r-base-core 3.4.4-1ubuntu1 / usr / bin / R

#!/bin/bash
# Shell wrapper for R executable.

R_HOME_DIR=/usr/lib/R
if test "${R_HOME_DIR}" = "/usr/lib/R"; then
   case "linux-gnu" in
   linux*)
     run_arch=`uname -m`
     case "$run_arch" in
        x86_64|mips64|ppc64|powerpc64|sparc64|s390x)
          libnn=lib64
          libnn_fallback=lib
        ;;
        *)
          libnn=lib
          libnn_fallback=lib64
        ;;
     esac
     if [ -x "/usr/${libnn}/R/bin/exec/R" ]; then
        R_HOME_DIR="/usr/${libnn}/R"
     elif [ -x "/usr/${libnn_fallback}/R/bin/exec/R" ]; then
        R_HOME_DIR="/usr/${libnn_fallback}/R"
     ## else -- leave alone (might be a sub-arch)
     fi
     ;;
  esac
fi

if test -n "${R_HOME}" && \
   test "${R_HOME}" != "${R_HOME_DIR}"; then
  echo "WARNING: ignoring environment value of R_HOME"
fi
R_HOME="${R_HOME_DIR}"
export R_HOME
R_SHARE_DIR=/usr/share/R/share
export R_SHARE_DIR
R_INCLUDE_DIR=/usr/share/R/include
export R_INCLUDE_DIR
R_DOC_DIR=/usr/share/R/doc
export R_DOC_DIR

# Since this script can be called recursively, we allow R_ARCH to
# be overridden from the environment.
# This script is shared by parallel installs, so nothing in it should
# depend on the sub-architecture except the default here.
: ${R_ARCH=}

usage="
Usage: R [options] [< infile] [> outfile]
   or: R CMD command [arguments]

Start R, a system for statistical computation and graphics, with the
specified options, or invoke an R tool via the 'R CMD' interface.

Options:
  -h, --help            Print short help message and exit
  --version             Print version info and exit
  --encoding=ENC        Specify encoding to be used for stdin
  --encoding ENC
  RHOME			Print path to R home directory and exit
  --save                Do save workspace at the end of the session
  --no-save             Don't save it
  --no-environ          Don't read the site and user environment files
  --no-site-file        Don't read the site-wide Rprofile
  --no-init-file        Don't read the user R profile
  --restore             Do restore previously saved objects at startup
  --no-restore-data     Don't restore previously saved objects
  --no-restore-history  Don't restore the R history file
  --no-restore          Don't restore anything
  --vanilla		Combine --no-save, --no-restore, --no-site-file,
			--no-init-file and --no-environ
  --no-readline         Don't use readline for command-line editing
  --max-ppsize=N        Set max size of protect stack to N
  --min-nsize=N         Set min number of fixed size obj's (\"cons cells\") to N
  --min-vsize=N         Set vector heap minimum to N bytes; '4M' = 4 MegaB
  -q, --quiet           Don't print startup message
  --silent              Same as --quiet
  --slave               Make R run as quietly as possible
  --interactive         Force an interactive session
  --verbose             Print more information about progress
  -d, --debugger=NAME   Run R through debugger NAME
  --debugger-args=ARGS  Pass ARGS as arguments to the debugger
  -g TYPE, --gui=TYPE	Use TYPE as GUI; possible values are 'X11' (default)
			and 'Tk'.
  --arch=NAME		Specify a sub-architecture
  --args                Skip the rest of the command line
  -f FILE, --file=FILE  Take input from 'FILE'
  -e EXPR               Execute 'EXPR' and exit

FILE may contain spaces but not shell metacharacters.

Commands:
  BATCH			Run R in batch mode
  COMPILE		Compile files for use with R
  SHLIB			Build shared library for dynamic loading
  INSTALL		Install add-on packages
  REMOVE		Remove add-on packages
  build			Build add-on packages
  check			Check add-on packages
  LINK			Front-end for creating executable programs
  Rprof			Post-process R profiling files
  Rdconv		Convert Rd format to various other formats
  Rd2pdf		Convert Rd format to PDF
  Rd2txt		Convert Rd format to pretty text
  Stangle		Extract S/R code from Sweave documentation
  Sweave		Process Sweave documentation
  Rdiff			Diff R output ignoring headers etc
  config		Obtain configuration information about R
  javareconf		Update the Java configuration variables
  rtags                 Create Emacs-style tag files from C, R, and Rd files

Please use 'R CMD command --help' to obtain further information about
the usage of 'command'.

Options --arch, --no-environ, --no-init-file, --no-site-file and --vanilla
can be placed between R and CMD, to apply to R processes run by 'command'

Report bugs at <https://bugs.R-project.org>."

