I almost tried for 1 week now to install rJava and package FSelector with rkward on my Linux machine but couldn't do so.
I searched all the forums and tried some tricks ... but unfortunately couldn't find any solution.
First of all I did try to install rJava in my rkward without any changes , that gave me the following error :
I searched all the forums and tried some tricks ... but unfortunately couldn't find any solution.
First of all I did try to install rJava in my rkward without any changes , that gave me the following error :
configure: error: One or more JNI types differ from the corresponding native type. You may need to use non-standard compiler flags or a different compiler in order to fix this.
ERROR: configuration failed for package ‘rJava’
* removing ‘/home/uwe/.rkward/library/rJava’
Warnmeldung:
In install.packages(pkgs = c("rJava"), lib = "/home/uwe/.rkward/library", :
Installation des Pakets ‘rJava’ hatte Exit-Status ungleich 0
Installation des Pakets ‘rJava’ hatte Exit-Status ungleich 0
So then I started searching and found a tip. I did run the following;
uwe@linux-k2a8:~> sudo R CMD javareconf
Java interpreter : /usr/bin/java
Java version : 1.7.0_45
Java home path : /usr/lib/jdk1.7.0_45/jre
Java compiler : /usr/bin/javac
Java headers gen.: /usr/bin/javah
Java archive tool: /usr/bin/jar
NOTE: Your JVM has a bogus java.library.path system property!
Trying a heuristic via sun.boot.library.path to find jvm library...
Java library path: $(JAVA_HOME)/lib/i386/client
JNI linker flags : -L$(JAVA_HOME)/lib/i386/client -ljvm
JNI cpp flags : -I$(JAVA_HOME)/../include -I$(JAVA_HOME)/../include/linux
Updating Java configuration in /usr/lib/R
Done.
Java version : 1.7.0_45
Java home path : /usr/lib/jdk1.7.0_45/jre
Java compiler : /usr/bin/javac
Java headers gen.: /usr/bin/javah
Java archive tool: /usr/bin/jar
NOTE: Your JVM has a bogus java.library.path system property!
Trying a heuristic via sun.boot.library.path to find jvm library...
Java library path: $(JAVA_HOME)/lib/i386/client
JNI linker flags : -L$(JAVA_HOME)/lib/i386/client -ljvm
JNI cpp flags : -I$(JAVA_HOME)/../include -I$(JAVA_HOME)/../include/linux
Updating Java configuration in /usr/lib/R
Done.
And also did check
uwe@linux-k2a8:~> java -version
java version "1.7.0_45"
Java(TM) SE Runtime Environment (build 1.7.0_45-b18)
Java HotSpot(TM) Server VM (build 24.45-b08, mixed mode)
uwe@linux-k2a8:~> sudo /usr/sbin/update-alternatives --config java
There are 4 choices for the alternative java (providing /usr/bin/java).
Selection Path Priority Status
------------------------------------------------------------
0 /usr/lib/jvm/jre-1.7.0-openjdk/bin/java 17147 auto mode
1 /usr/java/latest/bin/java 1 manual mode
* 2 /usr/lib/jdk_Oracle/bin/java 3 manual mode
3 /usr/lib/jvm/jre-1.5.0-gcj/bin/java 1500 manual mode
4 /usr/lib/jvm/jre-1.7.0-openjdk/bin/java 17147 manual mode
Press enter to keep the current choice[*], or type selection number:
I absolutely don't know what is wrong with that setup since my Java seems to have JDK and all the other things needed for R.
For your Information here my system:
There are 4 choices for the alternative java (providing /usr/bin/java).
Selection Path Priority Status
------------------------------------------------------------
0 /usr/lib/jvm/jre-1.7.0-openjdk/bin/java 17147 auto mode
1 /usr/java/latest/bin/java 1 manual mode
* 2 /usr/lib/jdk_Oracle/bin/java 3 manual mode
3 /usr/lib/jvm/jre-1.5.0-gcj/bin/java 1500 manual mode
4 /usr/lib/jvm/jre-1.7.0-openjdk/bin/java 17147 manual mode
Press enter to keep the current choice[*], or type selection number:
I absolutely don't know what is wrong with that setup since my Java seems to have JDK and all the other things needed for R.
