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Modify CMakeLists.txt for ARM
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@jnalanko
jnalanko committed Apr 26, 2023
1 parent 506bc68 commit 034bca0
Showing 1 changed file with 88 additions and 30 deletions.
118 changes: 88 additions & 30 deletions CMakeLists.txt
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Original file line number Diff line number Diff line change
Expand Up @@ -3,6 +3,20 @@ project(KMC VERSION 1.0
DESCRIPTION "SBWT fork of KMC"
LANGUAGES CXX)

find_package(Git QUIET)
if(GIT_FOUND AND EXISTS "${PROJECT_SOURCE_DIR}/.git")
option(GIT_SUBMODULE "Check submodules during build" ON)
if(GIT_SUBMODULE)
message(STATUS "Submodule update")
execute_process(COMMAND ${GIT_EXECUTABLE} submodule update --init --recursive
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
RESULT_VARIABLE GIT_SUBMOD_RESULT)
if(NOT GIT_SUBMOD_RESULT EQUAL "0")
message(FATAL_ERROR "git submodule update --init --recursive failed with ${GIT_SUBMOD_RESULT}, please checkout submodules")
endif()
endif()
endif()

if(NOT ZLIB)
find_library(ZLIB NAMES z PATHS ${CMAKE_CURRENT_SOURCE_DIR}/kmc_tools/libs/ REQUIRED)
endif()
Expand All @@ -11,24 +25,28 @@ if(NOT BZIP2)
find_library(BZIP2 NAMES bz2 PATHS ${CMAKE_CURRENT_SOURCE_DIR}/kmc_tools/libs/ REQUIRED)
endif()


set(KMC_MAIN_DIR ${CMAKE_CURRENT_SOURCE_DIR}/kmc_core)
set(KMC_CLI_DIR ${CMAKE_CURRENT_SOURCE_DIR}/kmc_CLI)
set(KMC_API_DIR ${CMAKE_CURRENT_SOURCE_DIR}/kmc_api)
set(KMC_TOOLS_DIR ${CMAKE_CURRENT_SOURCE_DIR}/kmc_tools)

if(APPLE)
add_library(RADULS_SSE2_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_sse2.cpp)
target_compile_options(RADULS_SSE2_OBJS PRIVATE -msse2 -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)

add_library(RADULS_SSE41_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_sse41.cpp)
target_compile_options(RADULS_SSE41_OBJS PRIVATE -msse4.1 -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)

add_library(RADULS_AVX_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_avx.cpp)
target_compile_options(RADULS_AVX_OBJS PRIVATE -mavx -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)

add_library(RADULS_AVX2_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_avx2.cpp)
target_compile_options(RADULS_AVX2_OBJS PRIVATE -mavx2 -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)
if(CMAKE_SYSTEM_PROCESSOR MATCHES "arm64")
add_library(RADULS_NEON_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_neon.cpp)
target_compile_options(RADULS_NEON_OBJS PRIVATE -march=armv8-a -O3 -static-libgcc -static-libstdc++ -pthread -std=c++14)
else()
add_library(RADULS_SSE2_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_sse2.cpp)
target_compile_options(RADULS_SSE2_OBJS PRIVATE -msse2 -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)

add_library(RADULS_SSE41_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_sse41.cpp)
target_compile_options(RADULS_SSE41_OBJS PRIVATE -msse4.1 -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)

add_library(RADULS_AVX_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_avx.cpp)
target_compile_options(RADULS_AVX_OBJS PRIVATE -mavx -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)

add_library(RADULS_AVX2_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_avx2.cpp)
target_compile_options(RADULS_AVX2_OBJS PRIVATE -mavx2 -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)
endif()
else()
add_library(RADULS_SSE2_OBJS OBJECT ${KMC_MAIN_DIR}/raduls_sse2.cpp)
target_compile_options(RADULS_SSE2_OBJS PRIVATE -msse2 -O3 -m64 -static -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++14)
Expand All @@ -43,15 +61,23 @@ else()
target_compile_options(RADULS_AVX2_OBJS PRIVATE -mavx2 -O3 -m64 -static -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++14)
endif()

# KKMC CLI OBJECTS

add_library(KMC_CLI_OBJS OBJECT ${KMC_CLI_DIR}/kmc.cpp)

# KFF OBJECTS

add_library(KFF_OBJS OBJECT ${KMC_MAIN_DIR}/kff_writer.cpp)

# KMC API OBJECTS

add_library(KMC_API_OBJS OBJECT
${KMC_API_DIR}/mmer.cpp
${KMC_API_DIR}/kmc_file.cpp
${KMC_API_DIR}/kmer_api.cpp)

# KMC CORE OBJECTS

add_library(KMC_CORE_OBJS OBJECT
${KMC_MAIN_DIR}/mem_disk_file.cpp
${KMC_MAIN_DIR}/rev_byte.cpp
Expand All @@ -68,6 +94,8 @@ add_library(KMC_CORE_OBJS OBJECT
${KMC_MAIN_DIR}/kb_collector.cpp
${KMC_MAIN_DIR}/kmc_runner.cpp)

