
+ if (SEQAN3_HAS_CPM)
+     set (CPM_INDENT "  CMake Package Manager CPM: ")
+--- a/test/seqan3-test.orig.cmake	2024-12-13 18:42:15.000000000 +0100
+++ b/test/seqan3-test.cmake	2025-01-19 21:18:08.209434385 +0100
+@@ -27,10 +27,6 @@
+      "${CMAKE_CURRENT_LIST_DIR}/../cmake/"
+      CACHE STRING "Path to directory containing CPM.cmake.")
+ 
+-set (CPM_INDENT "CMake Package Manager CPM: ")
+-include ("${SEQAN3_TEST_CPM_DIR}/CPM.cmake")
+-CPMUsePackageLock ("${SEQAN3_TEST_CPM_DIR}/package-lock.cmake")
+-
+ include (CheckCXXCompilerFlag)
+ include (CheckCXXSourceCompiles)
+ include (CMakeDependentOption)
+@@ -51,7 +47,6 @@
+ cmake_dependent_option (SEQAN3_WITH_SEQAN2_CI "Build tests with SeqAn2." ON "DEFINED ENV{CI}" OFF)
+ 
+ if (SEQAN3_WITH_SEQAN2 OR SEQAN3_WITH_SEQAN2_CI)
+-    CPMGetPackage (seqan)
+     find_path (SEQAN3_SEQAN2_INCLUDE_DIR
+                NAMES seqan/version.h
+                HINTS "${seqan_SOURCE_DIR}/include")
+--- a/test/cmake/seqan3_require_ccache.orig.cmake	2024-12-13 18:42:15.000000000 +0100
+++ b/test/cmake/seqan3_require_ccache.cmake	2025-01-19 21:19:53.256828886 +0100
+@@ -4,4 +4,4 @@
+ 
+ # This file's only purpose is to be replaced with the content of the use_ccache CMakeLists.txt file
+ # when creating the source package.
+-CPMGetPackage (use_ccache)
+# CPMGetPackage (use_ccache)
+--- a/test/unit/CMakeLists.orig.txt	2024-12-13 18:42:15.000000000 +0100
+++ b/test/unit/CMakeLists.txt	2025-01-19 21:27:10.229117104 +0100
+@@ -8,7 +8,7 @@
+ include (../seqan3-test.cmake)
+ include (GoogleTest OPTIONAL)
+ 
+-CPMGetPackage (googletest)
+find_package(GTest REQUIRED)
+ 
+ include (diagnostics/list_missing_unit_tests)
+ include (diagnostics/list_unused_unit_tests)
+ 
+--- a/test/header/CMakeLists.orig.txt	2024-12-13 18:42:15.000000000 +0100
+++ b/test/header/CMakeLists.txt	2025-01-19 22:08:37.815744299 +0100
+@@ -7,8 +7,8 @@
+ 
+ include (../seqan3-test.cmake)
+ 
+-CPMGetPackage (googletest)
+-CPMGetPackage (benchmark)
+find_package(GTest REQUIRED)
+find_package(benchmark REQUIRED)
+ 
+ # We compile each header twice in separate compilation units, where the second compilation omits the header guard (check
+ # for cyclic includes). Each alone is sufficient to test that the header is functional, but both are needed to check for
+--- a/test/performance/CMakeLists.orig.txt	2024-12-13 18:42:15.000000000 +0100
+++ b/test/performance/CMakeLists.txt	2025-01-19 22:10:44.305669084 +0100
+@@ -7,7 +7,7 @@
+ 
+ include (../seqan3-test.cmake)
+ 
+-CPMGetPackage (benchmark)
+find_package(benchmark REQUIRED)
+ 
+ set (SEQAN3_BENCHMARK_MIN_TIME
+      "1s"
--- a/seqan3-fix_GCC15.patch
+++ b/seqan3-fix_GCC15.patch