For your Information here my system:
uwe@linux-k2a8:~> uname -rm
3.4.63-2.44-desktop i686
uwe@linux-k2a8:~> cat /proc/version
Linux version 3.4.63-2.44-desktop (geeko@buildhost) (gcc version 4.7.1 20120723 [gcc-4_7-branch revision 189773] (S Linux) ) #1 SMP PREEMPT Wed Oct 2 11:18:32 UTC 2013 (d91a619)
3.4.63-2.44-desktop i686
uwe@linux-k2a8:~> cat /proc/version
Linux version 3.4.63-2.44-desktop (geeko@buildhost) (gcc version 4.7.1 20120723 [gcc-4_7-branch revision 189773] (S Linux) ) #1 SMP PREEMPT Wed Oct 2 11:18:32 UTC 2013 (d91a619)
I would be really thankful for any advise to get rJava (and FSelector) running soon.
FOR YOUR FULL INFORMATION HERE IS THE LOG FILE
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by rJava configure 0.8, which was
generated by GNU Autoconf 2.61. Invocation command line was
$ ./configure
## --------- ##
## Platform. ##
## --------- ##
hostname = linux-k2a8.site
uname -m = i686
uname -r = 3.4.63-2.44-desktop
uname -s = Linux
uname -v = #1 SMP PREEMPT Wed Oct 2 11:18:32 UTC 2013 (d91a619)
/usr/bin/uname -p = i686
/bin/uname -X = unknown
/bin/arch = i686
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /home/uwe/bin
PATH: /usr/local/bin
PATH: /usr/bin
PATH: /bin
PATH: /usr/bin/X11
PATH: /usr/X11R6/bin
PATH: /usr/games
PATH: /opt/kde3/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1616: loading site script /usr/share/site/i686-pc-linux-gnu
| #!/bin/sh
| # Site script for configure. It is resourced via $CONFIG_SITE environment varaible.
|
| # If user did not specify libdir, guess the correct target:
| # Use lib64 for 64 bit bi-arch targets, keep the default for the rest.
| if test "$libdir" = '${exec_prefix}/lib' ; then
|
| ac_config_site_64bit_host=NONE
|
| case "$host" in
| "" )
| # User did not specify host target.
| # The native platform i386 is not a bi-arch platform.
| # There is no need to check for compatible sub-architecture.
| ac_config_site_64bit_host=NONE
|
| ;;
| *x86_64* | *ppc64* | *s390x* )
| ac_config_site_64bit_host=YES
| ;;
| esac
|
| if test "x$ac_config_site_64bit_host" = xYES; then
| libdir='${exec_prefix}/lib64'
| fi
| fi
|
| # If user did not specify libexecdir, set the correct target:
| # Nor FHS nor openSUSE allow prefix/libexec. Let's default to prefix/lib.
|
| if test "$libexecdir" = '${exec_prefix}/libexec' ; then
| libexecdir='${exec_prefix}/lib'
| fi
|
| # Continue with the standard behavior of configure defined in AC_SITE_LOAD:
| if test "x$prefix" != xNONE; then
| ac_site_file1=$prefix/share/config.site
| ac_site_file2=$prefix/etc/config.site
| else
| ac_site_file1=$ac_default_prefix/share/config.site
| ac_site_file2=$ac_default_prefix/etc/config.site
| fi
| for ac_site_file in "$ac_site_file1" "$ac_site_file2"
| do
| test "x$ac_site_file" = xNONE && continue
| if test /dev/null != "$ac_site_file" && test -r "$ac_site_file"; then
| { $as_echo "/usr/share/site/i686-pc-linux-gnu:${as_lineno-$LINENO}: loading site script $ac_site_file" >&5
| $as_echo "/usr/share/site/i686-pc-linux-gnu: loading site script $ac_site_file" >&6;}
| sed 's/^/| /' "$ac_site_file" >&5
| . "$ac_site_file" \
| || { { $as_echo "/usr/share/site/i686-pc-linux-gnu:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
| $as_echo "/usr/share/site/i686-pc-linux-gnu: error: in \`$ac_pwd':" >&2;}
| as_fn_error $? "failed to load site script $ac_site_file
| See \`config.log' for more details" "$LINENO" 5; }
| fi
| done
configure:1847: checking for gcc
configure:1874: result: gcc -std=gnu99
configure:2112: checking for C compiler version
configure:2119: gcc -std=gnu99 --version >&5
gcc (SUSE Linux) 4.7.1 20120723 [gcc-4_7-branch revision 189773]
Copyright (C) 2012 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:2122: $? = 0
configure:2129: gcc -std=gnu99 -v >&5
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/usr/lib/gcc/i586-suse-linux/4.7/lto-wrapper
Target: i586-suse-linux
Configured with: ../configure --prefix=/usr --infodir=/usr/share/info --mandir=/usr/share/man --libdir=/usr/lib --libexecdir=/usr/lib --enable-languages=c,c++,objc,fortran,obj-c++,java,ada --enable-checking=release --with-gxx-include-dir=/usr/include/c++/4.7 --enable-ssp --disable-libssp --disable-libitm --disable-plugin --with-bugurl=http://bugs.opensuse.org/ --with-pkgversion='SUSE Linux' --disable-libgcj --disable-libmudflap --with-slibdir=/lib --with-system-zlib --enable-__cxa_atexit --enable-libstdcxx-allocator=new --disable-libstdcxx-pch --enable-version-specific-runtime-libs --enable-linker-build-id --program-suffix=-4.7 --enable-linux-futex --without-system-libunwind --with-arch-32=i586 --with-tune=generic --build=i586-suse-linux
Thread model: posix
gcc version 4.7.1 20120723 [gcc-4_7-branch revision 189773] (SUSE Linux)
