if test -z "${R_HOME}"; then echo "This command can be executed via R CMD only!" exit 1 fi tools_classpath=${R_SHARE_DIR}/java revision='$Rev: 47538 $' version=`set - ${revision}; echo ${2}` version="R Java configurator: ${R_VERSION} (r${version}) Copyright (C) 2002-6 The R Core Development Team. This is free software; see the GNU General Public License version 2 or later for copying conditions. There is NO warranty." usage=" Usage: R CMD javareconf [options] Detect current Java setup and update the corresponding configuration in R. Options: -h, --help print this help message and exit -v, --version print version info and exit -n, --dry-run perform Java detection, but don't touch any configurations files -e same as -n but exports all detected variables and runs . If -e is the last argument or is '' then a shell is used instead xxx=yyy evaluate the corresponding expression (e.g. JAVA_HOME=/usr/lib/java) Environment variables that can be used to influence the detection: JAVA path to a Java interpreter executable By default first 'java' command found on the PATH is taken (unless JAVA_HOME is also specified). JAVA_HOME home of the Java environment. If not specified, it will be detected automatically from the Java interpreter. JAVAC path to a Java compiler JAVAH path to a Java header/stub generator JAR path to a Java archive tool The following variables should be used with extreme caution. They must all match, so use only if you have a very special setup that javareconf cannot detect automatically: JAVA_LD_LIBRARY_PATH library path necessary at run-time JAVA_CPPFLAGS C preprocessor flags necessary to compile JNI programs JAVA_LIBS libraries (as linker flags) necessary to compile JNI programs Report bugs to ." dry_run=no export_vars=no while test -n "${1}"; do case ${1} in -help | --help | -h) echo "${usage}"; exit 0 ;; -v | --version) echo "${version}"; exit 0 ;; -n | --dry-run) dry_run=yes ;; -e) dry_run=yes; export_vars=yes; run_prog=${2}; shift ;; *=*) eval ${1} ;; esac shift done ## find java compiler binaries if test -z "${JAVA_HOME}" ; then JAVA_PATH=${PATH} else if test ! -e "${JAVA_HOME}"; then echo "*** JAVA_HOME is not a valid path, ignoring" JAVA_HOME= JAVA_PATH=${PATH} else ## try jre/bin first just in case we don't have full JDK JAVA_PATH=${JAVA_HOME}:${JAVA_HOME}/jre/bin:${JAVA_HOME}/bin:${JAVA_HOME}/../bin:${PATH} fi fi ## if 'java' is not on the PATH or JAVA_HOME, add some guesses as of ## where java could live JAVA_PATH=${JAVA_PATH}:/usr/java/bin:/usr/jdk/bin:/usr/lib/java/bin:/usr/lib/jdk/bin:/usr/local/java/bin:/usr/local/jdk/bin:/usr/local/lib/java/bin:/usr/local/lib/jdk/bin if test -z "$JAVA"; then save_IFS=$IFS; IFS=: for dir in ${JAVA_PATH}; do if test -f "$dir/java"; then JAVA="$dir/java" break fi done IFS=${save_IFS} fi if test -z "$JAVA"; then echo "~*** Cannot find any Java interpreter~*** Please make sure 'java' is on your PATH or set JAVA_HOME correspondingly"|${SED-sed} -e 'y/~/\n/' >&2 exit 1 fi echo "Java interpreter : $JAVA" jires=`$JAVA -classpath ${tools_classpath} getsp -test` if test "$jires" != "Test1234OK"; then echo "$jires" echo "~*** Java interpreter doesn't work properly.~"|${SED-sed} -e 'y/~/\n/' >&2 exit 1 fi if test -z "${JAVA_HOME}"; then JAVA_HOME=`$JAVA -classpath ${tools_classpath} getsp java.home` fi if test -z "${JAVA_HOME}"; then echo "~*** Cannot find Java environemnt.~*** Please set JAVA_HOME correspondingly.