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CMakeLists.txt
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CMakeLists.txt
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#===============================================================================
# FILE: CMakeLists.txt
# Created: Jun 08, 2017
#
# CMake file for sortmerna/src/sortmerna
#===============================================================================
cmake_minimum_required(VERSION 3.13)
project(sortmerna CXX)
set(CMAKE_CXX_STANDARD 14)
find_package(Threads REQUIRED)
find_package(RocksDB CONFIG REQUIRED
PATHS ${ROCKSDB_HOME}
NO_DEFAULT_PATH
)
if(RocksDB_FOUND)
message("RocksDB package OK")
else()
message("RocksDB package NOK")
endif()
#
get_target_property(lib RocksDB::rocksdb-shared LOCATION)
message("RocksDB::rocksdb-shared LOCATION: ${lib}")
get_target_property(lib RocksDB::rocksdb-shared LOCATION_DEBUG)
message("RocksDB::rocksdb-shared LOCATION_DEBUG: ${lib}")
get_target_property(lib RocksDB::rocksdb-shared IMPORTED_LOCATION_DEBUG)
message("RocksDB::rocksdb-shared LOCATION_DEBUG: ${lib}")
get_target_property(cfg RocksDB::rocksdb-shared IMPORTED_CONFIGURATIONS)
message("RocksDB::rocksdb-shared IMPORTED_CONFIGURATIONS: ${cfg}")
get_target_property(lib RocksDB::rocksdb-shared IMPORTED_IMPLIB)
message("RocksDB::rocksdb-shared IMPORTED_IMPLIB: ${lib}")
get_target_property(lib RocksDB::rocksdb LIBRARY_OUTPUT_NAME)
message("RocksDB::rocksdb LIBRARY_OUTPUT_NAME: ${lib}")
if(ROCKSDB_STATIC)
message("Using Static RocksDB lib")
set(ROCKSDB_LIB RocksDB::rocksdb)
else()
message("Using Shared RocksDB lib")
set(ROCKSDB_LIB RocksDB::rocksdb-shared)
#if(WIN32 AND MSVC)
# set_target_properties(RocksDB::rocksdb-shared PROPERTIES
# IMPORTED_IMPLIB "${ROCKSDB_HOME}/lib/rocksdb-shared.lib"
# )
#endif()
endif()
get_property(trans_deps TARGET ${ROCKSDB_LIB} PROPERTY INTERFACE_LINK_LIBRARIES)
message("${ROCKSDB_LIB} transitive link dependencies: ${trans_deps}")
# fix RocksDBTargets.cmake, which makes both static and shared libraries always dependent on libz.so
if(NOT WIN32)
if(ZLIB_LIBRARY_RELEASE)
# modify the dependent libraries of the RocksDB::rocksdb target
set_target_properties(RocksDB::rocksdb PROPERTIES
INTERFACE_LINK_LIBRARIES "${ZLIB_LIBRARY_RELEASE};Threads::Threads"
)
endif()
endif()
get_property(trans_deps TARGET RocksDB::rocksdb PROPERTY INTERFACE_LINK_LIBRARIES)
message("rocksdb transitive link dependencies AFTER modification: ${trans_deps}")
include(FindZLIB)
# prevent CONFIG search mode
find_package(ZLIB MODULE REQUIRED)
include(FindRapidJson)
# prevent CONFIG search mode
find_package(RapidJson MODULE REQUIRED)
# set additional compile flags
if(MSVC)
# set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /Zi /nologo /EHsc /GS /Gd /GR /GF /fp:precise /Zc:wchar_t /Zc:forScope /errorReport:queue")
# set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /FC /d2Zi+ /W4 /wd4127 /wd4800 /wd4996 /wd4351 /wd4100 /wd4204 /wd4324")
else()
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -W -Wextra -Wall -Xlinker -v") # -Xlinker -v / --verbose (linked libraries info) '-Wl,-Map,mapfile.txt' '-Wl,-v'
#set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} -v -da -Q") # for segfault