configure:2132: $? = 0
configure:2139: gcc -std=gnu99 -V >&5
gcc: error: unrecognized command line option '-V'
gcc: fatal error: no input files
compilation terminated.
configure:2142: $? = 1
configure:2165: checking for C compiler default output file name
configure:2192: gcc -std=gnu99 -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2195: $? = 0
configure:2233: result: a.out
configure:2250: checking whether the C compiler works
configure:2260: ./a.out
configure:2263: $? = 0
configure:2280: result: yes
configure:2287: checking whether we are cross compiling
configure:2289: result: no
configure:2292: checking for suffix of executables
configure:2299: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2302: $? = 0
configure:2326: result:
configure:2332: checking for suffix of object files
configure:2358: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2361: $? = 0
configure:2384: result: o
configure:2388: checking whether we are using the GNU C compiler
configure:2417: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2423: $? = 0
configure:2440: result: yes
configure:2445: checking whether gcc -std=gnu99 accepts -g
configure:2475: gcc -std=gnu99 -c -g conftest.c >&5
configure:2481: $? = 0
configure:2580: result: yes
configure:2597: checking for gcc -std=gnu99 option to accept ISO C89
configure:2671: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2677: $? = 0
configure:2700: result: none needed
configure:2728: checking how to run the C preprocessor
configure:2768: gcc -std=gnu99 -E conftest.c
configure:2774: $? = 0
configure:2805: gcc -std=gnu99 -E conftest.c
conftest.c:8:28: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:2811: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "rJava"
| #define PACKAGE_TARNAME "rjava"
| #define PACKAGE_VERSION "0.8"
| #define PACKAGE_STRING "rJava 0.8"
| #define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:2844: result: gcc -std=gnu99 -E
configure:2873: gcc -std=gnu99 -E conftest.c
configure:2879: $? = 0
configure:2910: gcc -std=gnu99 -E conftest.c
conftest.c:8:28: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:2916: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "rJava"
| #define PACKAGE_TARNAME "rjava"
| #define PACKAGE_VERSION "0.8"
| #define PACKAGE_STRING "rJava 0.8"
| #define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:2954: checking for grep that handles long lines and -e
configure:3028: result: /usr/bin/grep
configure:3033: checking for egrep
configure:3111: result: /usr/bin/grep -E
configure:3116: checking for ANSI C header files
configure:3146: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3152: $? = 0
configure:3251: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3254: $? = 0
configure:3260: ./conftest
configure:3263: $? = 0
configure:3280: result: yes
configure:3290: checking for sys/wait.h that is POSIX.1 compatible
configure:3326: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3332: $? = 0
configure:3347: result: yes
configure:3371: checking for sys/types.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for sys/stat.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for stdlib.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for string.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for memory.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for strings.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for inttypes.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for stdint.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for unistd.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3433: checking for string.h
configure:3439: result: yes
configure:3443: checking sys/time.h usability
configure:3460: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3466: $? = 0
configure:3480: result: yes
configure:3484: checking sys/time.h presence
configure:3499: gcc -std=gnu99 -E conftest.c
configure:3505: $? = 0
configure:3519: result: yes
configure:3552: checking for sys/time.h
configure:3560: result: yes
configure:3433: checking for unistd.h
configure:3439: result: yes
configure:3575: checking for an ANSI C-conforming const
configure:3650: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
conftest.c: In function 'main':
conftest.c:51:10: warning: 't' is used uninitialized in this function [-Wuninitialized]
conftest.c:73:13: warning: 'cs[0]' is used uninitialized in this function [-Wuninitialized]
configure:3656: $? = 0
configure:3671: result: yes
configure:3681: checking whether time.h and sys/time.h may both be included
configure:3711: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3717: $? = 0
configure:3732: result: yes
configure:3743: checking whether gcc -std=gnu99 supports static inline...
