|
| 1 | +#!/bin/bash |
| 2 | +set -e |
| 3 | + |
| 4 | +export CRAN=${CRAN-"https://cran.rstudio.com"} |
| 5 | +export OS_IDENTIFIER=${OS_IDENTIFIER-"unknown"} |
| 6 | +export TARBALL_NAME="R-${R_VERSION}${R_TYPE}-${OS_IDENTIFIER}.tar.gz" |
| 7 | + |
| 8 | +# Some Dockerfiles may copy a `/env.sh` to set up environment variables |
| 9 | +# that require command substitution. If this file exists, source it. |
| 10 | +if [[ -f /env.sh ]]; then |
| 11 | + echo "Sourcing environment variables" |
| 12 | + source /env.sh |
| 13 | +fi |
| 14 | + |
| 15 | +# archive_r() - $1 as r version |
| 16 | +archive_r() { |
| 17 | + tar czf /tmp/${TARBALL_NAME} --directory=/opt/R ${1}${2} --owner=0 --group=0 |
| 18 | +} |
| 19 | + |
| 20 | +fetch_r_source() { |
| 21 | + echo "Downloading R-${1}" |
| 22 | + if [ -n "${R_TARBALL_URL}" ]; then |
| 23 | + # Custom tarball URL for testing (e.g., R alpha and beta releases) |
| 24 | + wget -q "${R_TARBALL_URL}" -O /tmp/R-${1}.tar.gz |
| 25 | + elif [ "${1}" = devel ]; then |
| 26 | + # Download the daily tarball of R devel |
| 27 | + wget -q https://cran.r-project.org/src/base-prerelease/R-devel.tar.gz -O /tmp/R-devel.tar.gz |
| 28 | + elif [ "${1}" = "next" ]; then |
| 29 | + wget -q https://cran.r-project.org/src/base-prerelease/R-latest.tar.gz -O /tmp/R-next.tar.gz |
| 30 | + else |
| 31 | + wget -q "${CRAN}/src/base/R-`echo ${1}| awk 'BEGIN {FS="."} {print $1}'`/R-${1}.tar.gz" -O /tmp/R-${1}.tar.gz |
| 32 | + fi |
| 33 | + echo "Extracting R-${1}" |
| 34 | + tar xf /tmp/R-${1}.tar.gz -C /tmp |
| 35 | + # 'next' may contain R-patched/, R-alpha/, etc. make it R-next/ |
| 36 | + if [ "${1}" = "next" ]; then |
| 37 | + dirname=`tar tzvf /tmp/R-next.tar.gz | head -1 | awk '{ print $NF }' | cut -d/ -f1` |
| 38 | + mv /tmp/${dirname} /tmp/R-next |
| 39 | + fi |
| 40 | + rm /tmp/R-${1}.tar.gz |
| 41 | +} |
| 42 | + |
| 43 | +# compile_r() - $1 as r version |
| 44 | +compile_r() { |
| 45 | + cd /tmp/R-${1} |
| 46 | + |
| 47 | + # tools/config.guess in R versions older than 3.2.2 guess 'unknown' instead of 'pc' |
| 48 | + # test the version and properly set the flag. |
| 49 | + build_flag="--build=$(uname -m)-pc-linux-gnu" |
| 50 | + if _version_is_greater_than ${R_VERSION} 3.2.2; then |
| 51 | + build_flag='' |
| 52 | + fi |
| 53 | + |
| 54 | + # R 3.6.1 and below require additional compiler flags for GCC 10 and above |
| 55 | + # (e.g., on Debian 11). Add -fcommon to CFLAGS to work around issues with new |
| 56 | + # default of -fno-common for C (fixed in R 3.6.2). Add -fallow-argument-mismatch |
| 57 | + # to FFLAGS to work around issues with changes to argument mismatch checking |
| 58 | + # in Fortran (fixed in R 3.6.2, but not mentioned in NEWS). |
| 59 | + # https://cran.r-project.org/doc/manuals/r-release/NEWS.3.html |
| 60 | + # https://cran.r-project.org/doc/manuals/r-release/R-admin.html#Using-Fortran |
| 61 | + # https://gcc.gnu.org/gcc-10/porting_to.html |
| 62 | + gcc_major_version=$(gcc -dumpversion | cut -d '.' -f 1) |
| 63 | + if _version_is_less_than "${R_VERSION}" 3.6.2 && _version_is_greater_than "${gcc_major_version}" 9; then |
| 64 | + # Default CFLAGS/FFLAGS for all R 3.x versions is '-g -O2' when using GCC |
| 65 | + export CFLAGS='-g -O2 -fcommon' |
| 66 | + export FFLAGS='-g -O2 -fallow-argument-mismatch' |
| 67 | + echo "Setting CFLAGS: ${CFLAGS}" |
| 68 | + echo "Setting FFLAGS: ${FFLAGS}" |
| 69 | + fi |
| 70 | + |
| 71 | + # Avoid a PCRE2 dependency for R 3.5 and 3.6. R 3.x uses PCRE1, but R 3.5+ |
| 72 | + # will link against PCRE2 if present, although it is not actually used. |
| 73 | + # Since there's no way to disable this in the configure script, and we need |
| 74 | + # PCRE2 for R 4.x, we hide PCRE2 from the configure script by temporarily |
