[R] AppVeyor CI for R package (#2954)
* [R] fix finding R.exe with cmake on WIN when it is in PATH * [R] appveyor config for R package * [R] wrap the lines to make R check happier * [R] install only binary dep-packages in appveyor * [R] for MSVC appveyor, also build a binary for R package and keep as an artifact
This commit is contained in:
Vadim Khotilovich
GitHub
parent
4fa917b19f
commit
76f8f51438
@ -93,9 +93,12 @@
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#' objective = "multi:softprob", num_class = nclass, verbose = 0)
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#' trees0 <- seq(from=0, by=nclass, length.out=nrounds)
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#' col <- rgb(0, 0, 1, 0.5)
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#' xgb.plot.shap(x, model = mbst, trees = trees0, target_class = 0, top_n = 4, n_col = 2, col = col, pch = 16, pch_NA = 17)
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#' xgb.plot.shap(x, model = mbst, trees = trees0 + 1, target_class = 1, top_n = 4, n_col = 2, col = col, pch = 16, pch_NA = 17)
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#' xgb.plot.shap(x, model = mbst, trees = trees0 + 2, target_class = 2, top_n = 4, n_col = 2, col = col, pch = 16, pch_NA = 17)
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#' xgb.plot.shap(x, model = mbst, trees = trees0, target_class = 0, top_n = 4,
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#' n_col = 2, col = col, pch = 16, pch_NA = 17)
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#' xgb.plot.shap(x, model = mbst, trees = trees0 + 1, target_class = 1, top_n = 4,
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#' n_col = 2, col = col, pch = 16, pch_NA = 17)
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#' xgb.plot.shap(x, model = mbst, trees = trees0 + 2, target_class = 2, top_n = 4,
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#' n_col = 2, col = col, pch = 16, pch_NA = 17)
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#'
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#' @rdname xgb.plot.shap
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#' @export
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@ -123,9 +123,12 @@ mbst <- xgboost(data = x, label = as.numeric(iris$Species) - 1, nrounds = nround
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objective = "multi:softprob", num_class = nclass, verbose = 0)
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trees0 <- seq(from=0, by=nclass, length.out=nrounds)
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col <- rgb(0, 0, 1, 0.5)
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xgb.plot.shap(x, model = mbst, trees = trees0, target_class = 0, top_n = 4, n_col = 2, col = col, pch = 16, pch_NA = 17)
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xgb.plot.shap(x, model = mbst, trees = trees0 + 1, target_class = 1, top_n = 4, n_col = 2, col = col, pch = 16, pch_NA = 17)
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xgb.plot.shap(x, model = mbst, trees = trees0 + 2, target_class = 2, top_n = 4, n_col = 2, col = col, pch = 16, pch_NA = 17)
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xgb.plot.shap(x, model = mbst, trees = trees0, target_class = 0, top_n = 4,
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n_col = 2, col = col, pch = 16, pch_NA = 17)
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xgb.plot.shap(x, model = mbst, trees = trees0 + 1, target_class = 1, top_n = 4,
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n_col = 2, col = col, pch = 16, pch_NA = 17)
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xgb.plot.shap(x, model = mbst, trees = trees0 + 2, target_class = 2, top_n = 4,
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n_col = 2, col = col, pch = 16, pch_NA = 17)
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}
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\references{
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64
appveyor.yml
64
appveyor.yml
@ -1,4 +1,6 @@
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environment:
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R_ARCH: x64
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USE_RTOOLS: true
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matrix:
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- target: msvc
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ver: 2013
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@ -15,6 +17,15 @@ environment:
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- target: mingw
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generator: "Unix Makefiles"
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- target: jvm
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- target: rmsvc
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ver: 2015
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generator: "Visual Studio 14 2015 Win64"
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configuration: Release
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- target: rmingw
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generator: "Unix Makefiles"
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#matrix:
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# fast_finish: true
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platform:
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- x64
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@ -34,6 +45,16 @@ install:
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- if /i "%target%" == "mingw" set DO_PYTHON=on
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- if /i "%target%_%ver%_%configuration%" == "msvc_2015_Release" set DO_PYTHON=on
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- if /i "%DO_PYTHON%" == "on" conda install -y numpy scipy pandas matplotlib nose scikit-learn graphviz python-graphviz
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# R: based on https://github.com/krlmlr/r-appveyor
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- ps: |
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if($env:target -eq 'rmingw' -or $env:target -eq 'rmsvc') {
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#$ErrorActionPreference = "Stop"
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Invoke-WebRequest http://raw.github.com/krlmlr/r-appveyor/master/scripts/appveyor-tool.ps1 -OutFile "$Env:TEMP\appveyor-tool.ps1"
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Import-Module "$Env:TEMP\appveyor-tool.ps1"
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Bootstrap
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$DEPS = "c('data.table','magrittr','stringi','ggplot2','DiagrammeR','Ckmeans.1d.dp','vcd','testthat','igraph','knitr','rmarkdown')"
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cmd /c "R.exe -q -e ""install.packages($DEPS, repos='$CRAN', type='win.binary')"" 2>&1"
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}
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build_script:
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- cd %APPVEYOR_BUILD_FOLDER%
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@ -49,12 +70,55 @@ build_script:
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cmake .. -G"%generator%" &&
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make -j2