configure:3761: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
conftest.c:3:8: warning: type defaults to 'int' in declaration of 'f' [enabled by default]
configure:3767: $? = 0
configure:3781: result: yes
configure:3792: checking whether setjmp.h is POSIX.1 compatible
configure:3820: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3826: $? = 0
configure:3841: result: yes
configure:3843: checking whether sigsetjmp is declared
configure:3873: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3879: $? = 0
configure:3894: result: yes
configure:3910: checking whether siglongjmp is declared
configure:3940: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3946: $? = 0
configure:3961: result: yes
configure:3993: checking Java support in R
configure:4030: result: present:
interpreter : '/usr/bin/java'
archiver : '/usr/bin/jar'
compiler : '/usr/bin/javac'
header prep.: '/usr/bin/javah'
cpp flags : '-I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux'
java libs : '-L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm'
configure:4090: checking whether JNI programs can be compiled
configure:4108: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables -I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux conftest.c -L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm >&5
conftest.c: In function 'main':
conftest.c:4:13: warning: unused variable 'o' [-Wunused-variable]
configure:4114: $? = 0
configure:4120: result: yes
configure:4142: checking JNI data types
configure:4167: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables -I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux conftest.c -L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm >&5
configure:4170: $? = 0
configure:4176: ./conftest
./conftest: error while loading shared libraries: libjvm.so: cannot open shared object file: No such file or directory
configure:4179: $? = 127
configure: program exited with status 127
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "rJava"
| #define PACKAGE_TARNAME "rjava"
| #define PACKAGE_VERSION "0.8"
| #define PACKAGE_STRING "rJava 0.8"
| #define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
| #define STDC_HEADERS 1
| #define HAVE_SYS_WAIT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_STATIC_INLINE 1
| #define HAVE_DECL_SIGSETJMP 1
| #define HAVE_DECL_SIGLONGJMP 1
| #define HAVE_POSIX_SETJMP 1
| /* end confdefs.h. */
|
| #include <jni.h>
| int main(void) {
| return (sizeof(int)==sizeof(jint) && sizeof(long)==sizeof(long) && sizeof(jbyte)==sizeof(char) && sizeof(jshort)==sizeof(short) && sizeof(jfloat)==sizeof(float) && sizeof(jdouble)==sizeof(double))?0:1;
| }
|
configure:4189: error: One or more JNI types differ from the corresponding native type. You may need to use non-standard compiler flags or a different compiler in order to fix this.
