* 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 we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for string.h... (cached) yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking whether time.h and sys/time.h may both be included... yes
configure: checking whether gcc supports static inline...
yes
checking whether setjmp.h is POSIX.1 compatible... yes
checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
checking Java support in R... present:
interpreter : '/usr/bin/java'
archiver : '/usr/bin/jar'
compiler : '/usr/bin/javac'
header prep.: ''
cpp flags : '-I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux'
java libs : '-L/usr/lib/jvm/java-11-openjdk-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 jri (/rJava/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... 11.0.15
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 10.2.1-6) 10.2.1 20210110’
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c Rglue.c -o Rglue.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c arrayc.c -o arrayc.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c callJNI.c -o callJNI.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c callback.c -o callback.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c fields.c -o fields.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -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-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c jri_glue.c -o jri_glue.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c loader.c -o loader.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c otables.c -o otables.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c rJava.c -o rJava.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c registration.c -o registration.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c rjstring.c -o rjstring.o
gcc -I"/www/rforge/sys/debian-11/usr/R/devel/include" -DNDEBUG -I. -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/usr/local/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -c tools.c -o tools.o
gcc -shared -L/www/rforge/sys/debian-11/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/java-11-openjdk-amd64/lib/server -ljvm -L/www/rforge/sys/debian-11/usr/R/devel/lib -lR
(cd ../jri && make)
make[1]: Entering directory '/rJava/jri'
make -C src JRI.jar
make[2]: Entering directory '/rJava/jri/src'
/usr/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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/www/rforge/sys/debian-11/usr/R/devel/include -I/www/rforge/sys/debian-11/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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/www/rforge/sys/debian-11/usr/R/devel/include -I/www/rforge/sys/debian-11/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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/www/rforge/sys/debian-11/usr/R/devel/include -I/www/rforge/sys/debian-11/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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/www/rforge/sys/debian-11/usr/R/devel/include -I/www/rforge/sys/debian-11/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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-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/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -fpic -I/usr/lib/jvm/java-11-openjdk-amd64/include -I/usr/lib/jvm/java-11-openjdk-amd64/include/linux -I/www/rforge/sys/debian-11/usr/R/devel/include -I/www/rforge/sys/debian-11/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/java-11-openjdk-amd64/lib/server -ljvm -Wl,--export-dynamic -fopenmp -L/usr/local/lib -L/www/rforge/sys/debian-11/usr/R/devel/lib -lR -lpcre2-8 -ldeflate -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n
/usr/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/bin/jar fc JRI.jar org libjri.so
make[2]: Leaving directory '/rJava/jri/src'
rm -f libjri.so
cp src/libjri.so libjri.so
/usr/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/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/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)

* checking for file 'rJava/DESCRIPTION' ... OK
* preparing 'rJava':
* checking DESCRIPTION meta-information ... OK
* cleaning src
Makevars.win:20: JAVA_HOME is C:\\jdk1.4.2_04
Makevars.win:28: PKG_CPPFLAGS are -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:\\jdk1.4.2_04/include -IC:\\jdk1.4.2_04/include/win32
make: Nothing to be done for `clean'.
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building binary distribution
WARNING: some HTML links may not be found
* installing *source* package 'rJava' ...
Generate Windows-specific files (src/jvm-w32) ...
make: Entering directory `/cygdrive/c/tmp/Rbuild207278002/rJava/src/jvm-w32'
dlltool --input-def jvm.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
gcc -O2 -c -o findjava.o findjava.c
gcc -s -o findjava.exe findjava.o
make: Leaving directory `/cygdrive/c/tmp/Rbuild207278002/rJava/src/jvm-w32'
Find Java...
JAVA_HOME=C:/jdk1.6
=== Building JRI ===
JAVA_HOME=C:/jdk1.6
R_HOME=c:/PROGRA~1/r/R-211~1.0
Creating Makefiles ...
Configuration done.
