From aa933eb427df78b81c074ba629cc72d04f89ab29 Mon Sep 17 00:00:00 2001 From: James Lamb Date: Tue, 28 Jul 2020 21:05:59 -0500 Subject: [PATCH] [R-package] make package installable with CRAN toolchain (fixes #2960) (#3188) * [R-package] make package installable with CRAN toolchain (fixes #2960) * Apply suggestions from code review Co-authored-by: Nikita Titov * remove GPU stuff * use wildcard to find objects to build * use -lomp * build configure before moving files * using wildcard for objects * Update .github/workflows/main.yml Co-authored-by: Nikita Titov * add explicit objects back * reduce allowed R CMD check NOTEs and catch stderr from build-cran-package on Windows * fixing things * pin autoconf version * show diff * add automake back * run less checks * command was in the wrong place * fix autoconf version * change strategy for handling configure * fix Rbuildignore * fix NOTEs * fix notes about unrecognized files * fixing extra files * remove USE_R35 * add OpenMP check for Mac CRAN build * run all checks * Apply suggestions from code review Co-authored-by: Nikita Titov * suggestions from code review * undo indenting * remove 03 from Makevars.win.in * update language about OpenMP in configure script * checking if configure.ac check works * add autoconf back * remove testing code in configure.ac * more fixes for CI on configure script * print git diff * add VERSION.txt when checking configure * fix relative paths * remove git diff Co-authored-by: Nikita Titov --- .ci/test_r_package.sh | 78 +- .ci/test_r_package_windows.ps1 | 97 +- .github/workflows/main.yml | 43 +- .gitignore | 3 + R-package/.Rbuildignore | 5 + R-package/AUTOCONF_UBUNTU_VERSION | 1 + R-package/README.md | 78 + R-package/configure | 2992 ++++++++++++++++++++++++++ R-package/configure.ac | 137 ++ R-package/configure.win | 63 + R-package/{src => inst}/Makevars | 0 R-package/{src => inst}/Makevars.win | 0 R-package/recreate-configure.sh | 24 + R-package/src/Makevars.in | 56 + R-package/src/Makevars.win.in | 57 + build-cran-package.sh | 90 + build_r.R | 26 +- include/LightGBM/utils/common.h | 10 +- 18 files changed, 3714 insertions(+), 46 deletions(-) create mode 100644 R-package/AUTOCONF_UBUNTU_VERSION create mode 100755 R-package/configure create mode 100644 R-package/configure.ac create mode 100755 R-package/configure.win rename R-package/{src => inst}/Makevars (100%) rename R-package/{src => inst}/Makevars.win (100%) create mode 100755 R-package/recreate-configure.sh create mode 100644 R-package/src/Makevars.in create mode 100644 R-package/src/Makevars.win.in create mode 100755 build-cran-package.sh diff --git a/.ci/test_r_package.sh b/.ci/test_r_package.sh index a1da983a1..a45b3a827 100755 --- a/.ci/test_r_package.sh +++ b/.ci/test_r_package.sh @@ -50,10 +50,25 @@ if [[ $AZURE != "true" ]] && [[ $OS_NAME == "linux" ]]; then texlive-fonts-extra \ qpdf \ || exit -1 + + # https://github.com/r-lib/actions/issues/111 + if [[ $R_BUILD_TYPE == "cran" ]]; then + sudo apt-get install \ + --no-install-recommends \ + -y \ + autoconf=$(cat R-package/AUTOCONF_UBUNTU_VERSION) \ + devscripts \ + || exit -1 + fi fi # Installing R precompiled for Mac OS 10.11 or higher if [[ $OS_NAME == "macos" ]]; then + if [[ $R_BUILD_TYPE == "cran" ]]; then + brew install \ + automake \ + checkbashisms + fi brew install qpdf brew cask install basictex export PATH="/Library/TeX/texbin:$PATH" @@ -109,10 +124,48 @@ if [[ $TASK == "r-package-check-docs" ]]; then fi cd ${BUILD_DIRECTORY} -Rscript build_r.R --skip-install || exit -1 PKG_TARBALL="lightgbm_${LGB_VER}.tar.gz" LOG_FILE_NAME="lightgbm.Rcheck/00check.log" +if [[ $R_BUILD_TYPE == "cmake" ]]; then + Rscript build_r.R --skip-install || exit -1 +elif [[ $R_BUILD_TYPE == "cran" ]]; then + + # on Linux, we recreate configure in CI to test if + # a change in a PR has changed configure.ac + if [[ $OS_NAME == "linux" ]]; then + cp VERSION.txt R-package/src/VERSION.txt + cd ${BUILD_DIRECTORY}/R-package + autoconf \ + --output configure \ + configure.ac \ + || exit -1 + cd ${BUILD_DIRECTORY} + + num_files_changed=$( + git diff --name-only | wc -l + ) + if [[ ${num_files_changed} -gt 0 ]]; then + echo "'configure' in the R package has changed. Please recreate it and commit the changes." + echo "Changed files:" + git diff --compact-summary + echo "See R-package/README.md for details on how to recreate this script." + echo "" + exit -1 + fi + fi + + ./build-cran-package.sh || exit -1 + + # Test CRAN source .tar.gz in a directory that is not this repo or below it. + # When people install.packages('lightgbm'), they won't have the LightGBM + # git repo around. This is to protect against the use of relative paths + # like ../../CMakeLists.txt that would only work if you are in the repo + R_CMD_CHECK_DIR="${HOME}/tmp-r-cmd-check/" + mkdir -p ${R_CMD_CHECK_DIR} + mv ${PKG_TARBALL} ${R_CMD_CHECK_DIR} + cd ${R_CMD_CHECK_DIR} +fi # fails tests if either ERRORs or WARNINGs are thrown by # R CMD CHECK @@ -134,7 +187,8 @@ while kill -0 ${CHECK_PID} >/dev/null 2>&1; do done echo "R CMD check build logs:" -cat ${BUILD_DIRECTORY}/lightgbm.Rcheck/00install.out +BUILD_LOG_FILE=lightgbm.Rcheck/00install.out +cat ${BUILD_LOG_FILE} if [[ $check_succeeded == "no" ]]; then exit -1 @@ -145,7 +199,11 @@ if grep -q -R "WARNING" "$LOG_FILE_NAME"; then exit -1 fi -ALLOWED_CHECK_NOTES=2 +if [[ $OS_NAME == "linux" ]] && [[ $R_BUILD_TYPE == "cran" ]]; then + ALLOWED_CHECK_NOTES=2 +else + ALLOWED_CHECK_NOTES=1 +fi NUM_CHECK_NOTES=$( cat ${LOG_FILE_NAME} \ | grep -e '^Status: .* NOTE.*' \ @@ -155,3 +213,17 @@ if [[ ${NUM_CHECK_NOTES} -gt ${ALLOWED_CHECK_NOTES} ]]; then echo "Found ${NUM_CHECK_NOTES} NOTEs from R CMD check. Only ${ALLOWED_CHECK_NOTES} are allowed" exit -1 fi + +# this check makes sure that CI builds of the CRAN package on Mac +# actually use OpenMP +if [[ $OS_NAME == "macos" ]] && [[ $R_BUILD_TYPE == "cran" ]]; then + omp_working=$( + cat $BUILD_LOG_FILE \ + | grep -E "checking whether OpenMP will work .*yes" \ + | wc -l + ) + if [[ $omp_working -ne 1 ]]; then + echo "OpenMP was not found, and should be when testing the CRAN package on macOS" + exit -1 + fi +fi diff --git a/.ci/test_r_package_windows.ps1 b/.ci/test_r_package_windows.ps1 index e29034a24..3349aac68 100644 --- a/.ci/test_r_package_windows.ps1 +++ b/.ci/test_r_package_windows.ps1 @@ -44,25 +44,21 @@ function Run-R-Code-Redirect-Stderr { Rscript --vanilla -e $decorated_code } -$env:R_LIB_PATH = "$env:BUILD_SOURCESDIRECTORY/RLibrary" -replace '[\\]', '/' -$env:R_LIBS = "$env:R_LIB_PATH" -$env:PATH = "$env:R_LIB_PATH/Rtools/bin;" + "$env:R_LIB_PATH/Rtools/usr/bin;" + "$env:R_LIB_PATH/R/bin/x64;" + "$env:R_LIB_PATH/miktex/texmfs/install/miktex/bin/x64;" + $env:PATH -$env:CRAN_MIRROR = "https://cloud.r-project.org/" -$env:CTAN_MIRROR = "https://ctan.math.illinois.edu/systems/win32/miktex" -$env:CTAN_MIKTEX_ARCHIVE = "$env:CTAN_MIRROR/setup/windows-x64/" -$env:CTAN_PACKAGE_ARCHIVE = "$env:CTAN_MIRROR/tm/packages/" - # Get details needed for installing R components # # NOTES: # * some paths and file names are different on R4.0 $env:R_MAJOR_VERSION = $env:R_VERSION.split('.')