Merge pull request #79 from steineggerlab/windows

Metabuli is running on Windows!!

azure-pipelines.yml

@@ -121,10 +121,10 @@ jobs:
  targetPath: $(Build.SourcesDirectory)/build/src/metabuli
  artifactName: metabuli-linux-$(SIMD)
 
- - job: build_macos_11
- displayName: macOS 11
+ - job: build_macos
+ displayName: macOS
  pool:
- vmImage: 'macos-11'
+ vmImage: 'macos-12'
  steps:
  - checkout: self
  submodules: true
@@ -146,16 +146,73 @@ jobs:
  inputs:
  targetPath: $(Build.SourcesDirectory)/build/metabuli
  artifactName: metabuli-darwin-universal
+
+ - job: build_windows
+ displayName: Windows
+ pool:
+ vmImage: 'windows-2019'
+ variables:
+ CYGWIN_ROOT: $(System.Workfolder)\cygwin
+ CYGWIN_MIRROR: http://cygwin.mirror.constant.com
+ timeoutInMinutes: 120
+ steps:
+ - powershell: git config --global core.autocrlf false
+ displayName: core.autocrlf false
+ - checkout: self
+ submodules: true
+ - script: |
+ rmdir /s /q C:\Strawberry
+ displayName: Remove Strawberry Perl (Conflict with Cygwin)
+ - script: |
+ choco install cygwin --params="/InstallDir:%CYGWIN_ROOT%"
+ displayName: Install Cygwin
+ - script: |
+ %CYGWIN_ROOT%\cygwinsetup.exe -qnNdO -R "%CYGWIN_ROOT%" -s "%CYGWIN_MIRROR%" -g -P ^
+ bash,^
+ xxd,^
+ cmake,^
+ make,^
+ gcc-core,^
+ gcc-g++,^
+ zlib-devel,^
+ libbz2-devel,^
+ busybox-standalone,^
+ git,^
+ binutils,^
+ wget,^
+ bc
+ displayName: Install Dependencies
+ - script: |
+ %CYGWIN_ROOT%\bin\bash.exe -cl "${BUILD_SOURCESDIRECTORY}/util/build_windows.sh $(cygpath ${BUILD_SOURCESDIRECTORY}) $(cygpath ${BUILD_SOURCESDIRECTORY}/build)"
+ displayName: Build Metabuli
+ - task: "ArchiveFiles@2"
+ inputs:
+ rootFolderOrFile: $(Build.SourcesDirectory)\build\metabuli
+ archiveFile: $(Build.SourcesDirectory)\metabuli-win64.zip
+ includeRootFolder: true
+ archiveType: zip
+ - task: PublishPipelineArtifact@0
+ inputs:
+ targetPath: $(Build.SourcesDirectory)\metabuli-win64.zip
+ artifactName: metabuli-win64
+ # - script: |
+ # %BUILD_SOURCESDIRECTORY%\build\metabuli\metabuli.bat version
+ # displayName: Setup Busybox
+ - script: |
+ %CYGWIN_ROOT%\bin\bash.exe -cl "${BUILD_SOURCESDIRECTORY}/util/Metabuli-regression/run_regression.sh $(cygpath ${BUILD_SOURCESDIRECTORY}/build/build_sse2/src/metabuli.exe) $(cygpath ${BUILD_SOURCESDIRECTORY}/examples)"
+ displayName: Run Regression Suite
+ condition: eq(variables['regression'], 1)
 
  - job: upload_artifacts
  displayName: Upload Artifacts
  condition: and(succeeded(), ne(variables['Build.Reason'], 'PullRequest'))
  pool:
  vmImage: 'ubuntu-latest'
  dependsOn:
- - build_macos_11
+ - build_macos
  - build_ubuntu_2004
  - build_ubuntu_cross_2004
+ - build_windows
  steps:
  - script: |
  cd "${BUILD_SOURCESDIRECTORY}"
@@ -174,6 +231,19 @@ jobs:
  archiveFile: $(Build.SourcesDirectory)/metabuli-osx-universal.tar.gz
  includeRootFolder: true
  archiveType: tar
+ - task: DownloadPipelineArtifact@1
+ inputs:
+ artifactName: metabuli-win64
+ targetPath: $(Build.SourcesDirectory)
+ - script:
+ unzip "${BUILD_SOURCESDIRECTORY}/metabuli-win64.zip"
+ chmod +x metabuli/metabuli.bat metabuli/bin/*
+ - task: ArchiveFiles@2
+ inputs:
+ rootFolderOrFile: $(Build.SourcesDirectory)/metabuli
+ archiveFile: $(Build.SourcesDirectory)/metabuli-win64.zip
+ includeRootFolder: true
+ archiveType: tar
  - task: DownloadPipelineArtifact@1
  inputs:
  artifactName: metabuli-linux-SSE2
@@ -260,11 +330,13 @@ jobs:
  metabuli-osx-universal.tar.gz \
  metabuli-linux-sse2.tar.gz \
  metabuli-linux-avx2.tar.gz \
- metabuli-linux-arm64.tar.gz
+ metabuli-linux-arm64.tar.gz \
+ metabuli-win64.zip
  curl --retry 5 --retry-all-errors -X POST \
  -F file[]=@metabuli-osx-universal.tar.gz -F signature[]=@metabuli-osx-universal.tar.gz.sig \
  -F file[]=@metabuli-linux-sse2.tar.gz -F signature[]=@metabuli-linux-sse2.tar.gz.sig \
  -F file[]=@metabuli-linux-avx2.tar.gz -F signature[]=@metabuli-linux-avx2.tar.gz.sig \
  -F file[]=@metabuli-linux-arm64.tar.gz -F signature[]=@metabuli-linux-arm64.tar.gz.sig \
+ -F file[]=@metabuli-win64.zip -F signature[]=@metabuli-win64.zip.sig \
  -F identifier="metabuli" -F directory="${BUILD_SOURCEVERSION}" \
  https://mmseqs.com/upload