5db72db7fa
For best results (quality and running time), the authors advice to use RTGtools vcfeval as the engine. Depends on #230394
51 lines
1.8 KiB
Diff
51 lines
1.8 KiB
Diff
--- a/CMakeLists.txt 2023-02-01 23:55:18.171758209 +0100
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+++ b/CMakeLists.txt 2023-02-02 19:32:16.574426531 +0100
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@@ -23,25 +23,11 @@
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set (VCFEVAL_AVAILABLE 0)
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endif()
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-execute_process(
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- COMMAND ${CMAKE_SOURCE_DIR}/external/make_dependencies.sh
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- WORKING_DIRECTORY ${CMAKE_BINARY_DIR}
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- RESULT_VARIABLE EXTERNAL_SUCCESS)
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-if(NOT "${EXTERNAL_SUCCESS}" STREQUAL "0")
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- message(FATAL_ERROR "Building external dependencies has failed")
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-endif()
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-
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-set(Boost_USE_STATIC_LIBS ON) # only find static libs
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set(Boost_USE_MULTITHREADED ON)
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-set(Boost_USE_STATIC_RUNTIME ON)
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# un-break library finding
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-set(Boost_NO_BOOST_CMAKE ON)
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-set(Boost_NO_SYSTEM_PATHS ON)
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-set(BOOST_ROOT ${CMAKE_BINARY_DIR})
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-message("Using our own Boost, which was built at ${HAPLOTYPES_SOURCE_DIR}/external/boost_install")
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find_package(Boost 1.55.0 COMPONENTS thread iostreams regex unit_test_framework filesystem system program_options REQUIRED)
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include_directories(${Boost_INCLUDE_DIRS})
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@@ -51,7 +51,8 @@
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link_directories (${CMAKE_BINARY_DIR}/lib)
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# make sure we use the bundled zlib version
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-set(ZLIB_LIBRARIES ${CMAKE_BINARY_DIR}/lib/libz.a)
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+# Additional flags for nix, found by trial and error
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+set(ZLIB_LIBRARIES -lz -lbz2 -lcurl -lcrypto -llzma)
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include_directories (${HAPLOTYPES_SOURCE_DIR}/external/klib)
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include_directories (${HAPLOTYPES_SOURCE_DIR}/external/intervaltree)
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@@ -84,11 +86,6 @@
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${CMAKE_THREAD_LIBS_INIT})
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-execute_process(COMMAND git describe --tags --always
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- OUTPUT_VARIABLE HAPLOTYPES_VERSION
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- WORKING_DIRECTORY "${CMAKE_CURRENT_SOURCE_DIR}"
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- OUTPUT_STRIP_TRAILING_WHITESPACE
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-)
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configure_file("${CMAKE_CURRENT_SOURCE_DIR}/src/c++/include/Version.hh.in"
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"${CMAKE_BINARY_DIR}/include/Version.hh")
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