[0] if ($env:R_MAJOR_VERSION -eq "3") { - $env:RTOOLS_MINGW_BIN = "$env:R_LIB_PATH/Rtools/mingw_64/bin" + # Rtools 3.x has to be installed at C:\Rtools\ + # * https://stackoverflow.com/a/46619260/3986677 + $RTOOLS_INSTALL_PATH = "C:\Rtools" + $env:RTOOLS_MINGW_BIN = "$RTOOLS_INSTALL_PATH/mingw_64/bin" $env:RTOOLS_EXE_FILE = "Rtools35.exe" $env:R_WINDOWS_VERSION = "3.6.3" } elseif ($env:R_MAJOR_VERSION -eq "4") { - $env:RTOOLS_MINGW_BIN = "$env:R_LIB_PATH/Rtools/mingw64/bin" + $RTOOLS_INSTALL_PATH = "C:\rtools40" + $env:RTOOLS_MINGW_BIN = "$RTOOLS_INSTALL_PATH/mingw64/bin" $env:RTOOLS_EXE_FILE = "rtools40-x86_64.exe" $env:R_WINDOWS_VERSION = "4.0.2" } else { @@ -70,7 +66,15 @@ if ($env:R_MAJOR_VERSION -eq "3") { Check-Output $false } -if ($env:COMPILER -eq "MINGW") { +$env:R_LIB_PATH = "$env:BUILD_SOURCESDIRECTORY/RLibrary" -replace '[\\]', '/' +$env:R_LIBS = "$env:R_LIB_PATH" +$env:PATH = "$RTOOLS_INSTALL_PATH/bin;" + "$RTOOLS_INSTALL_PATH/usr/bin;" + "$env:R_LIB_PATH/R/bin/x64;" + "$env:R_LIB_PATH/miktex/texmfs/install/miktex/bin/x64;" + $env:PATH +$env:CRAN_MIRROR = "https://cloud.r-project.org/" +$env:CTAN_MIRROR = "https://ctan.math.illinois.edu/systems/win32/miktex" +$env:CTAN_MIKTEX_ARCHIVE = "$env:CTAN_MIRROR/setup/windows-x64/" +$env:CTAN_PACKAGE_ARCHIVE = "$env:CTAN_MIRROR/tm/packages/" + +if (($env:COMPILER -eq "MINGW") -and ($env:R_BUILD_TYPE -eq "cmake")) { $env:CXX = "$env:RTOOLS_MINGW_BIN/g++.exe" $env:CC = "$env:RTOOLS_MINGW_BIN/gcc.exe" } @@ -78,20 +82,23 @@ if ($env:COMPILER -eq "MINGW") { cd $env:BUILD_SOURCESDIRECTORY tzutil /s "GMT Standard Time" [Void][System.IO.Directory]::CreateDirectory($env:R_LIB_PATH) +$env:LGB_VER = Get-Content -Path VERSION.txt -TotalCount 1 -if ($env:TOOLCHAIN -eq "MINGW") { - Write-Output "Telling R to use MinGW" - $install_libs = "$env:BUILD_SOURCESDIRECTORY/R-package/src/install.libs.R" - ((Get-Content -Path $install_libs -Raw) -Replace 'use_mingw <- FALSE','use_mingw <- TRUE') | Set-Content -Path $install_libs -} elseif ($env:TOOLCHAIN -eq "MSYS") { - Write-Output "Telling R to use MSYS" - $install_libs = "$env:BUILD_SOURCESDIRECTORY/R-package/src/install.libs.R" - ((Get-Content -Path $install_libs -Raw) -Replace 'use_msys2 <- FALSE','use_msys2 <- TRUE') | Set-Content -Path $install_libs -} elseif ($env:TOOLCHAIN -eq "MSVC") { - # no customization for MSVC -} else { - Write-Output "[ERROR] Unrecognized compiler: $env:TOOLCHAIN" - Check-Output $false +if ($env:R_BUILD_TYPE -eq "cmake") { + if ($env:TOOLCHAIN -eq "MINGW") { + Write-Output "Telling R to use MinGW" + $install_libs = "$env:BUILD_SOURCESDIRECTORY/R-package/src/install.libs.R" + ((Get-Content -Path $install_libs -Raw) -Replace 'use_mingw <- FALSE','use_mingw <- TRUE') | Set-Content -Path $install_libs + } elseif ($env:TOOLCHAIN -eq "MSYS") { + Write-Output "Telling R to use MSYS" + $install_libs = "$env:BUILD_SOURCESDIRECTORY/R-package/src/install.libs.R" + ((Get-Content -Path $install_libs -Raw) -Replace 'use_msys2 <- FALSE','use_msys2 <- TRUE') | Set-Content -Path $install_libs + } elseif ($env:TOOLCHAIN -eq "MSVC") { + # no customization for MSVC + } else { + Write-Output "[ERROR] Unrecognized toolchain: $env:TOOLCHAIN" + Check-Output $false + } } # download R and RTools @@ -105,16 +112,18 @@ Start-Process -FilePath R-win.exe -NoNewWindow -Wait -ArgumentList "/VERYSILENT Write-Output "Done installing R" Write-Output "Installing Rtools" -Start-Process -FilePath Rtools.exe -NoNewWindow -Wait -ArgumentList "/VERYSILENT /DIR=$env:R_LIB_PATH/Rtools" ; Check-Output $? +Start-Process -FilePath Rtools.exe -NoNewWindow -Wait -ArgumentList "/VERYSILENT /DIR=$RTOOLS_INSTALL_PATH" ; Check-Output $? Write-Output "Done installing Rtools" Write-Output "Installing dependencies" $packages = "c('data.table', 'jsonlite', 'Matrix', 'processx', 'R6', 'testthat'), dependencies = c('Imports', 'Depends', 'LinkingTo')" Run-R-Code-Redirect-Stderr "options(install.packages.check.source = 'no'); install.packages($packages, repos = '$env:CRAN_MIRROR', type = 'binary', lib = '$env:R_LIB_PATH')" ; Check-Output $? -# MiKTeX and pandoc can be skipped on MSVC builds, since we don't -# build the package documentation for those -if ($env:COMPILER -ne "MSVC") { +# MiKTeX and pandoc can be skipped on non-MinGW builds, since we don't +# build the package documentation for those. +# +# MiKTeX always needs to be built to test a CRAN package. +if (($env:COMPILER -eq "MINGW") -or ($env:R_BUILD_TYPE -eq "cran")) { Download-Miktex-Setup "$env:CTAN_MIKTEX_ARCHIVE" "miktexsetup-x64.zip" Add-Type -AssemblyName System.IO.Compression.FileSystem [System.IO.Compression.ZipFile]::ExtractToDirectory("miktexsetup-x64.zip", "miktex") @@ -132,17 +141,29 @@ Write-Output "Building R package" # R CMD check is not used for MSVC builds if ($env:COMPILER -ne "MSVC") { - Run-R-Code-Redirect-Stderr "commandArgs <- function(...){'--skip-install'}; source('build_r.R')"; Check-Output $? - $PKG_FILE_NAME = Get-Item *.tar.gz - $PKG_FILE_NAME = $PKG_FILE_NAME -replace '[\\]', '/' + $PKG_FILE_NAME = "lightgbm_$env:LGB_VER.tar.gz" $LOG_FILE_NAME = "lightgbm.Rcheck/00check.log" + if ($env:R_BUILD_TYPE -eq "cmake") { + Run-R-Code-Redirect-Stderr "commandArgs <- function(...){'--skip-install'}; source('build_r.R')"; Check-Output $? + } elseif ($env:R_BUILD_TYPE -eq "cran") { + Run-R-Code-Redirect-Stderr "result <- processx::run(command = 'sh', args = 'build-cran-package.sh', echo = TRUE, windows_verbatim_args = FALSE)" ; Check-Output $? + # Test CRAN source .tar.gz in a directory that is not this repo or below it. + # When people install.packages('lightgbm'), they won't have the LightGBM + # git repo around. This is to protect against the use of relative paths + # like ../../CMakeLists.txt that would only work if you are in the repoo + $R_CMD_CHECK_DIR = "tmp-r-cmd-check" + New-Item -Path "C:\" -Name $R_CMD_CHECK_DIR -ItemType "directory" > $null + Move-Item -Path "$PKG_FILE_NAME" -Destination "C:\$R_CMD_CHECK_DIR\" > $null + cd "C:\$R_CMD_CHECK_DIR\" + } + Write-Output "Running R CMD check as CRAN" Run-R-Code-Redirect-Stderr "result <- processx::run(command = 'R.exe', args = c('CMD', 'check', '--no-multiarch', '--as-cran', '$PKG_FILE_NAME'), echo = TRUE, windows_verbatim_args = FALSE)" ; $check_succeeded = $? Write-Output "R CMD check build logs:" - $INSTALL_LOG_FILE_NAME = "$env:BUILD_SOURCESDIRECTORY\lightgbm.Rcheck\00install.out" + $INSTALL_LOG_FILE_NAME = "lightgbm.Rcheck\00install.out" Get-Content -Path "$INSTALL_LOG_FILE_NAME" Check-Output $check_succeeded @@ -174,15 +195,17 @@ if ($env:COMPILER -ne "MSVC") { # Checking that we actually got the expected compiler. The R package has some logic # to fail back to MinGW if MSVC fails, but for CI builds we need to check that the correct # compiler was used. -$checks = Select-String -Path "${INSTALL_LOG_FILE_NAME}" -Pattern "Check for working CXX compiler.*$env:COMPILER" -if ($checks.Matches.length -eq 0) { - Write-Output "The wrong compiler was used. Check the build logs." - Check-Output $False +if ($env:R_BUILD_TYPE -eq "cmake") { + $checks = Select-String -Path "${INSTALL_LOG_FILE_NAME}" -Pattern "Check for working CXX compiler.*$env:COMPILER" + if ($checks.Matches.length -eq 0) { + Write-Output "The wrong compiler was used. Check the build logs." + Check-Output $False + } } # Checking that we got the right toolchain for MinGW. If using MinGW, both # MinGW and MSYS toolchains are supported -if ($env:COMPILER -eq "MINGW") { +if (($env:COMPILER -eq "MINGW") -and ($env:R_BUILD_TYPE -eq "cmake")) { $checks = Select-String -Path "${INSTALL_LOG_FILE_NAME}" -Pattern "Trying to build with.