~"|${SED-sed} -e 'y/~/\n/' >&2 exit 1 fi echo "Java version : `$JAVA -classpath ${tools_classpath} getsp java.version 2>/dev/null`" echo "Java home path : ${JAVA_HOME}" # optional parts - compiler, javah and jar if test -z "$JAVAC"; then save_IFS=$IFS; IFS=: for dir in ${JAVA_PATH}; do if test -f "$dir/javac"; then JAVAC="$dir/javac" break fi done IFS=${save_IFS} fi # test functionality of the compiler javac_works='not present' if test -n "$JAVAC"; then javac_works='not functional' # tempdir=`mktemp -d` : ${TMPDIR=/tmp} { tempdir=`(mktemp -d -q "${TMPDIR}/RJRECONF.XXXXXX") 2>/dev/null` \ && test -n "${tempdir}" && test -d "${tempdir}" ; } || { test -n "${RANDOM}" && tempdir=${TMPDIR}/RJRECONF$$-${RANDOM} \ && (mkdir "${tempdir}") ; } || { tempdir=${TMPDIR}/RJRECONF.$$-`date +%m%d%H%M%S` \ && (mkdir "${tempdir}"); } || { tempdir=${TMPDIR}/RJRECONF.$$ && (mkdir "${tempdir}") ; } || (error "cannot create temporary directory" && exit 1) echo "public class A { }" > ${tempdir}/A.java if test -e ${tempdir}/A.java; then if "${JAVAC}" ${tempdir}/A.java >/dev/null; then if test -e ${tempdir}/A.class; then javac_works=yes fi fi fi rm -rf ${tempdir} fi if test "${javac_works}" = yes; then echo "Java compiler : ${JAVAC}" else echo "Java compiler : ${javac_works}" fi if test -z "$JAVAH"; then save_IFS=$IFS; IFS=: for dir in ${JAVA_PATH}; do if test -f "$dir/javah"; then JAVAH="$dir/javah" break fi done IFS=${save_IFS} fi echo "Java headers gen.: ${JAVAH}" if test -z "$JAR"; then save_IFS=$IFS; IFS=: for dir in ${JAVA_PATH}; do if test -f "$dir/jar"; then JAR="$dir/jar" break fi done IFS=${save_IFS} fi echo "Java archive tool: ${JAR}" : ${JAVA_LIBS=~autodetect~} : ${JAVA_CPPFLAGS=~autodetect~} : ${JAVA_LD_LIBRARY_PATH=~autodetect~} custom_JAVA_LIBS="${JAVA_LIBS}" custom_JAVA_CPPFLAGS="${JAVA_CPPFLAGS}" custom_JAVA_LD_LIBRARY_PATH="${JAVA_LD_LIBRARY_PATH}" # sys-dependent tweaks to JNI flags hostos=`uname 2>/dev/null` case "$hostos" in Darwin*) JAVA_LD_LIBRARY_PATH= JAVA_LIBS="-framework JavaVM" JAVA_CPPFLAGS='-I$(JAVA_HOME)/include' ;; *) ## we need to reset LD_LIBRARY_PATH, because Java automatically ## adds all LD_LIBRARY_PATH to Java path save_LDLP=${LD_LIBRARY_PATH} LD_LIBRARY_PATH= export LD_LIBRARY_PATH # remove trailing : (if any) and replace occurrences of JAVA_HOME # with $(JAVA_HOME) JAVA_LD_LIBRARY_PATH=`$JAVA -classpath ${tools_classpath} getsp java.library.path| ${SED-sed} -e s:${JAVA_HOME}:\$\(JAVA_HOME\):g -e 's/:$//'` LD_LIBRARY_PATH=${save_LDLP} export LD_LIBRARY_PATH # build JAVA_LIBS from the detected path JAVA_LIBS=`echo ${JAVA_LD_LIBRARY_PATH}|${SED-sed} -e 's|:| -L|g'` if test -n "${JAVA_LIBS}"; then JAVA_LIBS="-L${JAVA_LIBS}"; fi JAVA_LIBS="${JAVA_LIBS} -ljvm" # create shell-version to be used in scripts JAVA_LD_LIBRARY_PATH_SH=`echo ${JAVA_LD_LIBRARY_PATH}|${SED-sed} -e 's:$(JAVA_HOME):\$\{JAVA_HOME\}:g'` ## includes consist of two parts - jni.h and machine-dependent jni_md.h jinc='' JAVA_CPPFLAGS='' for pinc in include ../include jre/include; do if test -e "${JAVA_HOME}/${pinc}/jni.h"; then jinc="${JAVA_HOME}/${pinc}"; break; fi done ## only if we get jni.h we can try to find jni_md.h if test -n "${jinc}"; then JAVA_CPPFLAGS="-I${jinc}" jmdinc='' jmdirs='' ## we are not in configure, so we need to find the OS from R host_os=`echo 'cat(R.version$os)'|${R_HOME}/bin/R --vanilla --slave 2>/dev/null` ## put the most probable locations for each system in the first place case "${host_os}" in linux*) jmdirs=linux;; bsdi*) jmdirs=bsdos;; osf*) jmdirs=alpha;; solaris*) jmdirs=solaris;; freebsd*) jmdirs=freebsd; add_java_libs='-lpthread';; esac ## in case host_os