CMakeLists.txt

cmake_minimum_required(VERSION 3.2)
project(rala)

set(CMAKE_ARCHIVE_OUTPUT_DIRECTORY ${PROJECT_BINARY_DIR}/lib)
set(CMAKE_LIBRARY_OUTPUT_DIRECTORY ${PROJECT_BINARY_DIR}/lib)
set(CMAKE_RUNTIME_OUTPUT_DIRECTORY ${PROJECT_BINARY_DIR}/bin)

set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wall -Wextra -pedantic")
set(CMAKE_CXX_STANDARD 11)
set(CMAKE_CXX_STANDARD_REQUIRED ON)

option(rala_build_tests "Build rala unit tests" OFF)
option(rala_build_statistics "Build assembly statistics" OFF)

add_executable(rala
    src/graph.cpp
    src/main.cpp
    src/overlap.cpp
    src/pile.cpp
    src/sequence.cpp)

if (NOT TARGET bioparser)
    add_subdirectory(vendor/bioparser EXCLUDE_FROM_ALL)
endif()
if (NOT TARGET thread_pool)
    add_subdirectory(vendor/thread_pool EXCLUDE_FROM_ALL)
endif()
if (NOT TARGET logger)
    add_subdirectory(vendor/logger EXCLUDE_FROM_ALL)
endif()

target_link_libraries(rala bioparser thread_pool pthread logger)

if (rala_build_tests)

endif(rala_build_tests)

if (rala_build_statistics)
    include_directories(${PROJECT_SOURCE_DIR}/src)

    add_executable(rast
        src/sequence.cpp
        test/rast.cpp)

    target_link_libraries(rast bioparser)
endif(rala_build_statistics)

install(TARGETS rala DESTINATION bin)