*$env:TOOLCHAIN" if ($checks.Matches.length -eq 0) { Write-Output "The wrong toolchain was used. Check the build logs." diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index bc9ef6cba..cd3f71ba8 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -10,71 +10,110 @@ on: jobs: test: - name: ${{ matrix.task }} (${{ matrix.os }}, ${{ matrix.compiler }}, R ${{ matrix.r_version }}) + name: ${{ matrix.task }} (${{ matrix.os }}, ${{ matrix.compiler }}, R ${{ matrix.r_version }}, ${{ matrix.build_type }}) runs-on: ${{ matrix.os }} strategy: fail-fast: false matrix: include: + ################ + # CMake builds # + ################ - os: ubuntu-latest task: r-package compiler: gcc r_version: 3.6 + build_type: cmake - os: ubuntu-latest task: r-package compiler: gcc r_version: 4.0 + build_type: cmake - os: ubuntu-latest task: r-package compiler: clang r_version: 3.6 + build_type: cmake - os: ubuntu-latest task: r-package compiler: clang r_version: 4.0 + build_type: cmake - os: ubuntu-latest task: r-package-check-docs compiler: gcc r_version: 4.0 + build_type: cmake - os: macOS-latest task: r-package compiler: gcc r_version: 3.6 + build_type: cmake - os: macOS-latest task: r-package compiler: gcc r_version: 4.0 + build_type: cmake - os: macOS-latest task: r-package compiler: clang r_version: 3.6 + build_type: cmake - os: macOS-latest task: r-package compiler: clang r_version: 4.0 + build_type: cmake - os: windows-latest task: r-package compiler: MINGW toolchain: MINGW r_version: 3.6 + build_type: cmake - os: windows-latest task: r-package compiler: MINGW toolchain: MSYS r_version: 4.0 + build_type: cmake # Visual Studio 2017 - os: windows-2016 task: r-package compiler: MSVC toolchain: MSVC r_version: 3.6 + build_type: cmake # Visual Studio 2019 - os: windows-2019 task: r-package compiler: MSVC toolchain: MSVC r_version: 4.0 + build_type: cmake + ############### + # CRAN builds # + ############### + - os: windows-latest + task: r-package + compiler: MINGW + toolchain: MSYS + r_version: 4.0 + build_type: cran + - os: ubuntu-latest + task: r-package + compiler: gcc + r_version: 4.0 + build_type: cran + - os: macOS-latest + task: r-package + compiler: clang + r_version: 4.0 + build_type: cran steps: + - name: Prevent conversion of line endings on Windows + if: startsWith(matrix.os, 'windows') + shell: pwsh + run: git config --global core.autocrlf false - name: Checkout repository uses: actions/checkout@v1 with: @@ -100,6 +139,7 @@ jobs: export PATH="$CONDA/bin:${HOME}/.local/bin:$PATH" export LGB_VER=$(head -n 1 VERSION.txt) export R_VERSION="${{ matrix.r_version }}" + export R_BUILD_TYPE="${{ matrix.build_type }}" $GITHUB_WORKSPACE/.ci/setup.sh $GITHUB_WORKSPACE/.ci/test.sh - name: Use conda on Windows @@ -114,6 +154,7 @@ jobs: $env:BUILD_SOURCESDIRECTORY = $env:GITHUB_WORKSPACE $env:TOOLCHAIN = "${{ matrix.toolchain }}" $env:R_VERSION = "${{ matrix.r_version }}" + $env:R_BUILD_TYPE = "${{ matrix.build_type }}" $env:COMPILER = "${{ matrix.compiler }}" $env:GITHUB_ACTIONS = "true" $env:TASK = "${{ matrix.task }}" diff --git a/.gitignore b/.gitignore index a8dd59f2a..c0e3dc53f 100644 --- a/.gitignore +++ b/.gitignore @@ -399,12 +399,15 @@ python-package/compile/ python-package/lightgbm/VERSION.txt # R build artefacts +**/autom4te.cache/ R-package/docs R-package/src/CMakeLists.txt R-package/src/lib_lightgbm.so.dSYM/ R-package/src/src/ R-package/src-x64 R-package/src-i386 +R-package/**/VERSION.txt +**/Makevars.win lightgbm_r/* lightgbm*.tar.gz lightgbm.Rcheck/ diff --git a/R-package/.Rbuildignore b/R-package/.Rbuildignore index b14392510..301b5c86a 100644 --- a/R-package/.Rbuildignore +++ b/R-package/.Rbuildignore @@ -14,6 +14,11 @@ ^src/CMakeLists.txt$ ^Makefile$ ^src/build/.*$ +^autom4te.cache/.*$ + +# files only used during development +AUTOCONF_UBUNTU_VERSION +^recreate-configure\.sh$ # unnecessary files from submodules ^src/compute/.appveyor.yml$ diff --git a/R-package/AUTOCONF_UBUNTU_VERSION b/R-package/AUTOCONF_UBUNTU_VERSION new file mode 100644 index 000000000..212138979 --- /dev/null +++ b/R-package/AUTOCONF_UBUNTU_VERSION @@ -0,0 +1 @@ +2.69-11 diff --git a/R-package/README.md b/R-package/README.md index b1b307324..391b08583 100644 --- a/R-package/README.md +++ b/R-package/README.md @@ -6,6 +6,7 @@ LightGBM R-package * [Installation](#installation) * [Examples](#examples) * [Testing](#testing) +* [Preparing a CRAN Package and Installing It](#preparing-a-cran-package-and-installing-it) * [External Repositories](#external-unofficial-repositories) * [Known Issues](#known-issues) @@ -143,6 +144,83 @@ Rscript -e " \ " ``` +Preparing a CRAN Package and Installing It +------------------------------------------ + +This section is primarily for maintainers, but may help users and contributors to understand the structure of the R package. + +Most of `LightGBM` uses `CMake` to handle tasks like setting compiler and linker flags, including header file locations, and linking to other libraries. Because CRAN packages typically do not assume the presence of `CMake`, the R package uses an alternative method that is in the CRAN-supported toolchain for building R packages with C++ code: `Autoconf`. + +For more information on this approach, see ["Writing R Extensions"](https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Configure-and-cleanup). + +### Build a CRAN Package + +From the root of the repository, run the following. + +```shell +sh build-cran-package.sh +``` + +This will create a file `lightgbm_${VERSION}.tar.gz`, where `VERSION` is the version of `LightGBM`. + +### Standard Installation from CRAN Package + +After building the package, install it with a command like the following: + +```shell +R CMD install lightgbm_*.tar.gz +``` + +#### Custom Installation (Linux, Mac) + +To change the compiler used when installing the package, you can create a file `~/.R/Makevars` which overrides `CC` (`C` compiler) and `CXX` (`C++` compiler). For example, to use `gcc` instead of `clang` on Mac, you could use something like the following: + +```make +# ~/.R/Makevars +CC=gcc-8 +CXX=g++-8 +CXX11=g++-8 +``` + +### Changing the CRAN Package + +A lot of details are handled automatically by `R CMD build` and `R CMD install`, so it can be difficult to understand how the files in the R package are related to each other. An extensive treatment of those details is available in ["Writing R Extensions"](https://cran.r-project.org/doc/manuals/r-release/R-exts.html). + +This section briefly explains the key files for building a CRAN package. To update the package, edit the files relevant to your change and re-run the steps in [Build a CRAN Package](#build-a-cran-package). + +**Linux or Mac** + +At build time, `configure` will be run and used to create a file `Makevars`, using `Makevars.in` as a template. + +1. Edit `configure.ac` +2. Create `configure` with `autoconf`. Do not edit it by hand. This file must be generated on Ubuntu 18.04. + + If you have an Ubuntu 18.04 environment available, run the provided script from the root of the `LightGBM` repository. + + ```shell + ./R-package/recreate-configure.sh + ``` + + If you do not have easy access to an Ubuntu 18.04 environment, the `configure` script can be generated using Docker. + + ```shell + docker run \ + -v $(pwd):/opt/LightGBM \ + -t ubuntu:18.04 \ + /bin/bash -c "cd /opt/LightGBM && ./R-package/recreate-configure.sh" + ``` + + The version of `autoconf` used by this project is stored in `R-package/AUTOCONF_UBUNTU_VERSION`. To update that version, update that file and run the commands above. To see available versions, see https://packages.ubuntu.com/search?keywords=autoconf. + +3. Edit `src/Makevars.in` + +**Configuring for Windows** + +At build time, `configure.win` will be run and used to create a file `Makevars.win`, using `Makevars.win.in` as a template. + +1. Edit `configure.win` directly +2. Edit `src/Makevars.win.in` + External (Unofficial) Repositories ---------------------------------- diff --git a/R-package/configure b/R-package/configure new file mode 100755 index 000000000..c8a7059bb --- /dev/null +++ b/R-package/configure @@ -0,0 +1,2992 @@ +#! /bin/sh +# Guess values for system-dependent