detection failed, add all candidates if test -z "${jmdirs}"; then jmdirs='linux solaris freebsd alpha bsdos'; fi ## prepend . and append less-likely ones jmdirs=". ${jmdirs} genunix ppc x86 iris hp-ux aix win32 cygwin openbsd" for pimd in ${jmdirs}; do if test -e "${jinc}/${pimd}/jni_md.h"; then jmdinc="${jinc}/${pimd}"; break; fi done if test -z "${jmdinc}"; then # ultima-ratio: use find and pray that it works jmdinc=`find "${jinc}/" -name jni_md.h 2> /dev/null |head -n 1 2>/dev/null` if test -n "${jmdinc}"; then jmdinc=`dirname "${jmdinc}"`; fi fi if test -n "${jmdinc}"; then if test "${jmdinc}" != "${jinc}/."; then JAVA_CPPFLAGS="${JAVA_CPPFLAGS} -I${jmdinc}" fi fi JAVA_CPPFLAGS=`echo ${JAVA_CPPFLAGS} | ${SED-sed} -e s:${JAVA_HOME}:\$\(JAVA_HOME\):g` fi ;; esac if test -n "${add_java_libs}"; then JAVA_LIBS="${JAVA_LIBS} ${add_java_libs}"; fi ## honor user overrides acx_custom_java_libs=no if test "${custom_JAVA_LIBS}" != '~autodetect~'; then JAVA_LIBS="${custom_JAVA_LIBS}" JAVA_LIBS0=`echo ${JAVA_LIBS} | ${SED-sed} -e s:${JAVA_HOME}:\$\(JAVA_HOME\):g` acx_custom_java_libs=yes fi if test "${custom_JAVA_CPPFLAGS}" != '~autodetect~'; then JAVA_CPPFLAGS="${custom_JAVA_CPPFLAGS}" fi if test "${custom_JAVA_LD_LIBRARY_PATH}" != '~autodetect~'; then JAVA_LD_LIBRARY_PATH="${custom_JAVA_LD_LIBRARY_PATH}" JAVA_LD_LIBRARY_PATH_SH=`echo ${JAVA_LD_LIBRARY_PATH}|${SED-sed} -e 's:$(JAVA_HOME):\$\{JAVA_HOME\}:g'` if test "${acx_custom_java_libs}" != yes; then echo '' echo ' ** Warning: you are using custom JAVA_LD_LIBRARY_PATH without' >&2 echo ' custom JAVA_LIBS. We cannot guarantee that this will work,' >&2 echo ' both settings must match for a proper Java operation!' >&2 fi else if test "${acx_custom_java_libs}" = yes; then echo '' echo ' ** Warning: you are using custom JAVA_LIBS setting without' >&2 echo ' specifying JAVA_LD_LIBRARY_PATH. We cannot gearantee that' >&2 echo ' this will work, both must match for a proper Java operation!' >&2 fi fi echo "Java library path: ${JAVA_LD_LIBRARY_PATH}" echo "JNI linker flags : ${JAVA_LIBS}" echo "JNI cpp flags : ${JAVA_CPPFLAGS}" echo "" if test "${export_vars}" = yes; then export JAVA_HOME JAVA JAVAC JAVAH JAR JAVA_LIBS JAVA_CPPFLAGS JAVA_LD_LIBRARY_PATH echo "The following Java variables have been exported:" echo "JAVA_HOME JAVA JAVAC JAVAH JAR JAVA_LIBS JAVA_CPPFLAGS JAVA_LD_LIBRARY_PATH" test -z "${run_prog}" && test -n "${SHELL}" && run_prog="${SHELL}" test -z "${run_prog}" && run_prog=/bin/sh echo "Runnig: ${run_prog}" ${run_prog} exit 0 fi test "${dry_run}" = yes && exit 0 echo "Updating Java configuration in ${R_HOME}" files="${R_HOME}/etc${R_ARCH}/Makeconf ${R_HOME}/etc${R_ARCH}/ldpaths" for file in $files; do ${SED-sed} -e "s|JAVA =.\{0,\}|JAVA = $JAVA|" -e "s|JAVA_HOME =.\{0,\}|JAVA_HOME = ${JAVA_HOME}|" -e "s|: \${JAVA_HOME=.\{1,\}|: \${JAVA_HOME=${JAVA_HOME}}|" -e "s|: \${R_JAVA_LD_LIBRARY_PATH=.\{1,\}|: \${R_JAVA_LD_LIBRARY_PATH=${JAVA_LD_LIBRARY_PATH_SH}}|" -e "s|JAVA_LIBS =.\{0,\}|JAVA_LIBS = ${JAVA_LIBS}|g" -e "s|JAVA_LD_LIBRARY_PATH =.\{0,\}|JAVA_LD_LIBRARY_PATH = ${JAVA_LD_LIBRARY_PATH}|" -e "s|JAVAC =.\{0,\}|JAVAC = $JAVAC|" -e "s|JAVAH =.\{0,\}|JAVAH = $JAVAH|" -e "s|JAR =.\{0,\}|JAR = $JAR|" "${file}" -e "s|JAVA_CPPFLAGS =.\{0,\}|JAVA_CPPFLAGS = ${JAVA_CPPFLAGS}|g"> "${file}.new" if test -f "${file}.new"; then mv "${file}" "${file}.old" mv "${file}.new" "${file}" else echo "*** cannot create ${file}.new~*** Please run as root if required.~" | ${SED-sed} -e 'y/~/\n/' >&2 exit 1 fi done echo "Done." echo ''