@ -0,0 +1,20 @@
+--- a/test/unit/io/detail/misc_output_test.orig.cpp	2024-12-13 18:42:15.000000000 +0100
+++ b/test/unit/io/detail/misc_output_test.cpp	2025-01-20 21:58:35.651617085 +0100
+@@ -6,6 +6,7 @@
+ 
+ #include <fstream>
+ #include <vector>
+#include <functional>
+ 
+ #include <seqan3/core/debug_stream.hpp>
+ #include <seqan3/io/detail/misc_input.hpp>
+--- a/include/seqan3/io/detail/misc_input.orig.hpp	2024-12-13 18:42:15.000000000 +0100
+++ b/include/seqan3/io/detail/misc_input.hpp	2025-01-20 22:01:28.812235658 +0100
+@@ -17,6 +17,7 @@
+ #include <span>
+ #include <string>
+ #include <tuple>
+#include <functional>
+ 
+ #include <seqan3/contrib/stream/bgzf.hpp>
+ #include <seqan3/contrib/stream/bgzf_istream.hpp>
--- a/seqan3-unbundle_benchmark.patch
+++ b/seqan3-unbundle_benchmark.patch
@ -1,35 +0,0 @@
--- a/test/cmake/seqan3_require_benchmark.orig.cmake 2021-03-12 15:32:16.217895000 +0100
-+++ b/test/cmake/seqan3_require_benchmark.cmake      2021-03-12 15:33:34.694342382 +0100
-@@ -11,31 +11,5 @@
- # CMake 3.24: https://cmake.org/cmake/help/latest/module/FetchContent.html#variable:FETCHCONTENT_TRY_FIND_PACKAGE_MODE
- macro (seqan3_require_benchmark)
-     enable_testing ()
-
-    set (benchmark_version "1.7.0")
-    set (gbenchmark_git_tag "v${benchmark_version}")
-
-    find_package (benchmark ${benchmark_version} EXACT QUIET)
-
-    if (NOT benchmark_FOUND)
-        message (STATUS "Fetching Google Benchmark ${benchmark_version}")
-
-        include (FetchContent)
-        FetchContent_Declare (
-            gbenchmark_fetch_content
-            GIT_REPOSITORY "https://github.com/google/benchmark.git"
-            GIT_TAG "${gbenchmark_git_tag}")
-        option (BENCHMARK_ENABLE_TESTING "" OFF)
-        option (BENCHMARK_ENABLE_WERROR "" OFF) # Does not apply to Debug builds.
-        option (BENCHMARK_ENABLE_INSTALL "" OFF)
-        FetchContent_MakeAvailable (gbenchmark_fetch_content)
-    else ()
-        message (STATUS "Found Google Benchmark ${benchmark_version}")
-    endif ()
-
-    # NOTE: google benchmark's CMakeLists.txt already defines Shlwapi
-    if (NOT TARGET gbenchmark_build)
-        add_custom_target (gbenchmark_build DEPENDS benchmark_main benchmark)
-    endif ()
-
-+    find_package(benchmark REQUIRED)
- endmacro ()
--- a/seqan3-unbundle_gtest.patch
+++ b/seqan3-unbundle_gtest.patch
@ -1,89 +0,0 @@
--- a/test/cmake/seqan3_require_test.orig.cmake	2020-08-06 14:00:23.000000000 +0200
-+++ b/test/cmake/seqan3_require_test.cmake	2020-08-06 14:35:10.167198023 +0200
-@@ -7,85 +7,7 @@
- 
- cmake_minimum_required (VERSION 3.10)
- 
-# Exposes the google-test targets `gtest` and `gtest_main`.