variables and create Makefiles. +# Generated by GNU Autoconf 2.69 for lightgbm 2.3.2. +# +# +# Copyright (C) 1992-1996, 1998-2012 Free Software Foundation, Inc. +# +# +# This configure script is free software; the Free Software Foundation +# gives unlimited permission to copy, distribute and modify it. +## -------------------- ## +## M4sh Initialization. ## +## -------------------- ## + +# Be more Bourne compatible +DUALCASE=1; export DUALCASE # for MKS sh +if test -n "${ZSH_VERSION+set}" && (emulate sh) >/dev/null 2>&1; then : + emulate sh + NULLCMD=: + # Pre-4.2 versions of Zsh do word splitting on ${1+"$@"}, which + # is contrary to our usage. Disable this feature. + alias -g '${1+"$@"}'='"$@"' + setopt NO_GLOB_SUBST +else + case `(set -o) 2>/dev/null` in #( + *posix*) : + set -o posix ;; #( + *) : + ;; +esac +fi + + +as_nl=' +' +export as_nl +# Printing a long string crashes Solaris 7 /usr/bin/printf. +as_echo='\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\' +as_echo=$as_echo$as_echo$as_echo$as_echo$as_echo +as_echo=$as_echo$as_echo$as_echo$as_echo$as_echo$as_echo +# Prefer a ksh shell builtin over an external printf program on Solaris, +# but without wasting forks for bash or zsh. +if test -z "$BASH_VERSION$ZSH_VERSION" \ + && (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then + as_echo='print -r --' + as_echo_n='print -rn --' +elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then + as_echo='printf %s\n' + as_echo_n='printf %s' +else + if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then + as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"' + as_echo_n='/usr/ucb/echo -n' + else + as_echo_body='eval expr "X$1" : "X\\(.*\\)"' + as_echo_n_body='eval + arg=$1; + case $arg in #( + *"$as_nl"*) + expr "X$arg" : "X\\(.*\\)$as_nl"; + arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;; + esac; + expr "X$arg" : "X\\(.*\\)" | tr -d "$as_nl" + ' + export as_echo_n_body + as_echo_n='sh -c $as_echo_n_body as_echo' + fi + export as_echo_body + as_echo='sh -c $as_echo_body as_echo' +fi + +# The user is always right. +if test "${PATH_SEPARATOR+set}" != set; then + PATH_SEPARATOR=: + (PATH='/bin;/bin'; FPATH=$PATH; sh -c :) >/dev/null 2>&1 && { + (PATH='/bin:/bin'; FPATH=$PATH; sh -c :) >/dev/null 2>&1 || + PATH_SEPARATOR=';' + } +fi + + +# IFS +# We need space, tab and new line, in precisely that order. Quoting is +# there to prevent editors from complaining about space-tab. +# (If _AS_PATH_WALK were called with IFS unset, it would disable word +# splitting by setting IFS to empty value.) +IFS=" "" $as_nl" + +# Find who we are. Look in the path if we contain no directory separator. +as_myself= +case $0 in #(( + *[\\/]* ) as_myself=$0 ;; + *) as_save_IFS=$IFS; IFS=$PATH_SEPARATOR +for as_dir in $PATH +do + IFS=$as_save_IFS + test -z "$as_dir" && as_dir=. + test -r "$as_dir/$0" && as_myself=$as_dir/$0 && break + done +IFS=$as_save_IFS + + ;; +esac +# We did not find ourselves, most probably we were run as `sh COMMAND' +# in which case we are not to be found in the path. +if test "x$as_myself" = x; then + as_myself=$0 +fi +if test ! -f "$as_myself"; then + $as_echo "$as_myself: error: cannot find myself; rerun with an absolute file name" >&2 + exit 1 +fi + +# Unset variables that we do not need and which cause bugs (e.g. in +# pre-3.0 UWIN ksh). But do not cause bugs in bash 2.01; the "|| exit 1" +# suppresses any "Segmentation fault" message there. '((' could +# trigger a bug in pdksh 5.2.14. +for as_var in BASH_ENV ENV MAIL MAILPATH +do eval test x\${$as_var+set} = xset \ + && ( (unset $as_var) || exit 1) >/dev/null 2>&1 && unset $as_var || : +done +PS1='$ ' +PS2='> ' +PS4='+ ' + +# NLS nuisances. +LC_ALL=C +export LC_ALL +LANGUAGE=C +export LANGUAGE + +# CDPATH. +(unset CDPATH) >/dev/null 2>&1 && unset CDPATH + +# Use a proper internal environment variable to ensure we don't fall + # into an infinite loop, continuously re-executing ourselves. + if test x"${_as_can_reexec}" != xno && test "x$CONFIG_SHELL" != x; then + _as_can_reexec=no; export _as_can_reexec; + # We cannot yet assume a decent shell, so we have to provide a +# neutralization value for shells without unset; and this also +# works around shells that cannot unset nonexistent variables. +# Preserve -v and -x to the replacement shell. +BASH_ENV=/dev/null +ENV=/dev/null +(unset BASH_ENV) >/dev/null 2>&1 && unset BASH_ENV ENV +case $- in # (((( + *v*x* | *x*v* ) as_opts=-vx ;; + *v* ) as_opts=-v ;; + *x* ) as_opts=-x ;; + * ) as_opts= ;; +esac +exec $CONFIG_SHELL $as_opts "$as_myself" ${1+"$@"} +# Admittedly, this is quite paranoid, since all the known shells bail +# out after a failed `exec'. +$as_echo "$0: could not re-execute with $CONFIG_SHELL" >&2 +as_fn_exit 255 + fi + # We don't want this to propagate to other subprocesses. + { _as_can_reexec=; unset _as_can_reexec;} +if test "x$CONFIG_SHELL" = x; then + as_bourne_compatible="if test -n \"\${ZSH_VERSION+set}\" && (emulate sh) >/dev/null 2>&1; then : + emulate sh + NULLCMD=: + # Pre-4.2 versions of Zsh do word splitting on \${1+\"\$@\"}, which + # is contrary to our usage. Disable this feature. + alias -g '\${1+\"\$@\"}'='\"\$@\"' + setopt NO_GLOB_SUBST +else + case \`(set -o) 2>/dev/null\` in #( + *posix*) : + set -o posix ;; #( + *) : + ;; +esac +fi +" + as_required="as_fn_return () { (exit \$1); } +as_fn_success () { as_fn_return 0; } +as_fn_failure () { as_fn_return 1; } +as_fn_ret_success () { return 0; } +as_fn_ret_failure () { return 1; } + +exitcode=0 +as_fn_success || { exitcode=1; echo as_fn_success failed.; } +as_fn_failure && { exitcode=1; echo as_fn_failure succeeded.; } +as_fn_ret_success || { exitcode=1; echo as_fn_ret_success failed.; } +as_fn_ret_failure && { exitcode=1; echo as_fn_ret_failure succeeded.; } +if ( set x; as_fn_ret_success y && test x = \"\$1\" ); then : + +else + exitcode=1; echo positional parameters were not saved. +fi +test x\$exitcode = x0 || exit 1 +test -x / || exit 1" + as_suggested=" as_lineno_1=";as_suggested=$as_suggested$LINENO;as_suggested=$as_suggested" as_lineno_1a=\$LINENO + as_lineno_2=";as_suggested=$as_suggested$LINENO;as_suggested=$as_suggested" as_lineno_2a=\$LINENO + eval 'test \"x\$as_lineno_1'\$as_run'\" != \"x\$as_lineno_2'\$as_run'\" && + test \"x\`expr \$as_lineno_1'\$as_run' + 1\`\" = \"x\$as_lineno_2'\$as_run'\"' || exit 1" + if (eval "$as_required") 2>/dev/null; then : + as_have_required=yes +else + as_have_required=no +fi + if test x$as_have_required = xyes && (eval "$as_suggested") 2>/dev/null; then : + +else + as_save_IFS=$IFS; IFS=$PATH_SEPARATOR +as_found=false +for as_dir in /bin$PATH_SEPARATOR/usr/bin$PATH_SEPARATOR$PATH +do + IFS=$as_save_IFS + test -z "$as_dir" && as_dir=. + as_found=: + case $as_dir in #( + /*) + for as_base in sh bash ksh sh5; do + # Try only shells that exist, to save several forks. + as_shell=$as_dir/$as_base + if { test -f "$as_shell" || test -f "$as_shell.exe"; } && + { $as_echo "$as_bourne_compatible""$as_required" | as_run=a "$as_shell"; } 2>/dev/null; then : + CONFIG_SHELL=$as_shell as_have_required=yes + if { $as_echo "$as_bourne_compatible""$as_suggested" | as_run=a "$as_shell"; } 2>/dev/null; then : + break 2 +fi +fi + done;; + esac + as_found=false +done +$as_found || { if { test -f "$SHELL" || test -f "$SHELL.exe"; } && + { $as_echo "$as_bourne_compatible""$as_required" | as_run=a "$SHELL"; } 2>/dev/null; then : + CONFIG_SHELL=$SHELL as_have_required=yes +fi; } +IFS=$as_save_IFS + + + if test "x$CONFIG_SHELL" != x; then : + export CONFIG_SHELL + # We cannot yet assume a decent shell, so we have to provide a +# neutralization value for shells without