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_c_compiler_gnu=yes
ac_cv_c_const=yes
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_have_decl_siglongjmp=yes
ac_cv_have_decl_sigsetjmp=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_time_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_sys_wait_h=yes
ac_cv_header_time=yes
ac_cv_header_unistd_h=yes
ac_cv_objext=o
ac_cv_path_EGREP='/usr/bin/grep -E'
ac_cv_path_GREP=/usr/bin/grep
ac_cv_prog_CPP='gcc -std=gnu99 -E'
ac_cv_prog_ac_ct_CC='gcc -std=gnu99'
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
r_cv_header_setjmp_posix=yes
## ----------------- ##
## Output variables. ##
## ----------------- ##
CC='gcc -std=gnu99'
CFLAGS='-fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables -I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux'
CPP='gcc -std=gnu99 -E'
CPPFLAGS=''
DEFS=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/usr/bin/grep -E'
EXEEXT=''
GREP='/usr/bin/grep'
JAVA='/usr/bin/java'
JAVAC='/usr/bin/javac'
JAVAH='/usr/bin/javah'
JAVA_CPPFLAGS='-I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux'
JAVA_HOME='/usr/java/default'
JAVA_LIBS='-L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm'
LDFLAGS=''
LIBOBJS=''
LIBS=' -L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm'
LTLIBOBJS=''
OBJEXT='o'
PACKAGE_BUGREPORT='simon.urba...@r-project.org'
PACKAGE_NAME='rJava'
PACKAGE_STRING='rJava 0.8'
PACKAGE_TARNAME='rjava'
PACKAGE_VERSION='0.8'
PATH_SEPARATOR=':'
R_HOME='/usr/lib/R'
SHELL='/bin/sh'
WANT_JRI_FALSE=''
WANT_JRI_TRUE=''
ac_ct_CC='gcc -std=gnu99'
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='NONE'
host_alias=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/lib'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
oldincludedir='/usr/include'
pdfdir='${docdir}'
prefix='NONE'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
subdirs=''
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define PACKAGE_NAME "rJava"
#define PACKAGE_TARNAME "rjava"
#define PACKAGE_VERSION "0.8"
#define PACKAGE_STRING "rJava 0.8"
#define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
#define STDC_HEADERS 1
#define HAVE_SYS_WAIT_H 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_MEMORY_H 1
#define HAVE_STRINGS_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_UNISTD_H 1
#define HAVE_STRING_H 1
#define HAVE_SYS_TIME_H 1
#define HAVE_UNISTD_H 1
#define TIME_WITH_SYS_TIME 1
#define HAVE_STATIC_INLINE 1
#define HAVE_DECL_SIGSETJMP 1
#define HAVE_DECL_SIGLONGJMP 1
#define HAVE_POSIX_SETJMP 1
configure: exit 1
running configure, to aid debugging if configure makes a mistake.
It was created by rJava configure 0.8, which was
generated by GNU Autoconf 2.61. Invocation command line was
$ ./configure
## --------- ##
## Platform. ##
## --------- ##
hostname = linux-k2a8.site
uname -m = i686
uname -r = 3.4.63-2.44-desktop
uname -s = Linux
uname -v = #1 SMP PREEMPT Wed Oct 2 11:18:32 UTC 2013 (d91a619)
/usr/bin/uname -p = i686
/bin/uname -X = unknown
/bin/arch = i686
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /home/uwe/bin
PATH: /usr/local/bin
PATH: /usr/bin
PATH: /bin
PATH: /usr/bin/X11
PATH: /usr/X11R6/bin
PATH: /usr/games
PATH: /opt/kde3/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1616: loading site script /usr/share/site/i686-pc-linux-gnu
| #!/bin/sh
| # Site script for configure. It is resourced via $CONFIG_SITE environment varaible.
|
| # If user did not specify libdir, guess the correct target:
| # Use lib64 for 64 bit bi-arch targets, keep the default for the rest.
| if test "$libdir" = '${exec_prefix}/lib' ; then
|
| ac_config_site_64bit_host=NONE
|
| case "$host" in
| "" )
| # User did not specify host target.
| # The native platform i386 is not a bi-arch platform.
| # There is no need to check for compatible sub-architecture.
| ac_config_site_64bit_host=NONE
|
| ;;
| *x86_64* | *ppc64* | *s390x* )
| ac_config_site_64bit_host=YES
| ;;
| esac
|
| if test "x$ac_config_site_64bit_host" = xYES; then
| libdir='${exec_prefix}/lib64'
| fi
| fi
|
| # If user did not specify libexecdir, set the correct target:
| # Nor FHS nor openSUSE allow prefix/libexec. Let's default to prefix/lib.
