diff options
Diffstat (limited to 'biology/kallisto/files/patch-ext_bifrost_CMakeLists.txt')
| -rw-r--r-- | biology/kallisto/files/patch-ext_bifrost_CMakeLists.txt | 40 |
1 files changed, 40 insertions, 0 deletions
diff --git a/biology/kallisto/files/patch-ext_bifrost_CMakeLists.txt b/biology/kallisto/files/patch-ext_bifrost_CMakeLists.txt new file mode 100644 index 000000000000..d25cf028cfdd --- /dev/null +++ b/biology/kallisto/files/patch-ext_bifrost_CMakeLists.txt @@ -0,0 +1,40 @@ +--- ext/bifrost/CMakeLists.txt.orig 2023-06-27 10:45:00 UTC ++++ ext/bifrost/CMakeLists.txt +@@ -7,18 +7,12 @@ find_package(Threads REQUIRED) + # To enable a larger default k-mer size, replace MAX_KMER_SIZE with a larger multiple of 32: actual maximum k-mer size will be MAX_KMER_SIZE-1. + SET(MAX_KMER_SIZE "32" CACHE STRING "MAX_KMER_SIZE") + SET(MAX_GMER_SIZE "${MAX_KMER_SIZE}" CACHE STRING "MAX_GMER_SIZE") +-# Enable architecture optimizations +-SET(COMPILATION_ARCH "native" CACHE STRING "COMPILATION_ARCH") +-# Enable AVX2 instructions +-SET(ENABLE_AVX2 "ON" CACHE STRING "ENABLE_AVX2") ++SET(CMAKE_VERBOSE_MAKEFILE "ON") + + # Set some default compile flags + set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -std=c11") + set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++11") + +-set_property(SOURCE BlockedBloomFilter.cpp APPEND_STRING PROPERTY COMPILE_FLAGS " -funroll-loops") +- +- + #check if we are on arm64 and apple, if so, disable AVX2 + if(APPLE AND CMAKE_SYSTEM_PROCESSOR MATCHES "arm") + message("Disabling AVX2 instructions on arm64") +@@ -30,8 +24,6 @@ if(COMPILATION_ARCH MATCHES "OFF") + message("Disabling native architecture compilation (including AVX2)") + else(COMPILATION_ARCH MATCHES "OFF") + message("Compilation architecture: ${COMPILATION_ARCH}") +- set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -march=${COMPILATION_ARCH}") +- set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -march=${COMPILATION_ARCH}") + endif(COMPILATION_ARCH MATCHES "OFF") + + if(ENABLE_AVX2 MATCHES "OFF") +@@ -56,7 +48,7 @@ else(CMAKE_BUILD_TYPE MATCHES Debug) + set(CMAKE_EXE_LINKER_FLAGS "-pg") + else(CMAKE_BUILD_TYPE MATCHES Profile) + message("Build type: Release") +- add_compile_options(-O3) ++ add_compile_options(-O2) + endif(CMAKE_BUILD_TYPE MATCHES Profile) + endif(CMAKE_BUILD_TYPE MATCHES Debug) + |