# KMC TOOLS OBJECTS

add_library(KMC_TOOLS_OBJS OBJECT
${KMC_TOOLS_DIR}/kmer_file_header.cpp
${KMC_TOOLS_DIR}/kmc_tools.cpp
Expand All @@ -84,20 +112,39 @@ add_library(KMC_TOOLS_OBJS OBJECT
${KMC_API_DIR}/kmc_file.cpp
${KMC_API_DIR}/kmer_api.cpp)

add_library(kmc_core STATIC
$<TARGET_OBJECTS:KMC_CORE_OBJS>
$<TARGET_OBJECTS:KMC_API_OBJS>
$<TARGET_OBJECTS:KFF_OBJS>
$<TARGET_OBJECTS:RADULS_SSE2_OBJS>
$<TARGET_OBJECTS:RADULS_SSE41_OBJS>
$<TARGET_OBJECTS:RADULS_AVX_OBJS>
$<TARGET_OBJECTS:RADULS_AVX2_OBJS>)
# KMC CORE

if(CMAKE_SYSTEM_PROCESSOR MATCHES "arm64")
add_library(kmc_core STATIC
$<TARGET_OBJECTS:KMC_CORE_OBJS>
$<TARGET_OBJECTS:KMC_API_OBJS>
$<TARGET_OBJECTS:KFF_OBJS>
$<TARGET_OBJECTS:RADULS_NEON_OBJS>)
else()
add_library(kmc_core STATIC
$<TARGET_OBJECTS:KMC_CORE_OBJS>
$<TARGET_OBJECTS:KMC_API_OBJS>
$<TARGET_OBJECTS:KFF_OBJS>
$<TARGET_OBJECTS:RADULS_SSE2_OBJS>
$<TARGET_OBJECTS:RADULS_SSE41_OBJS>
$<TARGET_OBJECTS:RADULS_AVX_OBJS>
$<TARGET_OBJECTS:RADULS_AVX2_OBJS>)
endif()

if(APPLE)
target_compile_options(kmc_core PRIVATE -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)
target_link_libraries(kmc_core PRIVATE
${ZLIB}
${BZIP2})
target_link_options(kmc_core PRIVATE -lm -static-libgcc -static-libstdc++ -O3 -pthread -std=c++14)
if(CMAKE_SYSTEM_PROCESSOR MATCHES "arm64")
target_compile_options(kmc_core PRIVATE -O3 -static-libgcc -static-libstdc++ -pthread -std=c++14)
target_link_libraries(kmc_core PRIVATE
${ZLIB}
${BZIP2})
target_link_options(kmc_core PRIVATE -lm -static-libgcc -static-libstdc++ -O3 -pthread -std=c++14)
else()
target_compile_options(kmc_core PRIVATE -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)
target_link_libraries(kmc_core PRIVATE
${ZLIB}
${BZIP2})
target_link_options(kmc_core PRIVATE -lm -static-libgcc -static-libstdc++ -O3 -pthread -std=c++14)
endif()
else()
target_compile_options(kmc_core PRIVATE -O3 -m64 -static -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++14)
target_link_libraries(kmc_core PRIVATE
Expand All @@ -106,16 +153,27 @@ else()
target_link_options(kmc_core PRIVATE -lm -static -O3 -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++14)
endif()

# KMC TOOLS

add_library(kmc_tools STATIC
$<TARGET_OBJECTS:KMC_TOOLS_OBJS>
$<TARGET_OBJECTS:KMC_API_OBJS>
$<TARGET_OBJECTS:KFF_OBJS>)

if(APPLE)
target_compile_options(kmc_tools PRIVATE -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)
target_link_libraries(kmc_tools PRIVATE
${ZLIB}
${BZIP2})
target_link_options(kmc_tools PRIVATE -lm -static-libgcc -static-libstdc++ -O3 -pthread -std=c++14)
if(CMAKE_SYSTEM_PROCESSOR MATCHES "arm64")
target_compile_options(kmc_tools PRIVATE -O3 -static-libgcc -static-libstdc++ -pthread -std=c++14)
target_link_libraries(kmc_tools PRIVATE
${ZLIB}
${BZIP2})
target_link_options(kmc_tools PRIVATE -lm -static-libgcc -static-libstdc++ -O3 -pthread -std=c++14)
else()
target_compile_options(kmc_tools PRIVATE -O3 -m64 -static-libgcc -static-libstdc++ -pthread -std=c++14)
target_link_libraries(kmc_tools PRIVATE
${ZLIB}
${BZIP2})
target_link_options(kmc_tools PRIVATE -lm -static-libgcc -static-libstdc++ -O3 -pthread -std=c++14)
endif()
else()
target_compile_options(kmc_tools PRIVATE -O3 -m64 -static -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++14)
target_link_libraries(kmc_tools PRIVATE
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