|
| if test "$libexecdir" = '${exec_prefix}/libexec' ; then
| libexecdir='${exec_prefix}/lib'
| fi
|
| # Continue with the standard behavior of configure defined in AC_SITE_LOAD:
| if test "x$prefix" != xNONE; then
| ac_site_file1=$prefix/share/config.site
| ac_site_file2=$prefix/etc/config.site
| else
| ac_site_file1=$ac_default_prefix/share/config.site
| ac_site_file2=$ac_default_prefix/etc/config.site
| fi
| for ac_site_file in "$ac_site_file1" "$ac_site_file2"
| do
| test "x$ac_site_file" = xNONE && continue
| if test /dev/null != "$ac_site_file" && test -r "$ac_site_file"; then
| { $as_echo "/usr/share/site/i686-pc-linux-gnu:${as_lineno-$LINENO}: loading site script $ac_site_file" >&5
| $as_echo "/usr/share/site/i686-pc-linux-gnu: loading site script $ac_site_file" >&6;}
| sed 's/^/| /' "$ac_site_file" >&5
| . "$ac_site_file" \
| || { { $as_echo "/usr/share/site/i686-pc-linux-gnu:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
| $as_echo "/usr/share/site/i686-pc-linux-gnu: error: in \`$ac_pwd':" >&2;}
| as_fn_error $? "failed to load site script $ac_site_file
| See \`config.log' for more details" "$LINENO" 5; }
| fi
| done
configure:1847: checking for gcc
configure:1874: result: gcc -std=gnu99
configure:2112: checking for C compiler version
configure:2119: gcc -std=gnu99 --version >&5
gcc (SUSE Linux) 4.7.1 20120723 [gcc-4_7-branch revision 189773]
Copyright (C) 2012 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:2122: $? = 0
configure:2129: gcc -std=gnu99 -v >&5
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/usr/lib/gcc/i586-suse-linux/4.7/lto-wrapper
Target: i586-suse-linux
Configured with: ../configure --prefix=/usr --infodir=/usr/share/info --mandir=/usr/share/man --libdir=/usr/lib --libexecdir=/usr/lib --enable-languages=c,c++,objc,fortran,obj-c++,java,ada --enable-checking=release --with-gxx-include-dir=/usr/include/c++/4.7 --enable-ssp --disable-libssp --disable-libitm --disable-plugin --with-bugurl=http://bugs.opensuse.org/ --with-pkgversion='SUSE Linux' --disable-libgcj --disable-libmudflap --with-slibdir=/lib --with-system-zlib --enable-__cxa_atexit --enable-libstdcxx-allocator=new --disable-libstdcxx-pch --enable-version-specific-runtime-libs --enable-linker-build-id --program-suffix=-4.7 --enable-linux-futex --without-system-libunwind --with-arch-32=i586 --with-tune=generic --build=i586-suse-linux
Thread model: posix
gcc version 4.7.1 20120723 [gcc-4_7-branch revision 189773] (SUSE Linux)
configure:2132: $? = 0
configure:2139: gcc -std=gnu99 -V >&5
gcc: error: unrecognized command line option '-V'
gcc: fatal error: no input files
compilation terminated.