| 75 | + # removing the pkg-config file and pcre2-config script. |
| 76 | + # |
| 77 | + # The INCLUDE_PCRE2_IN_R_3 environment variable can be set to include PCRE2 |
| 78 | + # in R 3.x builds, for distributions where PCRE2 is always required. |
| 79 | + # In Debian 11/Ubuntu 22/RHEL 9, Pango now depends on PCRE2, so R 3.x will not be compiled with |
| 80 | + # Pango support if the PCRE2 pkg-config file is missing. |
| 81 | + if [[ "${1}" =~ ^3 ]] && pkg-config --exists libpcre2-8 && [ -z "$INCLUDE_PCRE2_IN_R_3" ]; then |
| 82 | + mkdir -p /tmp/pcre2 |
| 83 | + pc_dir=$(pkg-config --variable pcfiledir libpcre2-8) |
| 84 | + mv ${pc_dir}/libpcre2-8.pc /tmp/pcre2 |
| 85 | + config_bin=$(which pcre2-config) |
| 86 | + mv ${config_bin} /tmp/pcre2 |
| 87 | + trap "{ mv /tmp/pcre2/libpcre2-8.pc ${pc_dir}; mv /tmp/pcre2/pcre2-config ${config_bin}; }" EXIT |
| 88 | + fi |
| 89 | + |
| 90 | + # Default configure options. Some Dockerfiles override this with an ENV directive. |
| 91 | + default_configure_options="\ |
| 92 | + --enable-R-shlib \ |
| 93 | + --with-tcltk \ |
| 94 | + --enable-memory-profiling \ |
| 95 | + --with-x \ |
| 96 | + --with-blas \ |
| 97 | + --with-lapack $XCONFIGURE_OPTIONS" |
| 98 | + |
| 99 | + CONFIGURE_OPTIONS=${CONFIGURE_OPTIONS:-$default_configure_options} |
| 100 | + |
| 101 | + # set some common environment variables for the configure step |
| 102 | + AWK=/usr/bin/awk \ |
| 103 | + LIBnn=lib \ |
| 104 | + PERL=/usr/bin/perl \ |
| 105 | + R_PDFVIEWER=xdg-open \ |
| 106 | + R_BROWSER=xdg-open \ |
| 107 | + R_PAPERSIZE=letter \ |
| 108 | + R_PRINTCMD=/usr/bin/lpr \ |
| 109 | + R_UNZIPCMD=/usr/bin/unzip \ |
| 110 | + R_ZIPCMD=/usr/bin/zip \ |
| 111 | + ./configure \ |
| 112 | + --prefix=/opt/R/${1}${2} \ |
| 113 | + ${CONFIGURE_OPTIONS} \ |
| 114 | + ${build_flag} |
| 115 | + make clean |
| 116 | + make |
| 117 | + make install |
| 118 | + |
| 119 | + # Add OS identifier to the default HTTP user agent. |
| 120 | + # Set this in the system Rprofile so it works when R is run with --vanilla. |
| 121 | + cat <<EOF >> /opt/R/${1}${2}/lib/R/library/base/R/Rprofile |
| 122 | +## Set the default HTTP user agent |
| 123 | +local({ |
| 124 | + os_identifier <- if (file.exists("/etc/os-release")) { |
| 125 | + os <- readLines("/etc/os-release") |
| 126 | + id <- gsub('^ID=|"', "", grep("^ID=", os, value = TRUE)) |
| 127 | + version <- gsub('^VERSION_ID=|"', "", grep("^VERSION_ID=", os, value = TRUE)) |
| 128 | + sprintf("%s-%s", id, version) |
| 129 | + } else { |
| 130 | + "${OS_IDENTIFIER}" |
| 131 | + } |
| 132 | + options(HTTPUserAgent = sprintf("R/%s (%s) R (%s)", getRversion(), os_identifier, |
| 133 | + paste(getRversion(), R.version\$platform, R.version\$arch, R.version\$os))) |
| 134 | +}) |
| 135 | +EOF |
| 136 | +} |
| 137 | + |
| 138 | +# check for packager script |
| 139 | +## If it exists this build is ready for packaging with nFPM, so run the script |
| 140 | +## else do nothing |
| 141 | +package_r() { |
| 142 | + if [[ -f /package.sh ]]; then |
| 143 | + export R_VERSION=${1} |
| 144 | + export R_TYPE=${2} |
| 145 | + source /package.sh |
| 146 | + fi |
| 147 | +} |
| 148 | + |
| 149 | +set_up_environment() { |
| 150 | + mkdir -p /opt/R |
| 151 | +} |
| 152 | + |
| 153 | +_version_is_greater_than() { |
| 154 | + test "$(printf '%s\n' "$@" | sort -V | head -n 1)" != "$1" |
| 155 | +} |
| 156 | + |
| 157 | +_version_is_less_than() { |
| 158 | + test "$(printf '%s\n' "$@" | sort -V | head -n 1)" != "$2" |
| 159 | +} |
| 160 | + |
| 161 | +###### RUN R COMPILE PROCEDURE ###### |
| 162 | +set_up_environment |
| 163 | +fetch_r_source $R_VERSION |
| 164 | +compile_r $R_VERSION $R_TYPE |
| 165 | +package_r $R_VERSION $R_TYPE |
| 166 | +archive_r $R_VERSION $R_TYPE |
0 commit comments