make -C src JRI.jar
make[1]: Entering directory `/cygdrive/c/tmp/Rbuild207278002/rJava/jri/src'
C:/jdk1.6/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/jdk1.6/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
gcc -c -o Rengine.o Rengine.c -O3 -Wall -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -Ic:/PROGRA~1/r/R-211~1.0/include
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniParse':
Rengine.c:115: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniEval':
Rengine.c:129: warning: cast to pointer from integer of different size
Rengine.c:130: warning: cast to pointer from integer of different size
Rengine.c:153: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniAssign':
Rengine.c:173: warning: cast to pointer from integer of different size
Rengine.c:174: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniProtect':
Rengine.c:183: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniRelease':
Rengine.c:195: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPreserve':
Rengine.c:201: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPrintValue':
Rengine.c:207: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniParentEnv':
Rengine.c:213: warning: cast to pointer from integer of different size
Rengine.c:213: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniFindVar':
Rengine.c:222: warning: cast to pointer from integer of different size
Rengine.c:222: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniListEnv':
Rengine.c:228: warning: cast to pointer from integer of different size
Rengine.c:228: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniSpecialObject':
Rengine.c:235: warning: cast from pointer to integer of different size
Rengine.c:236: warning: cast from pointer to integer of different size
Rengine.c:237: warning: cast from pointer to integer of different size
Rengine.c:238: warning: cast from pointer to integer of different size
Rengine.c:239: warning: cast from pointer to integer of different size
Rengine.c:240: warning: cast from pointer to integer of different size
Rengine.c:241: warning: cast from pointer to integer of different size
Rengine.c:242: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniXrefToJava':
Rengine.c:250: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniJavaToXref':
Rengine.c:260: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetString':
Rengine.c:266: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetStringArray':
Rengine.c:273: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetIntArray':
Rengine.c:279: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetRawArray':
Rengine.c:285: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetBoolArrayI':
Rengine.c:291: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetDoubleArray':
Rengine.c:297: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetVector':
Rengine.c:303: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniExpType':
Rengine.c:309: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutString':
Rengine.c:329: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutStringArray':
Rengine.c:335: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutIntArray':
Rengine.c:341: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutRawArray':
Rengine.c:347: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutBoolArrayI':
Rengine.c:353: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutBoolArray':
Rengine.c:359: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutDoubleArray':
Rengine.c:365: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutVector':
Rengine.c:371: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetAttr':
Rengine.c:378: warning: cast to pointer from integer of different size
Rengine.c:380: warning: cast to pointer from integer of different size
Rengine.c:381: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetAttrNames':
Rengine.c:388: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniSetAttr':
Rengine.c:420: warning: cast to pointer from integer of different size
Rengine.c:422: warning: cast to pointer from integer of different size
Rengine.c:422: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniInstallSymbol':
Rengine.c:435: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetSymbolName':
Rengine.c:441: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniInherits':
Rengine.c:451: warning: cast to pointer from integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniCons':
Rengine.c:462: warning: cast to pointer from integer of different size
Rengine.c:462: warning: cast to pointer from integer of different size
Rengine.c:464: warning: cast to pointer from integer of different size
Rengine.c:464: warning: cast to pointer from integer of different size
Rengine.c:466: warning: cast to pointer from integer of different size
Rengine.c:467: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniCAR':
Rengine.c:474: warning: cast to pointer from integer of different size
Rengine.c:475: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniCDR':
Rengine.c:484: warning: cast to pointer from integer of different size
Rengine.c:485: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniTAG':
Rengine.c:494: warning: cast to pointer from integer of different size
Rengine.c:495: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutList':
Rengine.c:510: warning: cast from pointer to integer of different size
Rengine.c:515: warning: cast to pointer from integer of different size
Rengine.c:520: warning: cast from pointer to integer of different size
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetList':
Rengine.c:527: warning: cast to pointer from integer of different size
Rengine.c:554: warning: cast from pointer to integer of different size
gcc -c -o jri.o jri.c -O3 -Wall -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -Ic:/PROGRA~1/r/R-211~1.0/include
jri.c: In function 'jri_putSEXPLArray':
jri.c:193: warning: cast from pointer to integer of different size
jri.c: In function 'jri_getObjectArray':
jri.c:308: warning: cast from pointer to integer of different size
jri.c: In function 'jri_getSEXPLArray':
jri.c:472: warning: cast to pointer from integer of different size
gcc -c -o Rcallbacks.o Rcallbacks.c -O3 -Wall -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -Ic:/PROGRA~1/r/R-211~1.0/include
gcc -c -o Rinit.o Rinit.c -O3 -Wall -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -Ic:/PROGRA~1/r/R-211~1.0/include
Rinit.c: In function 'initR':
Rinit.c:248: warning: assignment from incompatible pointer type
Rinit.c:254: warning: assignment from incompatible pointer type
Rinit.c:277: warning: implicit declaration of function 'signal'
gcc -c -o globals.o globals.c -O3 -Wall -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/jdk1.6/include -IC:/jdk1.6/include/win32
gcc -c -o rjava.o rjava.c -O3 -Wall -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/jdk1.6/include -IC:/jdk1.6/include/win32
make -C win32 libjvm.dll.a
make[2]: Entering directory `/cygdrive/c/tmp/Rbuild207278002/rJava/jri/src/win32'
dlltool --input-def jvm.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
make[2]: Leaving directory `/cygdrive/c/tmp/Rbuild207278002/rJava/jri/src/win32'
gcc -o jri.dll Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o win32/libjvm.dll.a -shared -Lwin32 -ljvm -Lc:/PROGRA~1/r/R-211~1.0/src/gnuwin32 -Lc:/PROGRA~1/r/R-211~1.0/bin -lR -Wl,--kill-at
C:/jdk1.6/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/jdk1.6/bin/jar fc JRI.jar org jri.dll
make[1]: Leaving directory `/cygdrive/c/tmp/Rbuild207278002/rJava/jri/src'
rm -f jri.dll
cp src/jri.dll jri.dll
C:/jdk1.6/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest.java
Note: examples\rtest.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
C:/jdk1.6/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java
Note: examples\rtest2.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
echo "set PATH=%PATH%;c:/PROGRA~1/r/R-211~1.0\\bin;c:/PROGRA~1/r/R-211~1.0\\lib" > run.bat
echo "C:/jdk1.6/bin/java -cp .;examples;JRI.jar;src/JRI.jar rtest \$*" >> run.bat
=== JRI built ===
Configuration done.
