* installing *source* package ‘rJava’ ...
** using staged installation
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking for sys/wait.h that is POSIX.1 compatible... yes
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for string.h... (cached) yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
configure: checking whether gcc supports static inline...
yes
checking whether setjmp.h is POSIX.1 compatible... yes
checking for gcc options needed to detect all undeclared functions... none needed
checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
checking Java support in R... present:
interpreter : '/usr/lib/jvm/temurin-11-jdk-amd64/bin/java'
archiver : '/usr/lib/jvm/temurin-11-jdk-amd64/bin/jar'
compiler : '/usr/lib/jvm/temurin-11-jdk-amd64/bin/javac'
header prep.: ''
cpp flags : '-I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux'
java libs : '-L/usr/lib/jvm/temurin-11-jdk-amd64/lib/server -ljvm'
checking whether Java run-time works... yes
checking whether -Xrs is supported... yes
checking whether -Xrs will be used... yes
checking whether JVM will be loaded dynamically... no
checking whether JNI programs can be compiled... yes
checking whether JNI programs run... yes
checking JNI data types... ok
checking whether JRI should be compiled (autodetect)... yes
checking whether debugging output should be enabled... no
checking whether memory profiling is desired... no
checking whether threads support is requested... no
checking whether callbacks support is requested... no
checking whether JNI cache support is requested... no
checking whether headless init is enabled... no
checking whether JRI is requested... yes
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating R/zzz.R
config.status: creating src/config.h
=== configuring in src/jri (/rJava/src/jri)
configure: running /bin/bash ./configure --disable-option-checking '--prefix=/usr/local' 'CC=gcc' 'CFLAGS=-g -O2 -Wall -Wstrict-prototypes -pedantic' 'LDFLAGS=-L/usr/local/lib' 'CPPFLAGS=-I/usr/local/include' --cache-file=/dev/null --srcdir=.
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for sys/time.h... yes
checking for sys/types.h... (cached) yes
checking for sys/select.h... yes
checking Java version... 11.0.24
checking Java compatibility version (integer)... 11
checking whether actually works... no
checking whether javah was replaced by javac -h... yes
checking for target flags... -h . -target 1.6 -source 1.6
checking whether Java interpreter works... checking whether JNI programs can be compiled... yes
checking whether JNI programs can be run... yes
checking JNI data types... ok
checking whether Rinterface.h exports R_CStackXXX variables... yes
checking whether Rinterface.h exports R_SignalHandlers... yes
configure: creating ./config.status
config.status: creating src/Makefile
config.status: creating Makefile
config.status: creating run
config.status: creating src/config.h
** libs
using C compiler: ‘gcc (Debian 12.2.0-14) 12.2.0’
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c Rglue.c -o Rglue.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c arrayc.c -o arrayc.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c callJNI.c -o callJNI.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c callback.c -o callback.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c fields.c -o fields.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c init.c -o init.o
init.c: In function ‘initJVM’:
init.c:175:38: warning: ISO C forbids assignment between function pointer and ‘void *’ [-Wpedantic]
175 | vm_options[propNum++].extraInfo = vfprintf_hook;
| ^
init.c:179:38: warning: ISO C forbids assignment between function pointer and ‘void *’ [-Wpedantic]
179 | vm_options[propNum++].extraInfo = exit_hook;
| ^
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c jri_glue.c -o jri_glue.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c loader.c -o loader.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c otables.c -o otables.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c rJava.c -o rJava.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c registration.c -o registration.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c rjstring.c -o rjstring.o
gcc -I"/www/rforge/sys/debian-12/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/usr/local/include -DSTRICT_R_HEADERS=1 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c tools.c -o tools.o