-macro (seqan3_require_test_old gtest_git_tag)
-    set (SEQAN3_TEST_CLONE_DIR "${PROJECT_BINARY_DIR}/vendor/googletest")
-
-    # needed for add_library (seqan3::test::* INTERFACE IMPORTED)
-    # see cmake bug https://gitlab.kitware.com/cmake/cmake/issues/15052
-    file (MAKE_DIRECTORY ${SEQAN3_TEST_CLONE_DIR}/googletest/include/)
-
-    set (gtest_project_args ${SEQAN3_EXTERNAL_PROJECT_CMAKE_ARGS})
-    list (APPEND gtest_project_args "-DBUILD_GMOCK=0")
-
-    # force that libraries are installed to `lib/`, because GNUInstallDirs might install it into `lib64/`
-    list (APPEND gtest_project_args "-DCMAKE_INSTALL_LIBDIR=${PROJECT_BINARY_DIR}/lib/")
-
-    # google sets CMAKE_DEBUG_POSTFIX = "d"
-    set (gtest_main_path
-         "${PROJECT_BINARY_DIR}/lib/${CMAKE_STATIC_LIBRARY_PREFIX}gtest_main${CMAKE_STATIC_LIBRARY_SUFFIX}")
-    if (CMAKE_BUILD_TYPE STREQUAL "Debug")
-        set (gtest_main_path
-             "${PROJECT_BINARY_DIR}/lib/${CMAKE_STATIC_LIBRARY_PREFIX}gtest_maind${CMAKE_STATIC_LIBRARY_SUFFIX}")
-    endif ()
-
-    set (gtest_path "${PROJECT_BINARY_DIR}/lib/${CMAKE_STATIC_LIBRARY_PREFIX}gtest${CMAKE_STATIC_LIBRARY_SUFFIX}")
-    if (CMAKE_BUILD_TYPE STREQUAL "Debug")
-        set (gtest_path "${PROJECT_BINARY_DIR}/lib/${CMAKE_STATIC_LIBRARY_PREFIX}gtestd${CMAKE_STATIC_LIBRARY_SUFFIX}")
-    endif ()
-
-    include (ExternalProject)
-    ExternalProject_Add (
-        gtest_project
-        PREFIX gtest_project
-        GIT_REPOSITORY "https://github.com/google/googletest.git"
-        GIT_TAG "${gtest_git_tag}"
-        SOURCE_DIR "${SEQAN3_TEST_CLONE_DIR}"
-        CMAKE_ARGS "${gtest_project_args}"
-        BUILD_BYPRODUCTS "${gtest_main_path}" "${gtest_path}"
-        UPDATE_DISCONNECTED ${SEQAN3_TEST_BUILD_OFFLINE})
-    unset (gtest_project_args)
-
-    add_library (gtest_main STATIC IMPORTED)
-    add_dependencies (gtest_main gtest_project)
-    set_target_properties (gtest_main PROPERTIES IMPORTED_LOCATION "${gtest_main_path}")
-
-    add_library (gtest STATIC IMPORTED)
-    add_dependencies (gtest gtest_project)
-    set_target_properties (gtest PROPERTIES IMPORTED_LOCATION "${gtest_path}")
-    set_property (TARGET gtest
-                  APPEND
-                  PROPERTY INTERFACE_LINK_LIBRARIES "pthread")
-    set_property (TARGET gtest
-                  APPEND
-                  PROPERTY INTERFACE_INCLUDE_DIRECTORIES "${SEQAN3_TEST_CLONE_DIR}/googletest/include/")
-
-    unset (gtest_main_path)
-    unset (gtest_path)
-endmacro ()
-
- macro (seqan3_require_test)
-     enable_testing ()
-
-    set (gtest_git_tag "release-1.11.0")
-
-    if (NOT CMAKE_VERSION VERSION_LESS 3.14)