unset; and this also +# works around shells that cannot unset nonexistent variables. +# Preserve -v and -x to the replacement shell. +BASH_ENV=/dev/null +ENV=/dev/null +(unset BASH_ENV) >/dev/null 2>&1 && unset BASH_ENV ENV +case $- in # (((( + *v*x* | *x*v* ) as_opts=-vx ;; + *v* ) as_opts=-v ;; + *x* ) as_opts=-x ;; + * ) as_opts= ;; +esac +exec $CONFIG_SHELL $as_opts "$as_myself" ${1+"$@"} +# Admittedly, this is quite paranoid, since all the known shells bail +# out after a failed `exec'. +$as_echo "$0: could not re-execute with $CONFIG_SHELL" >&2 +exit 255 +fi + + if test x$as_have_required = xno; then : + $as_echo "$0: This script requires a shell more modern than all" + $as_echo "$0: the shells that I found on your system." + if test x${ZSH_VERSION+set} = xset ; then + $as_echo "$0: In particular, zsh $ZSH_VERSION has bugs and should" + $as_echo "$0: be upgraded to zsh 4.3.4 or later." + else + $as_echo "$0: Please tell bug-autoconf@gnu.org about your system, +$0: including any error possibly output before this +$0: message. Then install a modern shell, or manually run +$0: the script under such a shell if you do have one." + fi + exit 1 +fi +fi +fi +SHELL=${CONFIG_SHELL-/bin/sh} +export SHELL +# Unset more variables known to interfere with behavior of common tools. +CLICOLOR_FORCE= GREP_OPTIONS= +unset CLICOLOR_FORCE GREP_OPTIONS + +## --------------------- ## +## M4sh Shell Functions. ## +## --------------------- ## +# as_fn_unset VAR +# --------------- +# Portably unset VAR. +as_fn_unset () +{ + { eval $1=; unset $1;} +} +as_unset=as_fn_unset + +# as_fn_set_status STATUS +# ----------------------- +# Set $? to STATUS, without forking. +as_fn_set_status () +{ + return $1 +} # as_fn_set_status + +# as_fn_exit STATUS +# ----------------- +# Exit the shell with STATUS, even in a "trap 0" or "set -e" context. +as_fn_exit () +{ + set +e + as_fn_set_status $1 + exit $1 +} # as_fn_exit + +# as_fn_mkdir_p +# ------------- +# Create "$as_dir" as a directory, including parents if necessary. +as_fn_mkdir_p () +{ + + case $as_dir in #( + -*) as_dir=./$as_dir;; + esac + test -d "$as_dir" || eval $as_mkdir_p || { + as_dirs= + while :; do + case $as_dir in #( + *\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'( + *) as_qdir=$as_dir;; + esac + as_dirs="'$as_qdir' $as_dirs" + as_dir=`$as_dirname -- "$as_dir" || +$as_expr X"$as_dir" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \ + X"$as_dir" : 'X\(//\)[^/]' \| \ + X"$as_dir" : 'X\(//\)$' \| \ + X"$as_dir" : 'X\(/\)' \| . 2>/dev/null || +$as_echo X"$as_dir" | + sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ + s//\1/ + q + } + /^X\(\/\/\)[^/].*/{ + s//\1/ + q + } + /^X\(\/\/\)$/{ + s//\1/ + q + } + /^X\(\/\).*/{ + s//\1/ + q + } + s/.*/./; q'` + test -d "$as_dir" && break + done + test -z "$as_dirs" || eval "mkdir $as_dirs" + } || test -d "$as_dir" || as_fn_error $? "cannot create directory $as_dir" + + +} # as_fn_mkdir_p + +# as_fn_executable_p FILE +# ----------------------- +# Test if FILE is an executable regular file. +as_fn_executable_p () +{ + test -f "$1" && test -x "$1" +} # as_fn_executable_p +# as_fn_append VAR VALUE +# ---------------------- +# Append the text in VALUE to the end of the definition contained in VAR. Take +# advantage of any shell optimizations that allow amortized linear growth over +# repeated appends, instead of the typical quadratic growth present in naive +# implementations. +if (eval "as_var=1; as_var+=2; test x\$as_var = x12") 2>/dev/null; then : + eval 'as_fn_append () + { + eval $1+=\$2 + }' +else + as_fn_append () + { + eval $1=\$$1\$2 + } +fi # as_fn_append + +# as_fn_arith ARG... +# ------------------ +# Perform arithmetic evaluation on the ARGs, and store the result in the +# global $as_val. Take advantage of shells that can avoid forks. The arguments +# must be portable across $(()) and expr. +if (eval "test \$(( 1 + 1 )) = 2") 2>/dev/null; then : + eval 'as_fn_arith () + { + as_val=$(( $* )) + }' +else + as_fn_arith () + { + as_val=`expr "$@" || test $? -eq 1` + } +fi # as_fn_arith + + +# as_fn_error STATUS ERROR [LINENO LOG_FD] +# ---------------------------------------- +# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are +# provided, also output the error to LOG_FD, referencing LINENO. Then exit the +# script with STATUS, using 1 if that was 0. +as_fn_error () +{ + as_status=$1; test $as_status -eq 0 && as_status=1 + if test "$4"; then + as_lineno=${as_lineno-"$3"} as_lineno_stack=as_lineno_stack=$as_lineno_stack + $as_echo "$as_me:${as_lineno-$LINENO}: error: $2" >&$4 + fi + $as_echo "$as_me: error: $2" >&2 + as_fn_exit $as_status +} # as_fn_error + +if expr a : '\(a\)' >/dev/null 2>&1 && + test "X`expr 00001 : '.*\(...\)'`" = X001; then + as_expr=expr +else + as_expr=false +fi + +if (basename -- /) >/dev/null 2>&1 && test "X`basename -- / 2>&1`" = "X/"; then + as_basename=basename +else + as_basename=false +fi + +if (as_dir=`dirname -- /` && test "X$as_dir" = X/) >/dev/null 2>&1; then + as_dirname=dirname +else + as_dirname=false +fi + +as_me=`$as_basename -- "$0" || +$as_expr X/"$0" : '.*/\([^/][^/]*\)/*$' \| \ + X"$0" : 'X\(//\)$' \| \ + X"$0" : 'X\(/\)' \| . 2>/dev/null || +$as_echo X/"$0" | + sed '/^.*\/\([^/][^/]*\)\/*$/{ + s//\1/ + q + } + /^X\/\(\/\/\)$/{ + s//\1/ + q + } + /^X\/\(\/\).*/{ + s//\1/ + q + } + s/.*/./; q'` + +# Avoid depending upon Character Ranges. +as_cr_letters='abcdefghijklmnopqrstuvwxyz' +as_cr_LETTERS='ABCDEFGHIJKLMNOPQRSTUVWXYZ' +as_cr_Letters=$as_cr_letters$as_cr_LETTERS +as_cr_digits='0123456789' +as_cr_alnum=$as_cr_Letters$as_cr_digits + + + as_lineno_1=$LINENO as_lineno_1a=$LINENO + as_lineno_2=$LINENO as_lineno_2a=$LINENO + eval 'test "x$as_lineno_1'$as_run'" != "x$as_lineno_2'$as_run'" && + test "x`expr $as_lineno_1'$as_run' + 1`" = "x$as_lineno_2'$as_run'"' || { + # Blame Lee E. McMahon (1931-1989) for sed's syntax. :-) + sed -n ' + p + /[$]LINENO/= + ' <$as_myself | + sed ' + s/[$]LINENO.*/&-/ + t lineno + b + :lineno + N + :loop + s/[$]LINENO\([^'$as_cr_alnum'_].*\n\)\(.*\)/\2\1\2/ + t loop + s/-\n.*// + ' >$as_me.lineno && + chmod +x "$as_me.lineno" || + { $as_echo "$as_me: error: cannot create $as_me.lineno; rerun with a POSIX shell" >&2; as_fn_exit 1; } + + # If we had to re-execute with $CONFIG_SHELL, we're ensured to have + # already done that, so ensure we don't try to do so again and fall + # in an infinite loop. This has already happened in practice. + _as_can_reexec=no; export _as_can_reexec + # Don't try to exec as it changes $[0], causing all sort of problems + # (the dirname of $[0] is not the place where we might find the + # original and so on. Autoconf is especially sensitive to this). + . "./$as_me.lineno" + # Exit status is that of the last command. + exit +} + +ECHO_C= ECHO_N= ECHO_T= +case `echo -n x` in #((((( +-n*) + case `echo 'xy\c'` in + *c*) ECHO_T=' ';; # ECHO_T is single tab character. + xy) ECHO_C='\c';; + *) echo `echo ksh88 bug on AIX 6.1` > /dev/null + ECHO_T=' ';; + esac;; +*) + ECHO_N='-n';; +esac + +rm -f conf$$ conf$$.exe conf$$.file +if test -d conf$$.dir; then + rm -f conf$$.dir/conf$$.file +else + rm -f conf$$.dir + mkdir conf$$.dir 2>/dev/null +fi +if (echo >conf$$.file) 2>/dev/null; then + if ln -s conf$$.file conf$$ 2>/dev/null; then + as_ln_s='ln -s' + # ... but there are two gotchas: + # 1) On MSYS, both `ln -s file dir' and `ln file dir' fail. + # 2) DJGPP < 2.04 has no symlinks; `ln -s' creates a wrapper executable. + # In both cases, we have to default to `cp -pR'. + ln -s conf$$.file conf$$.dir 2>/dev/null && test ! -f conf$$.exe || + as_ln_s='cp -pR' + elif ln conf$$.file conf$$ 2>/dev/null; then + as_ln_s=ln + else + as_ln_s='cp -pR' + fi +else + as_ln_s='cp -pR' +fi +rm -f conf$$ conf$$.exe conf$$.dir/conf$$.file conf$$.file +rmdir conf$$.dir 2>/dev/null + +if mkdir -p . 