** libs
making DLL ...
Makevars.win:20: JAVA_HOME is C:/jdk1.6
Makevars.win:28: PKG_CPPFLAGS are -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c Rglue.c -o Rglue.o
Rglue.c:831: warning: 'new_jrectRef' defined but not used
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c arrayc.c -o arrayc.o
arrayc.c: In function 'RgetShortArrayCont':
arrayc.c:161: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetCharArrayCont':
arrayc.c:124: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetBoolArrayCont':
arrayc.c:87: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetLongArrayCont':
arrayc.c:294: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetFloatArrayCont':
arrayc.c:260: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetDoubleArrayCont':
arrayc.c:229: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetIntArrayCont':
arrayc.c:56: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetByteArrayCont':
arrayc.c:198: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetObjectArrayCont':
arrayc.c:12: warning: 'o' may be used uninitialized in this function
arrayc.c: In function 'RgetSimpleClassNames':
arrayc.c:420: warning: 'jobj' may be used uninitialized in this function
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c callJNI.c -o callJNI.o
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c callback.c -o callback.o
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c fields.c -o fields.o
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c init.c -o init.o
init.c: In function 'initJVM':
init.c:140: warning: dereferencing type-punned pointer will break strict-aliasing rules
init.c: In function 'RinitJVM':
init.c:291: warning: dereferencing type-punned pointer will break strict-aliasing rules
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c jri_glue.c -o jri_glue.o
jri_glue.c: In function 'PushToREXP':
jri_glue.c:24: warning: cast from pointer to integer of different size
jri_glue.c: In function 'RReleaseREXP':
jri_glue.c:52: warning: cast to pointer from integer of different size
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c loader.c -o loader.o
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c otables.c -o otables.o
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c rJava.c -o rJava.o
rJava.c: In function 'getJNIEnv':
rJava.c:209: warning: dereferencing type-punned pointer will break strict-aliasing rules
gcc -I"c:/PROGRA~1/r/R-211~1.0/include" -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0/src/include -IC:/jdk1.6/include -IC:/jdk1.6/include/win32 -O3 -Wall -std=gnu99 -c tools.c -o tools.o
gcc -shared -s -static-libgcc -o rJava.dll tmp.def Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o tools.o -Ljvm-w32 -ljvm.dll -Lc:/PROGRA~1/r/R-211~1.0/bin -lR
installing to c:/tmp/Rinst207243237/rJava/libs
... done
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** MD5 sums
** testing if installed package can be loaded
packaged installation of 'rJava' as rJava_0.8-7.zip

* DONE (rJava)

* checking for file 'rJava/DESCRIPTION' ... OK
* preparing 'rJava':
* checking DESCRIPTION meta-information ... OK
* cleaning src
Makevars.win:20: JAVA_HOME is C:\\jdk1.4.2_04
Makevars.win:28: PKG_CPPFLAGS are -D_R_ -DWin32 -Ic:/PROGRA~1/r/R-211~1.0-X/src/include -IC:\\jdk1.4.2_04/include -IC:\\jdk1.4.2_04/include/win32
make: Nothing to be done for `clean'.
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building binary distribution
WARNING: some HTML links may not be found
* installing *source* package 'rJava' ...
Generate Windows-specific files (src/jvm-w32) ...
make: Entering directory `/cygdrive/c/tmp/Rbuild279201849/rJava/src/jvm-w32'
x86_64-w64-mingw32-dlltool --input-def jvm64.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
x86_64-w64-mingw32-gcc -O2 -c -o findjava.o findjava.c
x86_64-w64-mingw32-gcc -s -o findjava.exe findjava.o
make: Leaving directory `/cygdrive/c/tmp/Rbuild279201849/rJava/src/jvm-w32'
Find Java...
JAVA_HOME=C:/PROGRA~1/Java/JDK16~1.0_1
=== Building JRI ===
JAVA_HOME=C:/PROGRA~1/Java/JDK16~1.0_1
R_HOME=c:/PROGRA~1/r/R-211~1.0-X
Creating Makefiles ...