-        message (STATUS "Fetch Google Test:")
-
-        include (FetchContent)
-        FetchContent_Declare (
-            gtest_fetch_content
-            GIT_REPOSITORY "https://github.com/google/googletest.git"
-            GIT_TAG "${gtest_git_tag}")
-        option (BUILD_GMOCK "" OFF)
-        FetchContent_MakeAvailable (gtest_fetch_content)
-    else ()
-        message (STATUS "Use Google Test as external project:")
-
-        seqan3_require_test_old ("${gtest_git_tag}")
-    endif ()
-
-    if (NOT TARGET gtest_build)
-        add_custom_target (gtest_build DEPENDS gtest_main gtest)
-    endif ()
-+    find_package(GTest REQUIRED)
- endmacro ()
--- a/seqan3-unbundle_sdsl.patch
+++ b/seqan3-unbundle_sdsl.patch
@ -1,38 +0,0 @@
--- a/build_system/seqan3-config.orig.cmake	2023-01-19 15:14:00.000000000 +0100
-+++ b/build_system/seqan3-config.cmake	2023-01-25 21:08:55.816191959 +0100
-@@ -122,9 +122,7 @@
- # Note that seqan3-config.cmake can be standalone and thus SEQAN3_CLONE_DIR might be empty.
- # * `SEQAN3_CLONE_DIR` was already found in seqan3-config-version.cmake
- # * `SEQAN3_INCLUDE_DIR` was already found in seqan3-config-version.cmake
-find_path (SEQAN3_SUBMODULES_DIR
-           NAMES submodules/sdsl-lite
-           HINTS "${SEQAN3_CLONE_DIR}" "${SEQAN3_INCLUDE_DIR}/seqan3")
-+find_path (HINTS "${SEQAN3_CLONE_DIR}" "${SEQAN3_INCLUDE_DIR}/seqan3" "${CMAKE_INSTALL_PREFIX}/include/sdsl")
- 
- if (SEQAN3_INCLUDE_DIR)
-     seqan3_config_print ("SeqAn3 include dir found:   ${SEQAN3_INCLUDE_DIR}")
-@@ -133,24 +131,6 @@
- endif ()
- 
- # ----------------------------------------------------------------------------
-# Detect if we are a clone of repository and if yes auto-add submodules
-# ----------------------------------------------------------------------------
-
-if (SEQAN3_CLONE_DIR)
-    seqan3_config_print ("Detected as running from a repository checkout…")
-endif ()
-
-if (SEQAN3_SUBMODULES_DIR)
-    file (GLOB submodules ${SEQAN3_SUBMODULES_DIR}/submodules/*/include)
-    foreach (submodule ${submodules})
-        if (IS_DIRECTORY ${submodule})
-            seqan3_config_print ("  …adding submodule include:  ${submodule}")
-            set (SEQAN3_DEPENDENCY_INCLUDE_DIRS ${submodule} ${SEQAN3_DEPENDENCY_INCLUDE_DIRS})
-        endif ()
-    endforeach ()
-endif ()
-
-# ----------------------------------------------------------------------------
- # Options for CheckCXXSourceCompiles
- # ----------------------------------------------------------------------------
- 
--- a/seqan3.spec
+++ b/seqan3.spec
@ -1,19 +1,20 @@
 %global debug_package %{nil}
-%global middle_release 1
+%global middle_release 0