2>/dev/null; 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"$LINENO" 5 +ac_tmp=$tmp + +# Set up the scripts for CONFIG_FILES section. +# No need to generate them if there are no CONFIG_FILES. +# This happens for instance with `./config.status config.h'. +if test -n "$CONFIG_FILES"; then + + +ac_cr=`echo X | tr X '\015'` +# On cygwin, bash can eat \r inside `` if the user requested igncr. +# But we know of no other shell where ac_cr would be empty at this +# point, so we can use a bashism as a fallback. +if test "x$ac_cr" = x; then + eval ac_cr=\$\'\\r\' +fi +ac_cs_awk_cr=`$AWK 'BEGIN { print "a\rb" }' /dev/null` +if test "$ac_cs_awk_cr" = "a${ac_cr}b"; then + ac_cs_awk_cr='\\r' +else + ac_cs_awk_cr=$ac_cr +fi + +echo 'BEGIN {' >"$ac_tmp/subs1.awk" && +_ACEOF + + +{ + echo "cat >conf$$subs.awk <<_ACEOF" && + echo "$ac_subst_vars" | sed 's/.*/&!$&$ac_delim/' && + echo "_ACEOF" +} >conf$$subs.sh || + as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5 +ac_delim_num=`echo "$ac_subst_vars" | grep -c '^'` +ac_delim='%!_!# ' +for ac_last_try in false false false false false :; do + . ./conf$$subs.sh || + as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5 + + ac_delim_n=`sed -n "s/.*$ac_delim\$/X/p" conf$$subs.awk | grep -c X` + if test $ac_delim_n = $ac_delim_num; then + break + elif $ac_last_try; then + as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5 + else + ac_delim="$ac_delim!$ac_delim _$ac_delim!! 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"could not setup config files machinery" "$LINENO" 5 +_ACEOF + +# VPATH may cause trouble with some makes, so we remove sole $(srcdir), +# ${srcdir} and @srcdir@ entries from VPATH if srcdir is ".", strip leading and +# trailing colons and then remove the whole line if VPATH becomes empty +# (actually we leave an empty line to preserve line numbers). +if test "x$srcdir" = x.; then + ac_vpsub='/^[ ]*VPATH[ ]*=[ ]*/{ +h +s/// +s/^/:/ +s/[ ]*$/:/ +s/:\$(srcdir):/:/g +s/:\${srcdir}:/:/g +s/:@srcdir@:/:/g +s/^:*// +s/:*$// +x +s/\(=[ ]*\).*/\1/ +G +s/\n// +s/^[^=]*=[ ]*$// +}' +fi + +cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1 +fi # test -n "$CONFIG_FILES" + + +eval set X " :F $CONFIG_FILES " +shift +for ac_tag +do + case $ac_tag in + :[FHLC]) ac_mode=$ac_tag; continue;; + esac + case $ac_mode$ac_tag in + :[FHL]*:*);; + :L* | :C*:*) as_fn_error $? "invalid tag \`$ac_tag'" "$LINENO" 5;; + :[FH]-) ac_tag=-:-;; + :[FH]*) ac_tag=$ac_tag:$ac_tag.in;; + esac + ac_save_IFS=$IFS + IFS=: + set x $ac_tag + IFS=$ac_save_IFS + shift + ac_file=$1 + shift + + case $ac_mode in + :L) ac_source=$1;; + :[FH]) + ac_file_inputs= + for ac_f + do + case $ac_f in + -) ac_f="$ac_tmp/stdin";; + *) # Look for the file first in the build tree, then in the source tree + # (if the path is not absolute). The absolute path cannot be DOS-style, + # because $ac_f cannot contain `:'. + test -f "$ac_f" || + case $ac_f in + [\\/$]*) false;; + *) test -f "$srcdir/$ac_f" && ac_f="$srcdir/$ac_f";; + esac || + as_fn_error 1 "cannot find input file: \`$ac_f'" "$LINENO" 5;; + esac + case $ac_f in *\'*) ac_f=`$as_echo "$ac_f" | sed "s/'/'\\\\\\\\''/g"`;; esac + as_fn_append ac_file_inputs " '$ac_f'" + done + + # Let's still pretend it is `configure' which instantiates (i.e., don't + # use $as_me), people would be surprised to read: + # /* config.h. Generated by config.status. */ + configure_input='Generated from '` + $as_echo "$*" | sed 's|^[^:]*/||;s|:[^:]*/|, |g' + `' by configure.' + if test x"$ac_file" != x-; then + configure_input="$ac_file. $configure_input" + { $as_echo "$as_me:${as_lineno-$LINENO}: creating $ac_file" >&5 +$as_echo "$as_me: creating $ac_file" >&6;} + fi + # Neutralize special characters interpreted by sed in replacement strings. + case $configure_input in #( + *\&* | *\|* | *\\* ) + ac_sed_conf_input=`$as_echo "$configure_input" | + sed 's/[\\\\&|]/\\\\&/g'`;; #( + *) ac_sed_conf_input=$configure_input;; + esac + + case $ac_tag in + *:-:* | *:-) cat >"$ac_tmp/stdin" \ + || as_fn_error $? "could not create $ac_file" "$LINENO" 5 ;; + esac + ;; + esac + + ac_dir=`$as_dirname -- "$ac_file" || +$as_expr X"$ac_file" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \ + X"$ac_file" : 'X\(//\)[^/]' \| \ + X"$ac_file" : 'X\(//\)$' \| \ + X"$ac_file" : 'X\(/\)' \| . 2>/dev/null || +$as_echo X"$ac_file" | + sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ + s//\1/ + q + } + /^X\(\/\/\)[^/].*/{ + s//\1/ + q + } + /^X\(\/\/\)$/{ + s//\1/ + q + } + /^X\(\/\).*/{ + s//\1/ + q + } + s/.*/./; q'` + as_dir="$ac_dir"; as_fn_mkdir_p + ac_builddir=. + +case "$ac_dir" in +.) ac_dir_suffix= ac_top_builddir_sub=. ac_top_build_prefix= ;; +*) + ac_dir_suffix=/`$as_echo "$ac_dir" | sed 's|^\.[\\/]||'` + # A ".." for each directory in $ac_dir_suffix. + ac_top_builddir_sub=`$as_echo "$ac_dir_suffix" | sed 's|/[^\\/]*|/..|g;s|/||'` + case $ac_top_builddir_sub in + "") ac_top_builddir_sub=. ac_top_build_prefix= ;; + *) ac_top_build_prefix=$ac_top_builddir_sub/ ;; + esac ;; +esac +ac_abs_top_builddir=$ac_pwd +ac_abs_builddir=$ac_pwd$ac_dir_suffix +# for backward compatibility: +ac_top_builddir=$ac_top_build_prefix + +case $srcdir in + .) # We are building in place. + ac_srcdir=. + ac_top_srcdir=$ac_top_builddir_sub + ac_abs_top_srcdir=$ac_pwd ;; + [\\/]* | ?:[\\/]* ) # Absolute name. + ac_srcdir=$srcdir$ac_dir_suffix; + ac_top_srcdir=$srcdir + ac_abs_top_srcdir=$srcdir ;; + *) # Relative name. + ac_srcdir=$ac_top_build_prefix$srcdir$ac_dir_suffix + ac_top_srcdir=$ac_top_build_prefix$srcdir + ac_abs_top_srcdir=$ac_pwd/$srcdir ;; +esac +ac_abs_srcdir=$ac_abs_top_srcdir$ac_dir_suffix + + + case $ac_mode in + :F) + # + # CONFIG_FILE + # + +_ACEOF + +cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1 +# If the template does not know about datarootdir, expand it. +# FIXME: This hack should be removed a few years after 2.60. +ac_datarootdir_hack=; ac_datarootdir_seen= +ac_sed_dataroot=' +/datarootdir/ { + p + q +} +/@datadir@/p +/@docdir@/p +/@infodir@/p +/@localedir@/p +/@mandir@/p' +case `eval "sed -n \"\$ac_sed_dataroot\" $ac_file_inputs"` in +*datarootdir*) ac_datarootdir_seen=yes;; +*@datadir@*|*@docdir@*|*@infodir@*|*@localedir@*|*@mandir@*) + { $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: $ac_file_inputs seems to ignore the --datarootdir setting" >&5 +$as_echo "$as_me: WARNING: $ac_file_inputs seems to ignore the --datarootdir setting" >&2;} +_ACEOF +cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1 + ac_datarootdir_hack=' + s&@datadir@&$datadir&g + s&@docdir@&$docdir&g + s&@infodir@&$infodir&g + s&@localedir@&$localedir&g + s&@mandir@&$mandir&g + s&\\\${datarootdir}&$datarootdir&g' ;; +esac +_ACEOF + +# Neutralize VPATH when `$srcdir' = `.'