gcc -shared -L/www/rforge/sys/debian-12/usr/R/devel/lib -L/usr/local/lib -o rJava.so Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o registration.o rjstring.o tools.o -L/usr/lib/jvm/temurin-11-jdk-amd64/lib/server -ljvm -L/www/rforge/sys/debian-12/usr/R/devel/lib -lR
(cd jri && make)
make[1]: Entering directory '/rJava/src/jri'
make -C src JRI.jar
make[2]: Entering directory '/rJava/src/jri/src'
/usr/lib/jvm/temurin-11-jdk-amd64/bin/javac -h . -target 1.6 -source 1.6 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
warning: [options] bootstrap class path not set in conjunction with -source 6
warning: [options] source value 6 is obsolete and will be removed in a future release
warning: [options] target value 1.6 is obsolete and will be removed in a future release
warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
Note: ../REXP.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
4 warnings
if [ -n "" ]; then -d . -classpath . org.rosuda.JRI.Rengine; fi
gcc -c -o Rengine.o Rengine.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/www/rforge/sys/debian-12/usr/R/devel/include -I/www/rforge/sys/debian-12/usr/R/devel/include
gcc -c -o jri.o jri.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/www/rforge/sys/debian-12/usr/R/devel/include -I/www/rforge/sys/debian-12/usr/R/devel/include
gcc -c -o Rcallbacks.o Rcallbacks.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/www/rforge/sys/debian-12/usr/R/devel/include -I/www/rforge/sys/debian-12/usr/R/devel/include
gcc -c -o Rinit.o Rinit.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/www/rforge/sys/debian-12/usr/R/devel/include -I/www/rforge/sys/debian-12/usr/R/devel/include
gcc -c -o globals.o globals.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux
gcc -c -o rjava.o rjava.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux
gcc -c -o rjstring.o rjstring.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -g -O2 -Wall -Wstrict-prototypes -pedantic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -fpic -I/usr/lib/jvm/temurin-11-jdk-amd64/include -I/usr/lib/jvm/temurin-11-jdk-amd64/include/linux -I/www/rforge/sys/debian-12/usr/R/devel/include -I/www/rforge/sys/debian-12/usr/R/devel/include
gcc -o libjri.so Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o rjstring.o -L/usr/local/lib -shared -L/usr/lib/jvm/temurin-11-jdk-amd64/lib/server -ljvm -Wl,--export-dynamic -fopenmp -L/usr/local/lib -L/www/rforge/sys/debian-12/usr/R/devel/lib -lR -lpcre2-8 -ldeflate -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -licuuc -licui18n
/usr/lib/jvm/temurin-11-jdk-amd64/bin/javac -h . -target 1.6 -source 1.6 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
warning: [options] bootstrap class path not set in conjunction with -source 6
warning: [options] source value 6 is obsolete and will be removed in a future release
warning: [options] target value 1.6 is obsolete and will be removed in a future release
warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
Note: ../REXP.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
4 warnings
/usr/lib/jvm/temurin-11-jdk-amd64/bin/jar fc JRI.jar org libjri.so
make[2]: Leaving directory '/rJava/src/jri/src'
rm -f libjri.so
cp src/libjri.so libjri.so
/usr/lib/jvm/temurin-11-jdk-amd64/bin/javac -h . -target 1.6 -source 1.6 -classpath src/JRI.jar -d examples examples/rtest.java
warning: [options] bootstrap class path not set in conjunction with -source 6
warning: [options] source value 6 is obsolete and will be removed in a future release
warning: [options] target value 1.6 is obsolete and will be removed in a future release
warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
Note: examples/rtest.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
4 warnings
/usr/lib/jvm/temurin-11-jdk-amd64/bin/javac -h . -target 1.6 -source 1.6 -classpath src/JRI.jar -d examples examples/rtest2.java
warning: [options] bootstrap class path not set in conjunction with -source 6
warning: [options] source value 6 is obsolete and will be removed in a future release
warning: [options] target value 1.6 is obsolete and will be removed in a future release
warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
Note: examples/rtest2.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
4 warnings
make[1]: Leaving directory '/rJava/src/jri'
installing via 'install.libs.R' to /00LOCK-rJava/00new/rJava
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rJava)