2023-10-23 23:07:00 +08:00
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# 生成程序的位置
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SET(EXECUTABLE_OUTPUT_PATH "${PROJECT_BINARY_DIR}/bin")
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# 源码目录
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AUX_SOURCE_DIRECTORY(${PROJECT_SOURCE_DIR}/src MAIN_SRC)
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2023-11-01 10:48:02 +08:00
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AUX_SOURCE_DIRECTORY(${PROJECT_SOURCE_DIR}/src/common COMMON)
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2023-11-06 12:38:30 +08:00
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AUX_SOURCE_DIRECTORY(${PROJECT_SOURCE_DIR}/src/common/utils UTILS)
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AUX_SOURCE_DIRECTORY(${PROJECT_SOURCE_DIR}/src/common/hts HTS)
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2023-10-23 23:07:00 +08:00
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AUX_SOURCE_DIRECTORY(${PROJECT_SOURCE_DIR}/src/sam SAM_SRC)
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AUX_SOURCE_DIRECTORY(${PROJECT_SOURCE_DIR}/src/sam/markdups SAM_MARKDUPS_SRC)
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# 头文件目录
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INCLUDE_DIRECTORIES("${PROJECT_SOURCE_DIR}/src")
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INCLUDE_DIRECTORIES("${PROJECT_SOURCE_DIR}/lib")
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INCLUDE_DIRECTORIES("${PROJECT_SOURCE_DIR}/lib/htslib")
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# 链接库位置
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LINK_DIRECTORIES("${PROJECT_SOURCE_DIR}/lib/htslib")
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# 编译生成的程序名称
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set(PG_NAME "picard_cpp")
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# 为程序添加依赖关系
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2023-11-06 12:38:30 +08:00
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ADD_EXECUTABLE(${PG_NAME} ${MAIN_SRC} ${COMMON} ${UTILS} ${HTS}
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${SAM_SRC} ${SAM_MARKDUPS_SRC})
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2023-10-23 23:07:00 +08:00
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# 链接库
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TARGET_LINK_LIBRARIES(${PG_NAME} libhts.a)
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# 检测系统是否包含必需的库
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2023-11-06 12:38:30 +08:00
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# pthread库
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2023-10-23 23:07:00 +08:00
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find_package(Threads REQUIRED)
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if(THREADS_HAVE_PTHREAD_ARG)
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set_property(TARGET ${PG_NAME} PROPERTY COMPILE_OPTIONS "-pthread")
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set_property(TARGET ${PG_NAME} PROPERTY INTERFACE_COMPILE_OPTIONS "-pthread")
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endif()
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if(CMAKE_THREAD_LIBS_INIT)
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TARGET_LINK_LIBRARIES(${PG_NAME} "${CMAKE_THREAD_LIBS_INIT}")
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2023-11-06 12:38:30 +08:00
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endif()
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# bzip2库
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find_package(BZip2 REQUIRED)
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if(BZip2_FOUND)
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INCLUDE_DIRECTORIES(${BZIP2_INCLUDE_DIR})
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TARGET_LINK_LIBRARIES(${PG_NAME} ${BZIP2_LIBRARIES})
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endif()
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#openmp
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find_package(OpenMP)
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if(OPENMP_FOUND)
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set_target_properties(${PG_NAME} PROPERTIES COMPILE_OPTIONS ${OpenMP_CXX_FLAGS})
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target_link_libraries(${PG_NAME} ${OpenMP_CXX_FLAGS})
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endif()
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# 链接库
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TARGET_LINK_LIBRARIES(${PG_NAME} -lz)
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TARGET_LINK_LIBRARIES(${PG_NAME} -lm)
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TARGET_LINK_LIBRARIES(${PG_NAME} -llzma)
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TARGET_LINK_LIBRARIES(${PG_NAME} -lbz2)
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TARGET_LINK_LIBRARIES(${PG_NAME} -lcurl)
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# 安装文件夹设置
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INSTALL(TARGETS ${PG_NAME}
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RUNTIME DESTINATION bin
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LIBRARY DESTINATION lib
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ARCHIVE DESTINATION libstatic
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)
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