. +# Shell code in configure.ac might set extrasub. +# FIXME: do we really want to maintain this feature? +cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1 +ac_sed_extra="$ac_vpsub +$extrasub +_ACEOF +cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1 +:t +/@[a-zA-Z_][a-zA-Z_0-9]*@/!b +s|@configure_input@|$ac_sed_conf_input|;t t +s&@top_builddir@&$ac_top_builddir_sub&;t t +s&@top_build_prefix@&$ac_top_build_prefix&;t t +s&@srcdir@&$ac_srcdir&;t t +s&@abs_srcdir@&$ac_abs_srcdir&;t t +s&@top_srcdir@&$ac_top_srcdir&;t t +s&@abs_top_srcdir@&$ac_abs_top_srcdir&;t t +s&@builddir@&$ac_builddir&;t t +s&@abs_builddir@&$ac_abs_builddir&;t t +s&@abs_top_builddir@&$ac_abs_top_builddir&;t t +$ac_datarootdir_hack +" +eval sed \"\$ac_sed_extra\" "$ac_file_inputs" | $AWK -f "$ac_tmp/subs.awk" \ + >$ac_tmp/out || as_fn_error $? "could not create $ac_file" "$LINENO" 5 + +test -z "$ac_datarootdir_hack$ac_datarootdir_seen" && + { ac_out=`sed -n '/\${datarootdir}/p' "$ac_tmp/out"`; test -n "$ac_out"; } && + { ac_out=`sed -n '/^[ ]*datarootdir[ ]*:*=/p' \ + "$ac_tmp/out"`; test -z "$ac_out"; } && + { $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: $ac_file contains a reference to the variable \`datarootdir' +which seems to be undefined. Please make sure it is defined" >&5 +$as_echo "$as_me: WARNING: $ac_file contains a reference to the variable \`datarootdir' +which seems to be undefined. Please make sure it is defined" >&2;} + + rm -f "$ac_tmp/stdin" + case $ac_file in + -) cat "$ac_tmp/out" && rm -f "$ac_tmp/out";; + *) rm -f "$ac_file" && mv "$ac_tmp/out" "$ac_file";; + esac \ + || as_fn_error $? "could not create $ac_file" "$LINENO" 5 + ;; + + + + esac + +done # for ac_tag + + +as_fn_exit 0 +_ACEOF +ac_clean_files=$ac_clean_files_save + +test $ac_write_fail = 0 || + as_fn_error $? "write failure creating $CONFIG_STATUS" "$LINENO" 5 + + +# configure is writing to config.log, and then calls config.status. +# config.status does its own redirection, appending to config.log. +# Unfortunately, on DOS this fails, as config.log is still kept open +# by configure, so config.status won't be able to write to it; its +# output is simply discarded. So we exec the FD to /dev/null, +# effectively closing config.log, so it can be properly (re)opened and +# appended to by config.status. When coming back to configure, we +# need to make the FD available again. +if test "$no_create" != yes; then + ac_cs_success=: + ac_config_status_args= + test "$silent" = yes && + ac_config_status_args="$ac_config_status_args --quiet" + exec 5>/dev/null + $SHELL $CONFIG_STATUS $ac_config_status_args || ac_cs_success=false + exec 5>>config.log + # Use ||, not &&, to avoid exiting from the if with $? = 1, which + # would make configure fail if this is the last instruction. + $ac_cs_success || as_fn_exit 1 +fi +if test -n "$ac_unrecognized_opts" && test "$enable_option_checking" != no; then + { $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: unrecognized options: $ac_unrecognized_opts" >&5 +$as_echo "$as_me: WARNING: unrecognized options: $ac_unrecognized_opts" >&2;} +fi + diff --git a/R-package/configure.ac b/R-package/configure.ac new file mode 100644 index 000000000..4f0809801 --- /dev/null +++ b/R-package/configure.ac @@ -0,0 +1,137 @@ +### configure.ac -*- Autoconf -*- +# Template used by Autoconf to generate 'configure' script. For more see: +# * https://unconj.ca/blog/an-autoconf-primer-for-r-package-authors.html +# * https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Configure-and-cleanup + +AC_PREREQ(2.69) +AC_INIT([lightgbm], [m4_esyscmd_s([cat src/VERSION.txt])], [], [lightgbm], []) + +########################### +# find compiler and flags # +########################### + +AC_MSG_CHECKING([location of R]) +AC_MSG_RESULT([${R_HOME}]) + +# set up CPP flags +# find the compiler and compiler flags used by R. +: ${R_HOME=`R HOME`} +if test -z "${R_HOME}"; then + echo "could not determine R_HOME" + exit 1 +fi +CC=`"${R_HOME}/bin/R" CMD config CC` +CXX=`"${R_HOME}/bin/R" CMD config CXX11` +CFLAGS=`"${R_HOME}/bin/R" CMD config CFLAGS` +CPPFLAGS=`"${R_HOME}/bin/R" CMD config CPPFLAGS` + +# LightGBM-specific flags +LGB_CPPFLAGS="" + +############### +# MM_PREFETCH # +############### + +AC_MSG_CHECKING([whether MM_PREFETCH works]) +ac_mmprefetch=no +AC_LANG_CONFTEST( + [ + AC_LANG_PROGRAM( + [[ + #include + ]], + [[ + int main() { + int a = 0; + _mm_prefetch(&a, _MM_HINT_NTA); + return 0; + } + ]] + ) + ] +) +${CC} -o conftest conftest.c 2>/dev/null && ./conftest && ac_mmprefetch=yes +AC_MSG_RESULT([${ac_mmprefetch}]) +if test "${ac_mmprefetch}" = yes; then + LGB_CPPFLAGS+=" -DMM_PREFETCH=1" +fi + +############ +# MM_ALLOC # +############ + +AC_MSG_CHECKING([whether MM_MALLOC works]) +ac_mm_malloc=no +AC_LANG_CONFTEST( + [ + AC_LANG_PROGRAM( + [[ + #include + ]], + [[ + int main() { + char *a = (char*)_mm_malloc(8, 16); + _mm_free(a); + return 0; + } + ]] + ) + ] +) +${CC} -o conftest conftest.c 2>/dev/null && ./conftest && ac_mm_malloc=yes +AC_MSG_RESULT([${ac_mm_malloc}]) +if test "${ac_mm_malloc}" = yes; then + LGB_CPPFLAGS+=" -DMM_MALLOC=1" +fi + +########## +# OpenMP # +########## + +OPENMP_CXXFLAGS="" + +if test `uname -s` = "Linux" +then + OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CXXFLAGS)" +fi + +if test `uname -s` = "Darwin" +then + OPENMP_CXXFLAGS='-Xclang -fopenmp' + OPENMP_LIB='-lomp' + ac_pkg_openmp=no + AC_MSG_CHECKING([whether OpenMP will work in a package]) + AC_LANG_CONFTEST( + [ + AC_LANG_PROGRAM( + [[ + #include + ]], + [[ + return (omp_get_max_threads() <= 1); + ]] + ) + ] + ) + ${CC} -o conftest conftest.c ${OPENMP_LIB} ${OPENMP_CXXFLAGS} 2>/dev/null && ./conftest && ac_pkg_openmp=yes + AC_MSG_RESULT([${ac_pkg_openmp}]) + if test "${ac_pkg_openmp}" = no; then + OPENMP_CXXFLAGS='' + OPENMP_LIB='' + echo '***********************************************************************************************' + echo ' OpenMP is unavailable on this macOS system. LightGBM code will run single-threaded as a result.' + echo ' To use all CPU cores for training jobs, you should install OpenMP by running' + echo '' + echo ' brew install libomp' + echo '***********************************************************************************************' + fi +fi + +# substitute variables from this script into Makevars.in +AC_SUBST(OPENMP_CXXFLAGS) +AC_SUBST(OPENMP_LIB) +AC_SUBST(LGB_CPPFLAGS) +AC_CONFIG_FILES([src/Makevars]) + +# write out Autoconf output +AC_OUTPUT diff --git a/R-package/configure.win b/R-package/configure.win new file mode 100755 index 000000000..eb0727d49 --- /dev/null +++ b/R-package/configure.win @@ -0,0 +1,63 @@ +# Script used to generate `Makevars.win` from `Makevars.win.in` +# on Windows + +########################### +# find compiler and flags # +########################### + +R_SCRIPT="${R_HOME}/bin${R_ARCH_BIN}/Rscript" +R_EXE="${R_HOME}/bin${R_ARCH_BIN}/R" +CC=`"${R_EXE}" CMD config CC` + +# LightGBM-specific flags +LGB_CPPFLAGS="" + +############### +# MM_PREFETCH # +############### + +ac_mm_prefetch="no" + +cat > conftest.c < +int main() { + int a = 0; + _mm_prefetch(&a, _MM_HINT_NTA); + return 0; +} +EOL + +${CC} -o conftest conftest.c 2>/dev/null && ./conftest && ac_mm_prefetch="yes" +echo "checking whether MM_PREFETCH works...${ac_mm_prefetch}" + +if test "${ac_mm_prefetch}" = "yes"; +then + LGB_CPPFLAGS="${LGB_CPPFLAGS} -DMM_PREFETCH=1" +fi + +############ +# MM_ALLOC # +############ +ac_mm_malloc="no" + +cat > conftest.c < +int main() { + char *a = (char*)_mm_malloc(8, 16); + _mm_free(a); + return 0; +} +EOL + +${CC} -o conftest conftest.c 2>/dev/null && ./conftest && ac_mm_malloc="yes" +echo "checking whether MM_MALLOC works...${ac_mm_malloc}" + +if test "${ac_mm_malloc}" = "yes"; +then + LGB_CPPFLAGS="${LGB_CPPFLAGS} -DMM_MALLOC=1" +fi + +# Generate Makevars.win from Makevars.win.in +sed -e \ + "s/@LGB_CPPFLAGS@/$LGB_CPPFLAGS/" \ + < src/Makevars.win.in > src/Makevars.win diff --git a/R-package/src/Makevars b/R-package/inst/Makevars similarity index 100% rename from R-package/src/Makevars rename to R-package/inst/Makevars diff --git a/R-package/src/Makevars.win b/R-package/inst/Makevars.win similarity index 100% rename from R-package/src/Makevars.win rename to R-package/inst/Makevars.win diff --git a/R-package/recreate-configure.sh b/R-package/recreate-configure.sh new file mode 100755 index 000000000..cac4facfa --- /dev/null +++ b/R-package/recreate-configure.sh @@ -0,0 +1,24 @@ +#!