 %bcond_without check
 %bcond_without test_api
 %bcond_without test_header
 %bcond_without benchmark
-%bcond_without doc
+# Documentation needs external online `cppreference-doc/releases/download/v20220201/html-book-20220201.tar.xz`
+%bcond_with doc

 # SeqAn3 aims to support any 64-bit architecture running Linux/POSIX;
 # currently big-endian CPU architectures like s390x are less supported.
 ExclusiveArch: %{power64} x86_64 aarch64

 %if 0%{?middle_release}
-%global  commit      404affbf6ee31aeda30ed9cc321b3700a50e5eae
-%global  date        .20230119git
+%global  commit      8c604d98e0d291bc3909ecbad78ca778b3ad5a5c
+%global  date        .20230403git
 %global  shortcommit %(c=%{commit}; echo ${c:0:8})
 %else
 %global  commit      %{nil}
@ -23,12 +24,12 @@ ExclusiveArch: %{power64} x86_64 aarch64

 Name:      seqan3
 Summary:   The modern C++ library for sequence analysis
-Version:   3.3.0
-Release:   0.1%{date}%{shortcommit}%{?dist}
-License:   BSD
-URL:       http://www.seqan.de/
+Version:   3.4.2
+Release:   %autorelease
+License:   BSD-3-Clause
+URL:       https://www.seqan.de/
 # Source code archive generated by:
-# git clone -b 3.2.0 --depth 1 --single-branch --progress --recursive https://github.com/seqan/seqan3.git
+# git clone -b 3.3.0 --depth 1 --single-branch --progress --recursive https://github.com/seqan/seqan3.git
 # find seqan3 -name '.git*' -exec  rm -rf {} ';'
 # find seqan3 -name '.git*' -exec  rm -f {} ';'
 # tar -czvf seqan3-%%{version}.tar.gz seqan3
@ -38,7 +39,8 @@ Source0:   https://github.com/seqan/%{name}/archive/%{commit}/%{name}-%{commit}.
 Source0:   https://github.com/seqan/%{name}/archive/%{version}/%{name}-%{version}.tar.gz
 %endif

-BuildRequires: gcc, gcc-c++, dos2unix
+BuildRequires: gcc
+BuildRequires: gcc-c++
 BuildRequires: ccache
 BuildRequires: cmake >= 3.4
 BuildRequires: cereal-devel >= 1.3.2
@ -47,7 +49,6 @@ BuildRequires: make
 BuildRequires: zlib-devel >= 1.2
 BuildRequires: bzip2-devel >= 1.0
 BuildRequires: range-v3-devel >= 0.11.0
-BuildRequires: coin-or-lemon-devel
 %if %{with check}
 BuildRequires: google-benchmark-devel
 BuildRequires: gtest-devel >= 1.10.0
@ -56,12 +57,10 @@ BuildRequires: gtest-devel >= 1.10.0
 BuildRequires: texlive-newunicodechar
 BuildRequires: doxygen >= 1.9.4
 %endif
-
-# Patches for unbundling libraries and fix some errors
-Patch0: %{name}-unbundle_benchmark.patch
-Patch1: %{name}-unbundle_gtest.patch
-Patch2: %{name}-unbundle_sdsl.patch
-
+# Use Fedora's CMake only
+Patch1: %{name}-3.4.0-disable_CPM.patch
+# Include missing header files
+Patch2: %{name}-fix_GCC15.patch
 %description
 SeqAn3 is the new version of the popular SeqAn template
 library for the analysis of biological sequences.
@ -76,13 +75,16 @@ data structures for:

 %package devel
 Summary: SeqAn3 header only files
+# bzip2stream and zipstream libraries are distributed under zlib/libpng
+License:  BSD-3-Clause AND Zlib
 Requires: cmake%{?_isa} >= 3.4
 Requires: cereal-devel%{?_isa} >= 1.3.2
 Requires: sdsl-lite-devel%{?_isa} >= 3.0.1
 Requires: zlib-devel%{?_isa} >= 1.2
 Requires: bzip2-devel%{?_isa} >= 1.0
 Requires: range-v3-devel%{?_isa} >= 0.11.0
-
+Provides: bundled(bzip2stream)
+Provides: bundled(zipstream)
 %description devel
 C++ headers files of SeqAn3, including CMake configuration files.

@ -93,12 +95,10 @@ BuildArch: noarch
 SeqAn3 documentation.

