diff options
Diffstat (limited to 'fluent-bit/lib/wasm-micro-runtime-WAMR-1.2.2/samples/workload/bwa/CMakeLists.txt')
-rw-r--r-- | fluent-bit/lib/wasm-micro-runtime-WAMR-1.2.2/samples/workload/bwa/CMakeLists.txt | 73 |
1 files changed, 73 insertions, 0 deletions
diff --git a/fluent-bit/lib/wasm-micro-runtime-WAMR-1.2.2/samples/workload/bwa/CMakeLists.txt b/fluent-bit/lib/wasm-micro-runtime-WAMR-1.2.2/samples/workload/bwa/CMakeLists.txt new file mode 100644 index 000000000..5db52a38b --- /dev/null +++ b/fluent-bit/lib/wasm-micro-runtime-WAMR-1.2.2/samples/workload/bwa/CMakeLists.txt @@ -0,0 +1,73 @@ +# Copyright (C) 2019 Intel Corporation. All rights reserved. +# SPDX-License-Identifier: Apache-2.0 WITH LLVM-exception + +cmake_minimum_required (VERSION 3.14) + +project(bwa_wasm) + +list(APPEND CMAKE_MODULE_PATH ${CMAKE_CURRENT_SOURCE_DIR}/../cmake) + +################ dependencies ################ +find_package(Python3 REQUIRED) +find_package(WASISDK 16.0 REQUIRED) +execute_process( + COMMAND ${Python3_EXECUTABLE} ${CMAKE_CURRENT_LIST_DIR}/../../../test-tools/pick-up-emscripten-headers/collect_files.py --install ../include --loglevel=ERROR + WORKING_DIRECTORY ${CMAKE_CURRENT_LIST_DIR} +) + +####################################### +include(ExternalProject) + +################ libz ################ +ExternalProject_Add(libz_src + GIT_REPOSITORY https://github.com/madler/zlib.git + GIT_TAG 04f42ceca40f73e2978b50e93806c2a18c1281fc + GIT_PROGRESS ON + GIT_SHALLOW ON + SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}/libz + UPDATE_COMMAND "" + PATCH_COMMAND "" + CONFIGURE_COMMAND "" + BUILD_COMMAND "" + INSTALL_COMMAND "" +) + +################ bwa ################ +ExternalProject_Add(bwa + GIT_REPOSITORY https://github.com/lh3/bwa.git + GIT_TAG 139f68fc4c3747813783a488aef2adc86626b01b + GIT_PROGRESS ON + GIT_SHALLOW ON + SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}/bwa + DEPENDS libz_src + UPDATE_COMMAND git clean -ffdx && git checkout -- * + && ${CMAKE_COMMAND} -E echo "Copying pre-installed CMakeLists.txt" + && ${CMAKE_COMMAND} -E copy ${CMAKE_CURRENT_SOURCE_DIR}/CMakeLists.bwa_wasm.txt CMakeLists.txt + && git apply ../bwa.patch + CONFIGURE_COMMAND ${CMAKE_COMMAND} + -DWASI_SDK_PREFIX=${WASISDK_HOME} + -DCMAKE_TOOLCHAIN_FILE=${WASISDK_TOOLCHAIN} + -DCMAKE_SYSROOT=${WASISDK_SYSROOT} + -DCMAKE_C_FLAGS=-isystem\ ${CMAKE_CURRENT_SOURCE_DIR}/../include/sse\ -isystem\ ${CMAKE_CURRENT_SOURCE_DIR}/../include/libc/musl + ${CMAKE_CURRENT_SOURCE_DIR}/bwa + BUILD_COMMAND make bwa_wasm_opt -j 4 + INSTALL_COMMAND ${CMAKE_COMMAND} -E copy_if_different ./bwa.opt.wasm ${CMAKE_CURRENT_BINARY_DIR}/bwa.wasm +) + +################ bwa data ################ +ExternalProject_Add(bwa-kit + PREFIX bwa-kit + URL https://sourceforge.net/projects/bio-bwa/files/bwakit/bwakit-0.7.15_x64-linux.tar.bz2/download + URL_HASH SHA256=0a7b11971bc7916b68e9df35a364afe77cb3000df02ffb3a6fbd1aff9be5878c + DOWNLOAD_NAME bwakit-0.7.15_x64-linux.tar.bz2 + DOWNLOAD_EXTRACT_TIMESTAMP ON + DOWNLOAD_NO_EXTRACT OFF + DOWNLOAD_NO_PROGRESS ON + UPDATE_COMMAND "" + PATCH_COMMAND "" + CONFIGURE_COMMAND "" + BUILD_COMMAND "" + INSTALL_COMMAND ${CMAKE_COMMAND} -E copy_if_different + ${CMAKE_CURRENT_BINARY_DIR}/bwa-kit/src/bwa-kit/resource-GRCh38/hs38DH-extra.fa + ${CMAKE_CURRENT_BINARY_DIR}/hs38DH-extra.fa +) |