Configuration done.
make -C src JRI.jar
make[1]: Entering directory `/cygdrive/c/tmp/Rbuild279201849/rJava/jri/src'
C:/PROGRA~1/Java/JDK16~1.0_1/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/PROGRA~1/Java/JDK16~1.0_1/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
x86_64-w64-mingw32-gcc -c -o Rengine.o Rengine.c -O2 -Wall -gdwarf-2 -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/Java/JDK16~1.0_1/include -IC:/PROGRA~1/Java/JDK16~1.0_1/include/win32 -Ic:/PROGRA~1/r/R-211~1.0-X/include
x86_64-w64-mingw32-gcc -c -o jri.o jri.c -O2 -Wall -gdwarf-2 -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/Java/JDK16~1.0_1/include -IC:/PROGRA~1/Java/JDK16~1.0_1/include/win32 -Ic:/PROGRA~1/r/R-211~1.0-X/include
x86_64-w64-mingw32-gcc -c -o Rcallbacks.o Rcallbacks.c -O2 -Wall -gdwarf-2 -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/Java/JDK16~1.0_1/include -IC:/PROGRA~1/Java/JDK16~1.0_1/include/win32 -Ic:/PROGRA~1/r/R-211~1.0-X/include
x86_64-w64-mingw32-gcc -c -o Rinit.o Rinit.c -O2 -Wall -gdwarf-2 -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -Ic:/PROGRA~1/r/R-211~1.0-X/include
Rinit.c: In function 'initR':
Rinit.c:248:21: warning: assignment from incompatible pointer type
Rinit.c:254:21: warning: assignment from incompatible pointer type
Rinit.c:277:5: warning: implicit declaration of function 'signal'
x86_64-w64-mingw32-gcc -c -o globals.o globals.c -O2 -Wall -gdwarf-2 -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/Java/JDK16~1.0_1/include -IC:/PROGRA~1/Java/JDK16~1.0_1/include/win32
x86_64-w64-mingw32-gcc -c -o rjava.o rjava.c -O2 -Wall -gdwarf-2 -std=gnu99 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/Java/JDK16~1.0_1/include -IC:/PROGRA~1/Java/JDK16~1.0_1/include/win32
make -C win32 libjvm.dll.a
make[2]: Entering directory `/cygdrive/c/tmp/Rbuild279201849/rJava/jri/src/win32'
x86_64-w64-mingw32-dlltool --input-def jvm64.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
make[2]: Leaving directory `/cygdrive/c/tmp/Rbuild279201849/rJava/jri/src/win32'
x86_64-w64-mingw32-gcc -o jri.dll Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o win32/libjvm.dll.a -shared -Lwin32 -ljvm -Lc:/PROGRA~1/r/R-211~1.0-X/src/gnuwin32 -Lc:/PROGRA~1/r/R-211~1.0-X/bin -lR -Wl,--kill-at
Rengine.o: In function `Java_org_rosuda_JRI_Rengine_rniStop':
c:\tmp\Rbuild279201849\rJava\jri\src/Rengine.c:639: undefined reference to `_imp__UserBreak'
Rinit.o: In function `my_onintr':
c:\tmp\Rbuild279201849\rJava\jri\src/Rinit.c:182: undefined reference to `_imp__UserBreak'
collect2: ld returned 1 exit status
make[1]: *** [jri.dll] Error 1
make[1]: Leaving directory `/cygdrive/c/tmp/Rbuild279201849/rJava/jri/src'
make: *** [src/JRI.jar] Error 2
**** WARNING: JRI could NOT be built
Set IGNORE=1 if you want to build rJava anyway.
ERROR: configuration failed for package 'rJava'
* removing 'c:/tmp/Rinst279282034/rJava'
ERROR
* installation failed

* installing *source* package 'rJava' ...
checking for gcc... gcc -arch i386 -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -arch i386 -std=gnu99 accepts -g... yes
checking for gcc -arch i386 -std=gnu99 option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -arch i386 -std=gnu99 -E
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... rm: conftest.dSYM: is a directory
rm: conftest.dSYM: is a directory
yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for string.h... (cached) yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking whether time.h and sys/time.h may both be included... yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
checking for java... /usr/bin/java
checking Java environment home... in /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home
checking for /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/jni.h... yes
checking for /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/./jni_md.h... yes
checking whether JNI programs can be compiled... yes
checking JNI data types... ok
checking whether JRI should be compiled (autodetect)... yes
checking whether debugging output should be enabled... 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 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 jri (/Volumes/Tiger/Builds/rforge/builds/osx9-2.16/rJava/jri)
configure: running /bin/sh ./configure '--prefix=/usr/local' --cache-file=/dev/null --srcdir=.