 %prep
-%autosetup -n %{name}-%{commit} -N
+%autosetup -n %{name}-%{version} -N

-dos2unix test/cmake/seqan3_require_benchmark.cmake
-%patch0 -p1 -b .backup
-#patch1 -p1 -b .backup
-%patch2 -p1 -b .backup
+%patch 1 -p1 -b .backup
+%patch 2 -p1 -b .backup

 # Unbundle libraries already available in Fedora
 rm -rf submodules/cereal
@ -112,53 +112,71 @@ find . -type f -name "*.hpp" -exec chmod 0644 '{}' \;
 %if %{with check}
 %if %{with test_api}
 mkdir -p build
-export CXXFLAGS="%{build_cxxflags} -std=c++20"
+export CXXFLAGS="%{build_cxxflags} -std=c++23"
 %cmake -S test/unit -B build -DCMAKE_BUILD_TYPE=Release \
+ -DCPM_USE_LOCAL_PACKAGES:BOOL=OFF -DCPM_LOCAL_PACKAGES_ONLY:BOOL=OFF \
+ -DCPM_DONT_UPDATE_MODULE_PATH:BOOL=ON -DCPM_DONT_CREATE_PACKAGE_LOCK:BOOL=ON \
 -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
 -DSEQAN3_CEREAL:BOOL=ON \
- -DSEQAN3_LEMON:BOOL=ON \
- -DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON
+ -DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON -DFETCHCONTENT_FULLY_DISCONNECTED:BOOL=ON \
+ -DFETCHCONTENT_UPDATES_DISCONNECTED:BOOL=ON \
+ -DSEQAN3_NO_ZLIB=OFF

 %define _vpath_builddir build
 %cmake_build
 %endif
 %if %{with test_header}
 mkdir -p build-header
-export CXXFLAGS="%{build_cxxflags} -std=c++20"
+export CXXFLAGS="%{build_cxxflags} -std=c++23"
 %cmake -S test/header -B build-header -DCMAKE_BUILD_TYPE=Release \
+ -DCPM_USE_LOCAL_PACKAGES:BOOL=OFF -DCPM_LOCAL_PACKAGES_ONLY:BOOL=OFF \
+ -DCPM_DONT_UPDATE_MODULE_PATH:BOOL=ON -DCPM_DONT_CREATE_PACKAGE_LOCK:BOOL=ON \
 -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
 -DSEQAN3_CEREAL:BOOL=ON \
- -DSEQAN3_LEMON:BOOL=ON \
- -DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON
+ -DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON -DFETCHCONTENT_FULLY_DISCONNECTED:BOOL=ON \
+ -DFETCHCONTENT_UPDATES_DISCONNECTED:BOOL=ON \
+ -DSEQAN3_NO_ZLIB=OFF

 %define _vpath_builddir build-header
 %cmake_build
 %endif
 %if %{with benchmark}
 mkdir -p build-performance
-export CXXFLAGS="%{build_cxxflags} -std=c++20"
+export CXXFLAGS="%{build_cxxflags} -std=c++23"
 %cmake -S test/performance -B build-performance -DCMAKE_BUILD_TYPE=Release \
+ -DCPM_USE_LOCAL_PACKAGES:BOOL=OFF -DCPM_LOCAL_PACKAGES_ONLY:BOOL=OFF \
+ -DCPM_DONT_UPDATE_MODULE_PATH:BOOL=ON -DCPM_DONT_CREATE_PACKAGE_LOCK:BOOL=ON \
 -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
 -DSEQAN3_CEREAL:BOOL=ON \
- -DSEQAN3_LEMON:BOOL=ON \
- -DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON
+ -DSEQAN3_TEST_BUILD_OFFLINE:BOOL=ON -DFETCHCONTENT_FULLY_DISCONNECTED:BOOL=ON \
+ -DFETCHCONTENT_UPDATES_DISCONNECTED:BOOL=ON \
+ -DSEQAN3_NO_ZLIB=OFF