# | | |_show which function is causing the crash.
# | |_dumps the RTL to a file after each stage
# |_show how the program was invoked
#set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} -v -da -Q -O0") # for segfault
# set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wsign-compare -Wshadow -Wno-unused-parameter -Wno-unused-variable -Woverloaded-virtual -Wnon-virtual-dtor -Wno-missing-field-initializers -Wno-strict-aliasing")
endif()
#set(MY_OPTS -g -Wall) # using quotes "-g -Wall" throws error
#target_compile_options(smr_objs PUBLIC ${MY_OPTS})
#target_compile_options(smr_objs PUBLIC "$<$<CONFIG:DEBUG>:${MY_OPTS}>")
#target_compile_options(smr_objs PUBLIC "$<$<CONFIG:RELEASE>:${MY_OPTS}>")
#set_target_properties(smr_objs PROPERTIES COMPILE_OPTIONS ${MY_OPTS})
set(SMR_SRCS
alignment.cpp
bitvector.cpp
callbacks.cpp
cmd.cpp
gzip.cpp
index.cpp
kseq_load.cpp
kvdb.cpp
options.cpp
output.cpp
paralleltraversal.cpp
processor.cpp
read.cpp
reader.cpp
readstats.cpp
references.cpp
refstats.cpp
ssw.c
traverse_bursttrie.cpp
util.cpp
writer.cpp
)
# SMR Objects - build a separate library to use with Tests
add_library(smr_objs OBJECT ${SMR_SRCS})
target_link_libraries(smr_objs
PUBLIC
alp
${ROCKSDB_LIB}
RapidJSON::RapidJSON
ZLIB::ZLIB
)
if(WIN32)
target_include_directories(smr_objs
PUBLIC
${CMAKE_SOURCE_DIR}/include
$<TARGET_PROPERTY:winapi,INCLUDE_DIRECTORIES>
$<TARGET_PROPERTY:cmph,INCLUDE_DIRECTORIES>
${DIRENTWIN_HOME}/include
${EXTERNAL_DEPS}/concurrentqueue
)
else()
target_include_directories(smr_objs
PUBLIC
${CMAKE_SOURCE_DIR}/include
$<TARGET_PROPERTY:cmph,INCLUDE_DIRECTORIES>
${EXTERNAL_DEPS}/concurrentqueue
)
endif()
get_property(trans_deps TARGET smr_objs PROPERTY INTERFACE_LINK_LIBRARIES)
message("SMR Objects transitive link dependencies: ${trans_deps}")
get_target_property(COMPILE_OPT smr_objs COMPILE_OPTIONS)
get_target_property(COMPILE_FLG smr_objs COMPILE_FLAGS)
message("SMR Objects COMPILE_OPT: ${COMPILE_OPT} COMPILE_FLG: ${COMPILE_FLG}")
# SMR
add_executable(sortmerna main.cpp)
if(WIN32)
target_include_directories(sortmerna
PRIVATE
${CMAKE_SOURCE_DIR}/include
${DIRENTWIN_HOME}/include
${EXTERNAL_DEPS}/concurrentqueue
)
target_link_libraries(sortmerna
build_version
smr_objs
winapi
alp
$<TARGET_OBJECTS:cmph>
ZLIB::ZLIB
${ROCKSDB_LIB}
RapidJSON::RapidJSON
Rpcrt4.lib
Cabinet.lib # rocksdb:XPRESS::CreateCompressor,Compress,CloseCompressor,CreateDecompressor,Decompress,CloseDecompressor
)
else()
target_include_directories(sortmerna
PRIVATE
${EXTERNAL_DEPS}/concurrentqueue
${CMAKE_SOURCE_DIR}/include
)
#get_property(rocksdb_trans_deps TARGET RocksDB::rocksdb PROPERTY INTERFACE_LINK_LIBRARIES)
#message("rocksdb_trans_deps: ${rocksdb_trans_deps}")
target_link_libraries(sortmerna
build_version
smr_objs
alp # this is a transitive dependency of smr_objs but the linking fails without it. Why?
$<TARGET_OBJECTS:cmph>
${ROCKSDB_LIB}
${CMAKE_DL_LIBS}
# the following are all transitive dependencies of smr_objs i.e. no need to link:
# RapidJSON::RapidJSON ZLIB::ZLIB Threads::Threads (rockdb deps)
)
if(PORTABLE)
target_link_options(sortmerna PRIVATE -static)
endif(PORTABLE)
endif()