checking build system type... i386-apple-darwin9.8.0
checking host system type... i386-apple-darwin9.8.0
checking for gcc... gcc -arch i386 -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -arch i386 -std=gnu99 accepts -g... yes
checking for gcc -arch i386 -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc -arch i386 -std=gnu99 -E
checking for egrep... grep -E
checking for ANSI C header files... rm: conftest.dSYM: is a directory
rm: conftest.dSYM: is a directory
yes
checking for java... /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/bin/java
checking for javac... /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/bin/javac
checking for javah... /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/bin/javah
checking for jar... /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/bin/jar
checking whether Java interpreter works... yes
checking for Java environment... in /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home
checking for /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/jni.h... yes
checking for /System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/./jni_md.h... yes
checking whether JNI programs can be compiled... yes
checking whether JNI programs can be run... yes
checking JNI data types... ok
=== building universal JNI library - use FORCE_NATIVE=yes to avoid this ===
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
*** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG -I/usr/local/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -fPIC -g -O2 -c Rglue.c -o Rglue.o
Rglue.c: In function 'RinitJVM':
Rglue.c:207: warning: assignment discards qualifiers from pointer target type
Rglue.c:214: warning: assignment discards qualifiers from pointer target type
Rglue.c: In function 'Rpar2jvalue':
Rglue.c:299: warning: passing argument 2 of 'newString' discards qualifiers from pointer target type
Rglue.c:306: warning: passing argument 2 of 'newString' discards qualifiers from pointer target type
Rglue.c:391: warning: assignment discards qualifiers from pointer target type
Rglue.c:396: warning: assignment discards qualifiers from pointer target type
Rglue.c: In function 'RcallMethod':
Rglue.c:845: warning: assignment discards qualifiers from pointer target type
Rglue.c:864: warning: assignment discards qualifiers from pointer target type
Rglue.c: In function 'RcallStaticMethod':
Rglue.c:1041: warning: assignment discards qualifiers from pointer target type
Rglue.c:1051: warning: assignment discards qualifiers from pointer target type
Rglue.c:1057: warning: assignment discards qualifiers from pointer target type
Rglue.c: In function 'RgetField':
Rglue.c:1211: warning: assignment discards qualifiers from pointer target type
Rglue.c:1217: warning: assignment discards qualifiers from pointer target type
Rglue.c: In function 'RcreateObject':
Rglue.c:1311: warning: assignment discards qualifiers from pointer target type
Rglue.c: In function 'RcreateArray':
Rglue.c:1404: warning: passing argument 2 of 'newString' discards qualifiers from pointer target type
Rglue.c:1432: warning: initialization discards qualifiers from pointer target type
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG -I/usr/local/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -fPIC -g -O2 -c callJNI.c -o callJNI.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG -I/usr/local/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -fPIC -g -O2 -c callback.c -o callback.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG -I/usr/local/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -fPIC -g -O2 -c jri_glue.c -o jri_glue.o
jri_glue.c: In function 'PushToREXP':
jri_glue.c:24: warning: assignment discards qualifiers from pointer target type
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG -I/usr/local/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -fPIC -g -O2 -c rJava.c -o rJava.o
gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o rJava.so Rglue.o callJNI.o callback.o jri_glue.o rJava.o -framework JavaVM -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
make -C ../jri/
make -C src JRI.jar
/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java
/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
gcc -arch i386 -arch ppc -c -o Rengine.o Rengine.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -D_REENTRANT -fno-common -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include
gcc -arch i386 -arch ppc -c -o jri.o jri.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -D_REENTRANT -fno-common -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include
gcc -arch i386 -arch ppc -c -o Rcallbacks.o Rcallbacks.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -D_REENTRANT -fno-common -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/. -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include
Rcallbacks.c: In function 'Re_loadhistory':
Rcallbacks.c:274: warning: assignment discards qualifiers from pointer target type
Rcallbacks.c: In function 'Re_savehistory':
Rcallbacks.c:308: warning: assignment discards qualifiers from pointer target type
Rcallbacks.c: In function 'Re_loadhistory':
Rcallbacks.c:274: warning: assignment discards qualifiers from pointer target type
Rcallbacks.c: In function 'Re_savehistory':
Rcallbacks.c:308: warning: assignment discards qualifiers from pointer target type
gcc -arch i386 -arch ppc -c -o Rinit.o Rinit.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -D_REENTRANT -fno-common -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include
Rinit.c: In function 'initR':
Rinit.c:114: warning: assignment from incompatible pointer type
Rinit.c:115: warning: assignment from incompatible pointer type
Rinit.c:116: warning: assignment from incompatible pointer type
Rinit.c:121: warning: assignment from incompatible pointer type
Rinit.c: In function 'initR':
Rinit.c:114: warning: assignment from incompatible pointer type
Rinit.c:115: warning: assignment from incompatible pointer type
Rinit.c:116: warning: assignment from incompatible pointer type
Rinit.c:121: warning: assignment from incompatible pointer type
gcc -arch i386 -arch ppc -c -o globals.o globals.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -D_REENTRANT -fno-common -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/.