 %define _vpath_builddir build-performance
 %cmake_build
 %endif
 %endif
 %if %{with doc}
-# This command needs to download a 'cppreference-doxygen-web.tag.xml' file
-#mkdir -p build-doc
-#%%cmake -S test/documentation -B build-doc -DCMAKE_BUILD_TYPE=Release 
-#make -j1 -C build-doc
+mkdir -p build-doc
+%cmake -S test/documentation -B build-doc -DCMAKE_BUILD_TYPE=Release
+%define _vpath_builddir build-doc
+%cmake_build -- -j1
 %endif

 %install
 mkdir -p %{buildroot}%{_libdir}/cmake/%{name}
 cp -a include %{buildroot}%{_prefix}/
+rm %{buildroot}%{_includedir}/%{name}/contrib/std/.{clang-format,gitignore}

-install -pm 644 build_system/*.cmake %{buildroot}%{_libdir}/cmake/%{name}/
+install -pm 644 cmake/seqan3-config-version.cmake %{buildroot}%{_libdir}/cmake/%{name}/
+install -pm 644 cmake/seqan3-config.cmake %{buildroot}%{_libdir}/cmake/%{name}/
+
+%if %{with doc}
+mkdir -p build-doc
+%cmake -S test/documentation -B build-doc -DCMAKE_BUILD_TYPE=Release
+%define _vpath_builddir build-doc
+%cmake_install
+%endif

 %if %{with check}
 %check
@ -194,78 +212,4 @@ install -pm 644 build_system/*.cmake %{buildroot}%{_libdir}/cmake/%{name}/
 %endif