configure:2142: $? = 1
configure:2165: checking for C compiler default output file name
configure:2192: gcc -std=gnu99 -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2195: $? = 0
configure:2233: result: a.out
configure:2250: checking whether the C compiler works
configure:2260: ./a.out
configure:2263: $? = 0
configure:2280: result: yes
configure:2287: checking whether we are cross compiling
configure:2289: result: no
configure:2292: checking for suffix of executables
configure:2299: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2302: $? = 0
configure:2326: result:
configure:2332: checking for suffix of object files
configure:2358: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2361: $? = 0
configure:2384: result: o
configure:2388: checking whether we are using the GNU C compiler
configure:2417: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2423: $? = 0
configure:2440: result: yes
configure:2445: checking whether gcc -std=gnu99 accepts -g
configure:2475: gcc -std=gnu99 -c -g conftest.c >&5
configure:2481: $? = 0
configure:2580: result: yes
configure:2597: checking for gcc -std=gnu99 option to accept ISO C89
configure:2671: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:2677: $? = 0
configure:2700: result: none needed
configure:2728: checking how to run the C preprocessor
configure:2768: gcc -std=gnu99 -E conftest.c
configure:2774: $? = 0
configure:2805: gcc -std=gnu99 -E conftest.c
conftest.c:8:28: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:2811: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "rJava"
| #define PACKAGE_TARNAME "rjava"
| #define PACKAGE_VERSION "0.8"
| #define PACKAGE_STRING "rJava 0.8"
| #define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:2844: result: gcc -std=gnu99 -E
configure:2873: gcc -std=gnu99 -E conftest.c
configure:2879: $? = 0
configure:2910: gcc -std=gnu99 -E conftest.c
conftest.c:8:28: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:2916: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "rJava"
| #define PACKAGE_TARNAME "rjava"
| #define PACKAGE_VERSION "0.8"
| #define PACKAGE_STRING "rJava 0.8"
| #define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:2954: checking for grep that handles long lines and -e
configure:3028: result: /usr/bin/grep
configure:3033: checking for egrep
configure:3111: result: /usr/bin/grep -E
configure:3116: checking for ANSI C header files
configure:3146: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3152: $? = 0
configure:3251: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3254: $? = 0
configure:3260: ./conftest
configure:3263: $? = 0
configure:3280: result: yes
configure:3290: checking for sys/wait.h that is POSIX.1 compatible
configure:3326: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3332: $? = 0
configure:3347: result: yes
configure:3371: checking for sys/types.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for sys/stat.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for stdlib.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for string.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for memory.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for strings.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for inttypes.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for stdint.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3371: checking for unistd.h
configure:3392: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3398: $? = 0
configure:3414: result: yes
configure:3433: checking for string.h
configure:3439: result: yes
configure:3443: checking sys/time.h usability
configure:3460: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3466: $? = 0
configure:3480: result: yes
configure:3484: checking sys/time.h presence
configure:3499: gcc -std=gnu99 -E conftest.c
configure:3505: $? = 0
configure:3519: result: yes
configure:3552: checking for sys/time.h
configure:3560: result: yes
configure:3433: checking for unistd.h
configure:3439: result: yes
configure:3575: checking for an ANSI C-conforming const
configure:3650: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
conftest.c: In function 'main':
conftest.c:51:10: warning: 't' is used uninitialized in this function [-Wuninitialized]
conftest.c:73:13: warning: 'cs[0]' is used uninitialized in this function [-Wuninitialized]
configure:3656: $? = 0
configure:3671: result: yes
configure:3681: checking whether time.h and sys/time.h may both be included
configure:3711: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3717: $? = 0
configure:3732: result: yes
configure:3743: checking whether gcc -std=gnu99 supports static inline...
configure:3761: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
conftest.c:3:8: warning: type defaults to 'int' in declaration of 'f' [enabled by default]
configure:3767: $? = 0
configure:3781: result: yes
configure:3792: checking whether setjmp.h is POSIX.1 compatible
configure:3820: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3826: $? = 0
configure:3841: result: yes
configure:3843: checking whether sigsetjmp is declared
configure:3873: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3879: $? = 0
configure:3894: result: yes
configure:3910: checking whether siglongjmp is declared
configure:3940: gcc -std=gnu99 -c -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables conftest.c >&5
configure:3946: $? = 0
configure:3961: result: yes
configure:3993: checking Java support in R
configure:4030: result: present:
interpreter : '/usr/bin/java'
archiver : '/usr/bin/jar'
compiler : '/usr/bin/javac'
header prep.: '/usr/bin/javah'
cpp flags : '-I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux'
java libs : '-L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm'
configure:4090: checking whether JNI programs can be compiled
configure:4108: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables -I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux conftest.c -L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm >&5
conftest.c: In function 'main':
conftest.c:4:13: warning: unused variable 'o' [-Wunused-variable]
configure:4114: $? = 0
configure:4120: result: yes
configure:4142: checking JNI data types
configure:4167: gcc -std=gnu99 -o conftest -fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables -I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux conftest.c -L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm >&5
configure:4170: $? = 0
configure:4176: ./conftest
./conftest: error while loading shared libraries: libjvm.so: cannot open shared object file: No such file or directory
configure:4179: $? = 127
configure: program exited with status 127
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "rJava"
| #define PACKAGE_TARNAME "rjava"
| #define PACKAGE_VERSION "0.8"
| #define PACKAGE_STRING "rJava 0.8"
| #define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
| #define STDC_HEADERS 1
| #define HAVE_SYS_WAIT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_STATIC_INLINE 1
| #define HAVE_DECL_SIGSETJMP 1
| #define HAVE_DECL_SIGLONGJMP 1
| #define HAVE_POSIX_SETJMP 1
| /* end confdefs.h. */
|
| #include <jni.h>
| int main(void) {
| return (sizeof(int)==sizeof(jint) && sizeof(long)==sizeof(long) && sizeof(jbyte)==sizeof(char) && sizeof(jshort)==sizeof(short) && sizeof(jfloat)==sizeof(float) && sizeof(jdouble)==sizeof(double))?0:1;
| }
|
configure:4189: error: One or more JNI types differ from the corresponding native type. You may need to use non-standard compiler flags or a different compiler in order to fix this.