## some systems have a more portable sed, e.g. /usr/xpg4/bin/sed on Solaris,
## so make sure that is used.
SED=/bin/sed
export SED

error () {
  echo "ERROR: $*" >&2
  exit 1
}

### Argument loop
args=
debugger=
debugger_args=
gui=
while test -n "${1}"; do
  case ${1} in
    RHOME|--print-home)
      echo "${R_HOME}"; exit 0 ;;
    CMD)
      shift;
      export R_ARCH
      . "${R_HOME}/etc${R_ARCH}/ldpaths"
      exec sh "${R_HOME}/bin/Rcmd" "${@}" ;;
    -g|--gui)
      if test -n "`echo ${2} | ${SED} 's/^-.*//'`"; then
	gui="${2}"
        args="${args} ${1} ${2}"
	shift
      else
	error "option '${1}' requires an argument"
      fi
      ;;
    --gui=*)
      gui=`echo "${1}" | ${SED} -e 's/[^=]*=//'`
      args="${args} ${1}"
      ;;
    -d|--debugger)
      if test -n "`echo ${2} | ${SED} 's/^-.*//'`"; then
	debugger="${2}"; shift
      else
	error "option '${1}' requires an argument"
      fi
      ;;
    --debugger=*)
      debugger=`echo "${1}" | ${SED} -e 's/[^=]*=//'` ;;
    --debugger-args=*)
      debugger_args=`echo "${1}" | ${SED} -e 's/[^=]*=//'` ;;
    -h|--help)
      echo "${usage}"; exit 0 ;;
    --args)
      break ;;
    --arch)
      if test -n "`echo ${2} | ${SED} 's/^-.*//'`"; then
	R_ARCH="/${2}"
        shift
      else
        error "option '${1}' requires an argument"
      fi
      ## check sub-architecture here for a better error message
      if ! test -d ${R_HOME}/etc${R_ARCH}; then
        error "sub-architecture '${1}' is not installed"
      fi
      ;;
    --arch=*)
      r_arch=`echo "${1}" | ${SED} -e 's/[^=]*=//'`
      R_ARCH="/${r_arch}"
      ## check sub-architecture here for a better error message
      if ! test -d ${R_HOME}/etc${R_ARCH}; then
        error "sub-architecture '${r_arch}' is not installed"
      fi
      ;;
    -e)
      if test -n "`echo ${2} | ${SED} 's/^-.*//'`"; then
	a=`echo "${2}" | ${SED} -e 's/ /~+~/g'`; shift
      else
	error "option '${1}' requires a non-empty argument"
      fi
      args="${args} -e $a"
      ;;
    -f)
      if test -n "`echo ${2} | ${SED} 's/^-.*//'`"; then
	a=`echo "${2}" | ${SED} -e 's/ /~+~/g'`; shift
      else
	error "option '${1}' requires a filename argument"
      fi
      args="${args} -f $a"
      ;;
    --file=*)
      a=`echo "${1}" | ${SED} -e 's/[^=]*=//' | ${SED} -e 's/ /~+~/g'`
      args="${args} --file=$a"
      ;;
    --no-environ)
      export R_ENVIRON=''
      export R_ENVIRON_USER=''
      args="${args} ${1}"
      ;;
    --no-site-file)
      export R_PROFILE=''
      args="${args} ${1}"
      ;;
    --no-init-file)
      export R_PROFILE_USER=''
      args="${args} ${1}"
      ;;
    --vanilla)
      export R_ENVIRON=''
      export R_ENVIRON_USER=''
      export R_PROFILE=''
      export R_PROFILE_USER=''
      args="${args} ${1}"
      ;;
    *)
      args="${args} ${1}" ;;
  esac
  shift
done

. "${R_HOME}/etc${R_ARCH}/ldpaths"

R_binary="${R_HOME}/bin/exec${R_ARCH}/R"
export R_ARCH

case "${gui}" in
Tk|tk|X11|x11)
  ;;
"")
  ;;
*)
  error "unknown GUI ${gui}"
esac

## R_HOME may have moved, so check
if test -x "${R_HOME}"; then
  :
else
  error "R_HOME ('${R_HOME}') not found"
fi

## Startup
if test -z "${debugger}"; then
  exec "${R_binary}"  ${args} "${@}"
else
  ## Ideally, we would like the debugger to start R with additional
  ## ('inferior') arguments, but not all debuggers can do this.  We know
  ## about valgrind and some versions of GDB , and deal with these.
  ## Otherwise, to be on the safe side, we disregard non-debugger
  ## command line args.
  args_ok=no
  case "`${debugger} --version 2>/dev/null`" in
    "GNU gdb"*)
      if ${debugger} --help 2>/dev/null | \
          grep ' *--args' >/dev/null; then
	args_ok=yes
	debugger_args="${debugger_args} --args"
      fi
      ;;
    valgrind*)
      args_ok=yes
      ;;
  esac
  if test -n "${args}${*}" && test "${args_ok}" = no; then
    args=`expr "${args} ${*}" : " *\(.*\)"`
    echo "*** Further command line arguments ('${args}') disregarded"
    echo "*** (maybe use 'run ${args}' from *inside* ${debugger})"
    echo ""
    exec ${debugger} ${debugger_args} "${R_binary}"
  else
    exec ${debugger} ${debugger_args} "${R_binary}" ${args} "${@}"
  fi
fi

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### mode: sh ***
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