 %changelog
-* Tue Jan 24 2023 Antonio Trande <sagitter@fedoraproject.org> - 3.3.0-0.1.20230119git404affbf
- Pre-release 3.3.0 commit #404affbf
-
-* Sat Jan 21 2023 Fedora Release Engineering <releng@fedoraproject.org> - 3.2.0-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_38_Mass_Rebuild
-
-* Sat Jul 23 2022 Fedora Release Engineering <releng@fedoraproject.org> - 3.2.0-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild
-
-* Sun Jun 26 2022 Antonio Trande <sagitter@fedoraproject.org> - 3.2.0-1
- Release 3.2.0
-
-* Wed Jun 15 2022 Antonio Trande <sagitter@fedoraproject.org> - 3.2.0-0.1.rc1.20220615git1148ce10
- Pre-release 3.2.0
- Enable tests
-
-* Sat Feb 05 2022 Fedora Release Engineering <releng@fedoraproject.org> - 3.1.0-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild
- Patched for GCC-12
-
-* Mon Jan 17 2022 Kevin Fenzi <kevin@scrye.com> - 3.1.0-2
- Rebuild for hiredis 1.0.2
-
-* Fri Nov 26 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.1.0-1
- Release 3.1.0
-
-* Sun Sep 05 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.1.0-0.2.20210809git4604f1b2
- Rebuild for gtest-1.11.0
-
-* Mon Aug 09 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.1.0-0.1.20210809git4604f1b2
- Pre-release 3.1.0
-
-* Fri Jul 23 2021 Fedora Release Engineering <releng@fedoraproject.org> - 3.0.3-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild
-
-* Fri May 28 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.0.3-1
- Release 3.0.3
-
-* Wed May 26 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.0.3-0.1.rc1
- Pre-release 3.0.3-rc1
-
-* Sun Feb 14 2021 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-7
- Disable tests with GCC-11 (rhbz#1923593)
- Rebuilt for https://fedoraproject.org/wiki/Fedora_34_Mass_Rebuild
-
-* Fri Dec 11 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-6
- Rebuild for GCC-11
-
-* Tue Nov 03 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-5
- Bundle sdsl header files
-
-* Sat Oct 17 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-4
- Remove old License file from bundled libraries
- Redefine vpath builddir
-
-* Fri Oct 16 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-3
- Fix Requires packages
-
-* Wed Oct 14 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-2
- Use -std=c++2a flag
- Patched for upstream bugs #2209 #2210
-
-* Tue Oct 13 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-1
- Release 3.0.2
-
-* Fri Aug 07 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-0.2.20200806gitbf04354
- Pre-release 3.0.2 with bundled range-v3
-
-* Thu Aug 06 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.2-0.1.20200806gitbf04354
- Pre-release 3.0.2
-
-* Thu Mar 05 2020 Antonio Trande <sagitter@fedoraproject.org> - 3.0.1-1
- Execute header/performance tests
- Build docs
- First package
+%autochangelog
--- a/2
+++ b/2
@ -1 +1 @@
-SHA512 (seqan3-404affbf6ee31aeda30ed9cc321b3700a50e5eae.tar.gz) = fdc8d3d4ad42920564197041ca67b60e14af34087c0878cce6c1166993bf6bf05ea5c50f45fd905ffb887577e0d068aa525c035b72ce9bff4d1bd3901b5b98a3
+SHA512 (seqan3-3.4.2.tar.gz) = 6337bb3d49406e89e277ab4b9e751f6b2a0524c32c7aecf2093b795863870c2337bb1df1c798791aee82325cb3f0b19ecb57e109d73db847e6fe6a2a033bbaae
Author	SHA1	Message	Date
Fedora Release Engineering	77bbc590f1	Rebuilt for https://fedoraproject.org/wiki/Fedora_45_Mass_Rebuild	2026-07-17 06:24:20 +00:00
Antonio Trande	8b2ed55118	Release 3.4.2	2026-03-22 14:45:04 +01:00
Antonio Trande	9b4f52ac01	Release 3.4.0	2026-01-29 17:38:32 +01:00
Fedora Release Engineering	1870e689e7	Rebuilt for https://fedoraproject.org/wiki/Fedora_44_Mass_Rebuild	2026-01-17 17:53:55 +00:00
Cristian Le	9668b05564	Allow to build with CMake 4.0 (rhbz#2380806)	2025-11-12 18:28:03 +01:00
Fedora Release Engineering	1a83dc7de4	Rebuilt for https://fedoraproject.org/wiki/Fedora_43_Mass_Rebuild	2025-07-25 18:09:17 +00:00
Antonio Trande	28f80a711a	Fix GCC-15 false warnings\| Fix rhbz#2381124	2025-07-20 17:37:20 +02:00
Antonio Trande	87106fb6b5	Pre-release 3.4.0 RC3	2025-02-05 20:14:42 +01:00
Antonio Trande	2972e8fbc2	Pre-release 3.4.0 RC2	2025-01-20 23:10:21 +01:00
Fedora Release Engineering	6603f13508	Rebuilt for https://fedoraproject.org/wiki/Fedora_42_Mass_Rebuild	2025-01-19 10:25:16 +00:00
Fedora Release Engineering	b787d6a713	Rebuilt for https://fedoraproject.org/wiki/Fedora_41_Mass_Rebuild	2024-07-20 05:15:41 +00:00
Jerry James	674b69b5d5	Pre-release 3.4.0 RC1 - Remove unused dependency on coin-or-lemon - Convert License field to SPDX - Note that the devel package bundles zipstream and bzip2stream - Note that the devel package needs zlib-devel and bzip2-devel	2024-01-30 16:24:56 -07:00
Fedora Release Engineering	80764c26ad	Rebuilt for https://fedoraproject.org/wiki/Fedora_40_Mass_Rebuild	2024-01-27 02:35:57 +00:00
Antonio Trande	cf3067c970	Pre-release 3.3.0 RC2	2023-08-10 12:37:42 +02:00
Antonio Trande	1752ba8f31	Pre-release 3.3.0 RC1	2023-07-19 21:51:25 +02:00
Antonio Trande	0274cdefc5	Pre-release 3.3.0 commit #8c604d98	2023-04-06 20:46:38 +02:00
Antonio Trande	287d224bc6	Pre-release 3.3.0 commit #174255ee	2023-03-31 20:47:11 +02:00