/bin/bash + +# recreates 'configure' from 'configure.ac' +# this script should run on Ubuntu 18.04 +AUTOCONF_VERSION=$(cat R-package/AUTOCONF_UBUNTU_VERSION) + +echo "Creating 'configure' script with Autoconf ${AUTOCONF_VERSION}" + +apt update +apt-get install \ + --no-install-recommends \ + -y \ + autoconf=${AUTOCONF_VERSION} + +cp VERSION.txt R-package/src/ +cd R-package +autoconf \ + --output configure \ + configure.ac \ + || exit -1 + +rm -r autom4te.cache || echo "no autoconf cache found" + +echo "done creating 'configure' script" diff --git a/R-package/src/Makevars.in b/R-package/src/Makevars.in new file mode 100644 index 000000000..8d3928172 --- /dev/null +++ b/R-package/src/Makevars.in @@ -0,0 +1,56 @@ +CXX_STD = CXX11 + +PKGROOT=. + +LGB_CPPFLAGS = \ + @LGB_CPPFLAGS@ \ + -DUSE_SOCKET \ + -DLGB_R_BUILD + +CPICFLAGS = -fPIC + +PKG_CPPFLAGS = \ + -I$(PKGROOT)/include \ + $(LGB_CPPFLAGS) + +PKG_CXXFLAGS = \ + @OPENMP_CXXFLAGS@ \ + -pthread + +PKG_LIBS = \ + @OPENMP_CXXFLAGS@ \ + @OPENMP_LIB@ \ + -pthread + +OBJECTS = \ + application/application.o \ + boosting/boosting.o \ + boosting/gbdt.o \ + boosting/gbdt_model_text.o \ + boosting/gbdt_prediction.o \ + boosting/prediction_early_stop.o \ + io/bin.o \ + io/config.o \ + io/config_auto.o \ + io/dataset.o \ + io/dataset_loader.o \ + io/file_io.o \ + io/json11.o \ + io/metadata.o \ + io/parser.o \ + io/tree.o \ + metric/dcg_calculator.o \ + metric/metric.o \ + objective/objective_function.o \ + network/linker_topo.o \ + network/linkers_mpi.o \ + network/linkers_socket.o \ + network/network.o \ + treelearner/data_parallel_tree_learner.o \ + treelearner/feature_parallel_tree_learner.o \ + treelearner/gpu_tree_learner.o \ + treelearner/serial_tree_learner.o \ + treelearner/tree_learner.o \ + treelearner/voting_parallel_tree_learner.o \ + c_api.o \ + lightgbm_R.o diff --git a/R-package/src/Makevars.win.in b/R-package/src/Makevars.win.in new file mode 100644 index 000000000..3746d8efe --- /dev/null +++ b/R-package/src/Makevars.win.in @@ -0,0 +1,57 @@ +CXX_STD = CXX11 + +PKGROOT=. + +LGB_CPPFLAGS = \ + @LGB_CPPFLAGS@ \ + -DUSE_SOCKET \ + -DLGB_R_BUILD + +CPICFLAGS = -fPIC + +PKG_CPPFLAGS = \ + -I$(PKGROOT)/include \ + $(LGB_CPPFLAGS) + +PKG_CXXFLAGS = \ + ${SHLIB_OPENMP_CXXFLAGS} \ + ${SHLIB_PTHREAD_FLAGS} + +PKG_LIBS = \ + ${SHLIB_OPENMP_CXXFLAGS} \ + ${SHLIB_PTHREAD_FLAGS} \ + -lws2_32 \ + -lIphlpapi + +OBJECTS = \ + application/application.o \ + boosting/boosting.o \ + boosting/gbdt.o \ + boosting/gbdt_model_text.o \ + boosting/gbdt_prediction.o \ + boosting/prediction_early_stop.o \ + io/bin.o \ + io/config.o \ + io/config_auto.o \ + io/dataset.o \ + io/dataset_loader.o \ + io/file_io.o \ + io/json11.o \ + io/metadata.o \ + io/parser.o \ + io/tree.o \ + metric/dcg_calculator.o \ + metric/metric.o \ + objective/objective_function.o \ + network/linker_topo.o \ + network/linkers_mpi.o \ + network/linkers_socket.o \ + network/network.o \ + treelearner/data_parallel_tree_learner.o \ + treelearner/feature_parallel_tree_learner.o \ + treelearner/gpu_tree_learner.o \ + treelearner/serial_tree_learner.o \ + treelearner/tree_learner.o \ + treelearner/voting_parallel_tree_learner.o \ + c_api.o \ + lightgbm_R.o diff --git a/build-cran-package.sh b/build-cran-package.sh new file mode 100755 index 000000000..1780b7588 --- /dev/null +++ b/build-cran-package.sh @@ -0,0 +1,90 @@ +#!/bin/sh + +# [description] +# Prepare a source distribution of the R package +# to be submitted to CRAN. +# +# [usage] +# sh build-cran-package.sh + +set -e + +ORIG_WD=$(pwd) +TEMP_R_DIR=$(pwd)/lightgbm_r + +if test -d ${TEMP_R_DIR}; then + rm -r ${TEMP_R_DIR} +fi +mkdir -p ${TEMP_R_DIR} + +# move relevant files +cp -R R-package/* ${TEMP_R_DIR} +cp -R include ${TEMP_R_DIR}/src/ +cp -R src/* ${TEMP_R_DIR}/src/ +cp VERSION.txt ${TEMP_R_DIR}/src/ + +cd ${TEMP_R_DIR} + + # Remove files not needed for CRAN + echo "Removing files not needed for CRAN" + rm src/install.libs.R + rm -r src/cmake/ + rm -r inst/ + rm -r pkgdown/ + rm AUTOCONF_UBUNTU_VERSION + rm recreate-configure.sh + + # main.cpp is used to make the lightgbm CLI, unnecessary + # for the R package + rm src/main.cpp + + # Remove 'region' and 'endregion' pragmas. This won't change + # the correctness of the code. CRAN does not allow you + # to use compiler flag '-Wno-unknown-pragmas' or + # pragmas that suppress warnings. + echo "Removing unknown pragmas in headers" + for file in src/include/LightGBM/*.h; do + sed \ + -i.bak \ + -e 's/^.*#pragma region.*$//' \ + -e 's/^.*#pragma endregion.*$//' \ + "${file}" + done + rm src/include/LightGBM/*.h.bak + + # When building an R package with 'configure', it seems + # you're guaranteed to get a shared library called + # .so/dll. The package source code expects + # 'lib_lightgbm.so', not 'lightgbm.so', to comply with the way + # this project has historically handled installation + echo "Changing lib_lightgbm to lightgbm" + for file in R/*.R; do + sed \ + -i.bak \ + -e 's/lib_lightgbm/lightgbm/' \ + "${file}" + done + sed \ + -i.bak \ + -e 's/lib_lightgbm/lightgbm/' \ + NAMESPACE + + # 'processx' is listed as a 'Suggests' dependency in DESCRIPTION + # because it is used in install.libs.R, a file that is not + # included in the CRAN distribution of the package + sed \ + -i.bak \ + '/processx/d' \ + DESCRIPTION + + echo "Cleaning sed backup files" + rm R/*.R.bak + rm NAMESPACE.bak + +cd ${ORIG_WD} + +R CMD build \ + --keep-empty-dirs \ + lightgbm_r + +echo "Done building R package" diff --git a/build_r.R b/build_r.R index 20b130b79..3de466559 100644 --- a/build_r.R +++ b/build_r.R @@ -13,7 +13,7 @@ TEMP_SOURCE_DIR <- file.path(TEMP_R_DIR, "src") # R returns FALSE (not a non-zero exit code) if a file copy operation # breaks. Let's fix that .handle_result <- function(res) { - if (!res) { + if (!all(res)) { stop("Copying files failed!") } } @@ -70,6 +70,20 @@ result <- file.copy( ) .handle_result(result) +# Add blank Makevars files +result <- file.copy( + from = file.path(TEMP_R_DIR, "inst", "Makevars") + , to = file.path(TEMP_SOURCE_DIR, "Makevars") + , overwrite = TRUE +) +.handle_result(result) +result <- file.copy( + from = file.path(TEMP_R_DIR, "inst", "Makevars.win") + , to = file.path(TEMP_SOURCE_DIR, "Makevars.win") + , overwrite = TRUE +) +.handle_result(result) + result <- file.copy( from = "include/" , to = sprintf("%s/", TEMP_SOURCE_DIR) @@ -101,6 +115,16 @@ result <- file.copy( ) .handle_result(result) +# remove CRAN-specific files +result <- file.remove( + file.path(TEMP_R_DIR, "configure") + , file.path(TEMP_R_DIR, "configure.ac") + , file.path(TEMP_R_DIR, "configure.win") + , file.path(TEMP_SOURCE_DIR, "Makevars.in") + , file.path(TEMP_SOURCE_DIR, "Makevars.win.in") +) +.handle_result(result) + # copy files into the place CMake expects for (src_file in c("lightgbm_R.cpp", "lightgbm_R.h", "R_object_helper.h")) { result <- file.copy( diff --git a/include/LightGBM/utils/common.h b/include/LightGBM/utils/common.h index 2b668a512..07b8484b5 100644 --- a/include/LightGBM/utils/common.h +++ b/include/LightGBM/utils/common.h @@ -35,10 +35,12 @@ #include #elif MM_MALLOC #include -#elif defined(__GNUC__) -#include -#define _mm_malloc(a, b) memalign(b, a) -#define _mm_free(a) free(a) +// https://gcc.gnu.org/onlinedocs/cpp/Common-Predefined-Macros.html +// https://www.oreilly.com/library/view/mac-os-x/0596003560/ch05s01s02.html +#elif defined(__GNUC__) && defined(HAVE_MALLOC_H) + #include + #define _mm_malloc(a, b) memalign(b, a) + #define _mm_free(a) free(a) #else #include #define _mm_malloc(a, b) malloc(a)