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_c_compiler_gnu=yes
ac_cv_c_const=yes
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_have_decl_siglongjmp=yes
ac_cv_have_decl_sigsetjmp=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_time_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_sys_wait_h=yes
ac_cv_header_time=yes
ac_cv_header_unistd_h=yes
ac_cv_objext=o
ac_cv_path_EGREP='/usr/bin/grep -E'
ac_cv_path_GREP=/usr/bin/grep
ac_cv_prog_CPP='gcc -std=gnu99 -E'
ac_cv_prog_ac_ct_CC='gcc -std=gnu99'
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
r_cv_header_setjmp_posix=yes
## ----------------- ##
## Output variables. ##
## ----------------- ##
CC='gcc -std=gnu99'
CFLAGS='-fomit-frame-pointer -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables -fasynchronous-unwind-tables -I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux'
CPP='gcc -std=gnu99 -E'
CPPFLAGS=''
DEFS=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/usr/bin/grep -E'
EXEEXT=''
GREP='/usr/bin/grep'
JAVA='/usr/bin/java'
JAVAC='/usr/bin/javac'
JAVAH='/usr/bin/javah'
JAVA_CPPFLAGS='-I/usr/lib/jdk1.7.0_45/jre/../include -I/usr/lib/jdk1.7.0_45/jre/../include/linux'
JAVA_HOME='/usr/java/default'
JAVA_LIBS='-L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm'
LDFLAGS=''
LIBOBJS=''
LIBS=' -L/usr/lib/jdk1.7.0_45/jre/lib/i386/client -ljvm'
LTLIBOBJS=''
OBJEXT='o'
PACKAGE_BUGREPORT='simon.urba...@r-project.org'
PACKAGE_NAME='rJava'
PACKAGE_STRING='rJava 0.8'
PACKAGE_TARNAME='rjava'
PACKAGE_VERSION='0.8'
PATH_SEPARATOR=':'
R_HOME='/usr/lib/R'
SHELL='/bin/sh'
WANT_JRI_FALSE=''
WANT_JRI_TRUE=''
ac_ct_CC='gcc -std=gnu99'
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='NONE'
host_alias=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/lib'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
oldincludedir='/usr/include'
pdfdir='${docdir}'
prefix='NONE'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
subdirs=''
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define PACKAGE_NAME "rJava"
#define PACKAGE_TARNAME "rjava"
#define PACKAGE_VERSION "0.8"
#define PACKAGE_STRING "rJava 0.8"
#define PACKAGE_BUGREPORT "simon.urba...@r-project.org"
#define STDC_HEADERS 1
#define HAVE_SYS_WAIT_H 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_MEMORY_H 1
#define HAVE_STRINGS_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_UNISTD_H 1
#define HAVE_STRING_H 1
#define HAVE_SYS_TIME_H 1
#define HAVE_UNISTD_H 1
#define TIME_WITH_SYS_TIME 1
#define HAVE_STATIC_INLINE 1
#define HAVE_DECL_SIGSETJMP 1
#define HAVE_DECL_SIGLONGJMP 1
#define HAVE_POSIX_SETJMP 1
configure: exit 1
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