gcc -arch i386 -arch ppc -c -o rjava.o rjava.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -D_REENTRANT -fno-common -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include -I/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home/include/.
gcc -arch i386 -arch ppc -o libjri.jnilib Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o -dynamiclib -framework JavaVM -framework R
Undefined symbols:
"_Rf_checkArity", referenced from:
_Re_loadhistory in Rcallbacks.o
_Re_savehistory in Rcallbacks.o
ld: symbol(s) not found
collect2: ld returned 1 exit status
Undefined symbols:
"_Rf_checkArity", referenced from:
_Re_loadhistory in Rcallbacks.o
_Re_savehistory in Rcallbacks.o
ld: symbol(s) not found
collect2: ld returned 1 exit status
lipo: can't open input file: /var/tmp//ccOsg8Y3.out (No such file or directory)
make[2]: *** [libjri.jnilib] Error 1
make[1]: *** [src/JRI.jar] Error 2
make: *** [jri] Error 2
ERROR: compilation failed for package 'rJava'
* removing '/Volumes/Tiger/Builds/rforge/Rlib/osx9-2.16/rJava'
* restoring previous '/Volumes/Tiger/Builds/rforge/Rlib/osx9-2.16/rJava'

(rJava 0.9-5)
- building i386
* installing to library 'z:/rforge/Rlib/win7-3.0'
* installing *source* package 'rJava' ...
Generate Windows-specific files (src/jvm-w32) ...
make: Entering directory `/cygdrive/c/tmp/RtmpgrWohC/R.INSTALL3e4434dab/rJava/src/jvm-w32'
dlltool --as as -m i386 --as-flags --32 --input-def jvm.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
gcc -m32 -O2 -c -o findjava.o findjava.c
gcc -m32 -s -o findjava.exe findjava.o
make: Leaving directory `/cygdrive/c/tmp/RtmpgrWohC/R.INSTALL3e4434dab/rJava/src/jvm-w32'
Find Java...
JAVA_HOME=C:/JDK1~1.6-I
=== Building JRI ===
JAVA_HOME=C:/JDK1~1.6-I
R_HOME=C:/PROGRA~1/r/r-3.0
Creating Makefiles ...
Configuration done.
make -C src JRI.jar
make[1]: Entering directory `/cygdrive/c/tmp/RtmpgrWohC/R.INSTALL3e4434dab/rJava/jri/src'
C:/JDK1~1.6-I/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/JDK1~1.6-I/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
gcc -m32 -c -o Rengine.o Rengine.c -O3 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -IC:/PROGRA~1/r/r-3.0/include
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniParse':
Rengine.c:121:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniEval':
Rengine.c:135:36: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:136:23: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:159:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniAssign':
Rengine.c:179:20: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:180:20: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniProtect':
Rengine.c:189:2: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniRelease':
Rengine.c:201:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPreserve':
Rengine.c:207:28: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPrintValue':
Rengine.c:213:22: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniParentEnv':
Rengine.c:219:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:219:10: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniFindVar':
Rengine.c:228:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:228:9: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniListEnv':
Rengine.c:234:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:234:9: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniSpecialObject':
Rengine.c:241:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:242:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:243:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:244:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:245:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:246:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:247:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:248:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniXrefToJava':
Rengine.c:256:12: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniJavaToXref':
Rengine.c:266:10: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetString':
Rengine.c:272:33: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetStringArray':
Rengine.c:279:38: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetIntArray':
Rengine.c:285:35: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetRawArray':
Rengine.c:291:36: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetBoolArrayI':
Rengine.c:297:37: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetDoubleArray':
Rengine.c:303:38: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetVector':
Rengine.c:309:35: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniExpType':
Rengine.c:315:25: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutString':
Rengine.c:335:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutStringArray':
Rengine.c:341:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutIntArray':
Rengine.c:347:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutRawArray':
Rengine.c:353:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutBoolArrayI':
Rengine.c:359:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutBoolArray':
Rengine.c:365:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutDoubleArray':
Rengine.c:371:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutVector':
Rengine.c:377:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetAttr':
Rengine.c:384:44: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:386:28: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:387:34: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetAttrNames':
Rengine.c:394:14: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniSetAttr':
Rengine.c:426:44: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:428:15: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:428:53: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniInstallSymbol':
Rengine.c:441:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetSymbolName':
