[R] Question about Installing SJava package

[Taemyong Choi]

Dear all,

I have an error message installing SJava package.
So I searched web site(google) and R-mailing list to find a similar error message.
But I couldn't find it.

I installed R-2.1.1 like this on Fedora Core4

1) /configure --enable-R-shlib --with-libpng --with-jpeglib
2) make -> make check -> make install

and then issuing on shell prompt (red lines are error messages)

R CMD INSTALL -c /usr/local/src/R/SJava_0.68-0.tar.gz

* Installing *source* package 'SJava' ...
checking for java... /usr/java/jdk1.5.0_04//bin/java
Java VM /usr/java/jdk1.5.0_04//bin/java
checking for javah... /usr/java/jdk1.5.0_04//bin/javah
Looking in /usr/java/jdk1.5.0_04/include
Looking in /usr/java/jdk1.5.0_04/include/linux
checking for g++... g++
checking for C++ compiler default output... 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 g++ accepts -g... yes
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking for Rf_initEmbeddedR in -lR... no
No R shared library found
configure: creating ./config.status
config.status: creating Makevars
config.status: creating src/Makevars
config.status: creating src/RSJava/Makefile
config.status: creating Makefile_rules
config.status: creating inst/scripts/RJava.bsh
config.status: creating inst/scripts/RJava.csh
config.status: creating R/zzz.R
config.status: creating cleanup
config.status: creating inst/scripts/RJava
Copying the cleanup script to the scripts/ directory
Building libRSNativeJava.so in /tmp/R.INSTALL.tf2988/SJava/src/RSJava
if test ! -d /usr/local/lib/R/library/SJava/libs ; then \
mkdir /usr/local/lib/R/library/SJava/libs ; \
fi
gcc -g -O2 -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-c CtoJava.c
CtoJava.cweb:215: error: static declaration of 'std_env' follows
non-static declaration
CtoJava.cweb:195: error: previous declaration of 'std_env' was here
make: *** [CtoJava.o] Error 1
Generating JNI header files from Java classes.
RForeignReference, RManualFunctionActionListener, ROmegahatInterpreter &
REvaluator
*************
Warning:
At present, to use the library you must set the
LD_LIBRARY_PATH environment variable
to
/usr/local/lib/R/library/SJava/libs:/usr/java/jdk1.5.0_04/jre/lib/i386/client:/usr/java/jdk1.5.0_04/jre/lib/i386:/usr/java/jdk1.5.0_04/jre/../lib/i386:
or use one of the RJava.bsh or RJava.csh scripts
*************
** libs
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c ConverterExamples.c -o
ConverterExamples.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c Converters.c -o Converters.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c REmbed.c -o REmbed.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c REmbedWin.c -o REmbedWin.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c REval.c -o REval.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c RFunctionListener.c -o
RFunctionListener.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c RReferenceCall.c -o RReferenceCall.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c RStoJava.c -o RStoJava.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c Reflectance.c -o Reflectance.o
gcc -I/usr/local/lib/R/include -D_R_ -I/usr/local/lib/R/include
-I/usr/local/lib/R/include/R_ext
-I/tmp/R.INSTALL.tf2988/SJava/src/RSJava -I.
-I/tmp/R.INSTALL.tf2988/SJava/inst/include -IRSJava
-I/usr/java/jdk1.5.0_04//include -I/usr/java/jdk1.5.0_04//include/linux
-I/usr/local/include -fPIC -g -O2 -c RtoJava.c -o RtoJava.o
gcc -shared -L/usr/local/lib -o SJava.so ConverterExamples.o
Converters.o REmbed.o REmbedWin.o REval.o RFunctionListener.o
RReferenceCall.o RStoJava.o Reflectance.o RtoJava.o
-L/tmp/R.INSTALL.tf2988/SJava/inst/libs
-L/usr/java/jdk1.5.0_04/jre/lib/i386/client
-L/usr/java/jdk1.5.0_04/jre/lib/i386
-L/usr/java/jdk1.5.0_04/jre/../lib/i386
-L/usr/local/lib/R/library/SJava/libs -lRSNativeJava -ljvm
-L/usr/local/lib/R/lib -lR
/usr/bin/ld: cannot find -lRSNativeJava
collect2: ld returned 1 exit status
make: *** [SJava.so] Error 1
ERROR: compilation failed for package 'SJava'
** Removing '/usr/local/lib/R/library/SJava'
** Restoring previous '/usr/local/lib/R/library/SJava'

I wonder what's wrong.

Thanks in advance,
taemyong choi.

---------------------------------------------------------------------
Taemyong Choi, tmhoi at ris.chonnam.ac.kr
MA.D. Candidate
Department of statistics, Tel: +82-62-530-0442
Chonnam National University, Fax: +82-62-530-3449
300, Yongbong-dong, Buk-gu,Gwangju, 500-757, KOREA