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)
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# Python package
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- if /i "%DO_PYTHON%" == "on" (
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cd %APPVEYOR_BUILD_FOLDER%\python-package &&
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python setup.py install
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)
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# R package: make + mingw standard CRAN packaging (only x64 for now)
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- if /i "%target%" == "rmingw" (
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make Rbuild &&
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ls -l &&
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R.exe CMD INSTALL --no-multiarch xgboost*.tar.gz
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)
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# R package: cmake + VC2015
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- if /i "%target%" == "rmsvc" (
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mkdir build_rmsvc%ver% &&
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cd build_rmsvc%ver% &&
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cmake .. -G"%generator%" -DCMAKE_CONFIGURATION_TYPES="Release" -DR_LIB=ON &&
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cmake --build . --target install --config Release
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)
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- if /i "%target%" == "jvm" cd jvm-packages && mvn test -pl :xgboost4j
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test_script:
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- cd %APPVEYOR_BUILD_FOLDER%
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- if /i "%DO_PYTHON%" == "on" python -m nose tests/python
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# mingw R package: run the R check (which includes unit tests), and also keep the built binary package
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- if /i "%target%" == "rmingw" (
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set _R_CHECK_CRAN_INCOMING_=FALSE&&
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R.exe CMD check xgboost*.tar.gz --no-manual --no-build-vignettes --as-cran --install-args=--build --no-multiarch
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)
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# MSVC R package: run only the unit tests
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# TODO: create a binary msvc-built package to keep as an artifact
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- if /i "%target%" == "rmsvc" (
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cd build_rmsvc%ver%\R-package &&
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R.exe -q -e "library(testthat); setwd('tests'); source('testthat.R')"
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)
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on_failure:
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# keep the whole output of R check
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- if /i "%target%" == "rmingw" (
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7z a failure.zip *.Rcheck\* &&
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appveyor PushArtifact failure.zip
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)
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artifacts:
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# log from R check
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- path: '*.Rcheck\**\*.log'
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name: Logs
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# source R-package
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- path: '\xgboost_*.tar.gz'
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name: Bits
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# binary R-package
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- path: '**\xgboost_*.zip'
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name: Bits
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@ -82,5 +82,5 @@ function(setup_rpackage_install_target rlib_target build_dir)
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if(length(deps)>0) install.packages(deps, repo = 'https://cloud.r-project.org/')")
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install(CODE "execute_process(COMMAND \"${LIBR_EXECUTABLE}\" \"-q\" \"-e\" \"${XGB_DEPS_SCRIPT}\")")
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install(CODE "execute_process(COMMAND \"${LIBR_EXECUTABLE}\" CMD INSTALL\
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\"--no-multiarch\" \"${build_dir}/R-package\")")
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\"--no-multiarch\" \"--build\" \"${build_dir}/R-package\")")
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endfunction(setup_rpackage_install_target)
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@ -86,7 +86,7 @@ else()
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# attempt to find R executable
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if(NOT LIBR_EXECUTABLE)
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find_program(LIBR_EXECUTABLE R)
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find_program(LIBR_EXECUTABLE NAMES R R.exe)
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endif()
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if(UNIX)
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@ -117,7 +117,7 @@ else()
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# ask R for R_HOME
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if(LIBR_EXECUTABLE)
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execute_process(
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COMMAND ${LIBR_EXECUTABLE} "--slave" "--no-save" "-e" "cat(normalizePath(R.home(), winslash='/')"
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COMMAND ${LIBR_EXECUTABLE} "--slave" "--no-save" "-e" "cat(normalizePath(R.home(), winslash='/'))"
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OUTPUT_VARIABLE LIBR_HOME)
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endif()
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# if R executable not available, query R_HOME path from registry
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@ -138,6 +138,12 @@ else()
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set(LIBR_INCLUDE_DIRS "${LIBR_HOME}/include")
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set(LIBR_LIB_DIR "${LIBR_HOME}/bin/${R_ARCH}")
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message(STATUS "LIBR_HOME [${LIBR_HOME}]")
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message(STATUS "LIBR_EXECUTABLE [${LIBR_EXECUTABLE}]")
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message(STATUS "LIBR_INCLUDE_DIRS [${LIBR_INCLUDE_DIRS}]")
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message(STATUS "LIBR_LIB_DIR [${LIBR_LIB_DIR}]")
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message(STATUS "LIBR_CORE_LIBRARY [${LIBR_CORE_LIBRARY}]")
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endif()
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endif()
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