Rengine.c:447:32: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniInherits':
Rengine.c:457:16: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniCons':
Rengine.c:468:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:468:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:470:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:470:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:472:23: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:473:10: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniCAR':
Rengine.c:480:22: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:481:34: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniCDR':
Rengine.c:490:22: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:491:34: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniTAG':
Rengine.c:500:22: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:501:34: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniPutList':
Rengine.c:516:21: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c:521:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:526:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
Rengine.c: In function 'Java_org_rosuda_JRI_Rengine_rniGetList':
Rengine.c:533:12: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Rengine.c:560:51: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
gcc -m32 -c -o jri.o jri.c -O3 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -IC:/PROGRA~1/r/r-3.0/include
jri.c: In function 'jri_putSEXPLArray':
jri.c:193:26: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
jri.c: In function 'jri_getObjectArray':
jri.c:308:27: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
jri.c: In function 'jri_getSEXPLArray':
jri.c:472:31: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
gcc -m32 -c -o Rcallbacks.o Rcallbacks.c -O3 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -IC:/PROGRA~1/r/r-3.0/include
gcc -m32 -c -o Rinit.o Rinit.c -O3 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/r/r-3.0/include
Rinit.c: In function 'initR':
Rinit.c:250:21: warning: assignment from incompatible pointer type [enabled by default]
Rinit.c:256:21: warning: assignment from incompatible pointer type [enabled by default]
Rinit.c:279:5: warning: implicit declaration of function 'signal' [-Wimplicit-function-declaration]
gcc -m32 -c -o globals.o globals.c -O3 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32
gcc -m32 -c -o rjava.o rjava.c -O3 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32
make -C win32 libjvm.dll.a
make[2]: Entering directory `/cygdrive/c/tmp/RtmpgrWohC/R.INSTALL3e4434dab/rJava/jri/src/win32'
dlltool --as as -m i386 --as-flags --32 --input-def jvm.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
make[2]: Leaving directory `/cygdrive/c/tmp/RtmpgrWohC/R.INSTALL3e4434dab/rJava/jri/src/win32'
gcc -m32 -o jri.dll Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o win32/libjvm.dll.a -shared -Lwin32 -ljvm -LC:/PROGRA~1/r/r-3.0/src/gnuwin32 -LC:/PROGRA~1/r/r-3.0/bin/i386 -lR -Wl,--kill-at
C:/JDK1~1.6-I/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/JDK1~1.6-I/bin/jar fc JRI.jar org jri.dll
make[1]: Leaving directory `/cygdrive/c/tmp/RtmpgrWohC/R.INSTALL3e4434dab/rJava/jri/src'
rm -f jri.dll
cp src/jri.dll jri.dll
C:/JDK1~1.6-I/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest.java
Note: examples\rtest.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
C:/JDK1~1.6-I/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java
Note: examples\rtest2.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
echo "set PATH=%PATH%;C:/PROGRA~1/r/r-3.0\\bin;C:/PROGRA~1/r/r-3.0\\lib" > run.bat
echo "C:/JDK1~1.6-I/bin/java -cp .;examples;JRI.jar;src/JRI.jar rtest \$*" >> run.bat
=== JRI built ===
Configuration done.
** libs
Warning: this package has a non-empty 'configure.win' file,
so building only the main architecture

Makevars.win:20: JAVA_HOME is C:/JDK1~1.6-I
Makevars.win:28: PKG_CPPFLAGS are -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c Rglue.c -o Rglue.o
Rglue.c:836:13: warning: 'new_jrectRef' defined but not used [-Wunused-function]
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c arrayc.c -o arrayc.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c callJNI.c -o callJNI.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c callback.c -o callback.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c fields.c -o fields.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c init.c -o init.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c jri_glue.c -o jri_glue.o
jri_glue.c: In function 'PushToREXP':
jri_glue.c:24:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
jri_glue.c: In function 'RReleaseREXP':
jri_glue.c:52:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c loader.c -o loader.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c otables.c -o otables.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c rJava.c -o rJava.o
gcc -m32 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-I/include -IC:/JDK1~1.6-I/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c tools.c -o tools.o
gcc -m32 -shared -s -static-libgcc -o rJava.dll tmp.def Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o tools.o -Ljvm-w32 -ljvm.dll -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LC:/PROGRA~1/r/r-3.0/bin/i386 -lR
installing via 'install.libs.R' to z:/rforge/Rlib/win7-3.0/rJava
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (rJava)

- building x64
* installing to library 'z:/rforge/Rlib/win7-3.0'
* installing *source* package 'rJava' ...
Generate Windows-specific files (src/jvm-w32) ...
make: Entering directory `/cygdrive/c/tmp/Rtmp6L0HVs/R.INSTALLb68dcd18c7/rJava/src/jvm-w32'
dlltool --as as -m i386:x86-64 --as-flags --64 --input-def jvm64.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
gcc -m64 -O2 -c -o findjava.o findjava.c
gcc -m64 -s -o findjava.exe findjava.o
make: Leaving directory `/cygdrive/c/tmp/Rtmp6L0HVs/R.INSTALLb68dcd18c7/rJava/src/jvm-w32'
Find Java...
JAVA_HOME=C:/JDK1~1.6-X
=== Building JRI ===
JAVA_HOME=C:/JDK1~1.6-X
R_HOME=C:/PROGRA~1/r/r-3.0
Creating Makefiles ...
Configuration done.
make -C src JRI.jar
make[1]: Entering directory `/cygdrive/c/tmp/Rtmp6L0HVs/R.INSTALLb68dcd18c7/rJava/jri/src'
C:/JDK1~1.6-X/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/JDK1~1.6-X/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
gcc -m64 -c -o Rengine.o Rengine.c -O2 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -IC:/PROGRA~1/r/r-3.0/include
gcc -m64 -c -o jri.o jri.c -O2 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -IC:/PROGRA~1/r/r-3.0/include
gcc -m64 -c -o Rcallbacks.o Rcallbacks.c -O2 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -IC:/PROGRA~1/r/r-3.0/include
gcc -m64 -c -o Rinit.o Rinit.c -O2 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/PROGRA~1/r/r-3.0/include
Rinit.c: In function 'initR':
Rinit.c:250:21: warning: assignment from incompatible pointer type [enabled by default]
Rinit.c:256:21: warning: assignment from incompatible pointer type [enabled by default]
Rinit.c:279:5: warning: implicit declaration of function 'signal' [-Wimplicit-function-declaration]
gcc -m64 -c -o globals.o globals.c -O2 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32
gcc -m64 -c -o rjava.o rjava.c -O2 -Wall -std=gnu99 -mtune=core2 -DWin32 -D_JNI_IMPLEMENTATION_ -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32
make -C win32 libjvm.dll.a
make[2]: Entering directory `/cygdrive/c/tmp/Rtmp6L0HVs/R.INSTALLb68dcd18c7/rJava/jri/src/win32'
dlltool --as as -m i386:x86-64 --as-flags --64 --input-def jvm64.def --kill-at --dllname jvm.dll --output-lib libjvm.dll.a
make[2]: Leaving directory `/cygdrive/c/tmp/Rtmp6L0HVs/R.INSTALLb68dcd18c7/rJava/jri/src/win32'
gcc -m64 -o jri.dll Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o win32/libjvm.dll.a -shared -Lwin32 -ljvm -LC:/PROGRA~1/r/r-3.0/src/gnuwin32 -LC:/PROGRA~1/r/r-3.0/bin/x64 -lR -Wl,--kill-at
C:/JDK1~1.6-X/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
C:/JDK1~1.6-X/bin/jar fc JRI.jar org jri.dll
make[1]: Leaving directory `/cygdrive/c/tmp/Rtmp6L0HVs/R.INSTALLb68dcd18c7/rJava/jri/src'
rm -f jri.dll
cp src/jri.dll jri.dll
C:/JDK1~1.6-X/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest.java
Note: examples\rtest.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
C:/JDK1~1.6-X/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java
Note: examples\rtest2.java uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
echo "set PATH=%PATH%;C:/PROGRA~1/r/r-3.0\\bin;C:/PROGRA~1/r/r-3.0\\lib" > run.bat
echo "C:/JDK1~1.6-X/bin/java -cp .;examples;JRI.jar;src/JRI.jar rtest \$*" >> run.bat
=== JRI built ===
Configuration done.
** libs
Warning: this package has a non-empty 'configure.win' file,
so building only the main architecture

Makevars.win:20: JAVA_HOME is C:/JDK1~1.6-X
Makevars.win:28: PKG_CPPFLAGS are -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c Rglue.c -o Rglue.o
Rglue.c:836:13: warning: 'new_jrectRef' defined but not used [-Wunused-function]
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c arrayc.c -o arrayc.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c callJNI.c -o callJNI.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c callback.c -o callback.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c fields.c -o fields.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c init.c -o init.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c jri_glue.c -o jri_glue.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c loader.c -o loader.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c otables.c -o otables.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c rJava.c -o rJava.o
gcc -m64 -I"C:/PROGRA~1/r/r-3.0/include" -DNDEBUG -D_R_ -DWin32 -I/src/include -IC:/JDK1~1.6-X/include -IC:/JDK1~1.6-X/include/win32 -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c tools.c -o tools.o
gcc -m64 -shared -s -static-libgcc -o rJava.dll tmp.def Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o tools.o -Ljvm-w32 -ljvm.dll -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LC:/PROGRA~1/r/r-3.0/bin/x64 -lR
installing via 'install.libs.R' to z:/rforge/Rlib/win7-3.0/rJava
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (rJava)