build.log

build.log (text/plain), 10.19 KB, created by Ilyas LANDIKOV on 2010-01-15 19:08:18 UTC

 [32;01m*[0m Using: sun-jdk-1.6
>>> Unpacking source...
>>> Unpacking hdf-java-2.5-src.tar to /var/tmp/portage/dev-java/hdf-java-2.5/work
>>> Source unpacked in /var/tmp/portage/dev-java/hdf-java-2.5/work
>>> Preparing source in /var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java ...
 * econf: updating hdf-java/Config/config.guess with /usr/share/gnuconfig/config.guess
 * econf: updating hdf-java/Config/config.sub with /usr/share/gnuconfig/config.sub
./configure --prefix=/usr --build=x86_64-pc-linux-gnu --host=x86_64-pc-linux-gnu --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --libdir=/usr/lib64 --with-libz=/usr/include,/usr/lib64 --with-libjpeg=/usr/include,/usr/lib64 --with-hdf5=/usr/include,/usr/lib64 --with-jdk=/opt/sun-jdk-1.6.0.17/include,/opt/sun-jdk-1.6.0.17/jre/lib
checking if tr works... yes
checking for gawk... gawk
checking if expr works... yes
checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc
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 x86_64-pc-linux-gnu-gcc accepts -g... yes
checking for x86_64-pc-linux-gnu-gcc option to accept ANSI C... none needed
checking whether make sets $(MAKE)... yes
checking for a BSD-compatible install... /usr/bin/install -c
checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for ceil in -lm... yes
checking for rm... /bin/rm
checking for find... /usr/bin/find
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking target system type... x86_64-pc-linux-gnu
FYI the target here is: x86_64-pc-linux-gnu
checking gzip compression... yes
zlib found: /usr/lib64/libz.a
checking jpeg compression... yes
jpeg found: /usr/lib64/libjpeg.a
checking szip compression... no
checking HDF4 library... no
checking HDF5 library... yes
HDF5 found: /usr/lib64
checking dependencies for HDF5 library... OK
checking HDF4to5 library... no
checking jni.h usability... yes
checking jni.h presence... yes
checking for jni.h... yes
checking for java... /opt/sun-jdk-1.6.0.17/bin/java
checking for javac... /opt/sun-jdk-1.6.0.17/bin/javac
checking for javadoc... /opt/sun-jdk-1.6.0.17/bin/javadoc
checking for jar... /opt/sun-jdk-1.6.0.17/bin/jar
configure: creating ./config.status
config.status: creating Makefile
config.status: creating native/Makefile
config.status: creating native/hdflib/Makefile
config.status: creating native/hdf5lib/Makefile
config.status: creating bin/hdfview.sh
config.status: creating test/linktest/Makefile
config.status: creating test/linktest/testlink
config.status: creating test/linktest/testh4link
config.status: creating test/Makefile
config.status: creating test/object/Makefile
config.status: creating test/object/testh4file.sh
config.status: creating test/object/testh5file.sh
config.status: creating test/object/runtests.sh
config.status: creating test/h5/TestHDF5.sh
config.status: creating test/object/TestH5Object.sh
config.status: creating test/object/TestH5Table.sh
config.status: creating test/object/TestH5MemoryLeak.sh
config.status: creating test/unittests/Makefile
config.status: creating test/unittests/unittests.sh
config.status: creating examples/Makefile
config.status: creating examples/intro/Makefile
config.status: creating examples/datasets/Makefile
config.status: creating examples/datatypes/Makefile
config.status: creating examples/groups/Makefile
config.status: creating examples/runExample.sh
>>> Source configured.
>>> Compiling source in /var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java ...
make -j4 
cd native; \
	make 
/opt/sun-jdk-1.6.0.17/bin/javac -classpath /opt/sun-jdk-1.6.0.17/jre/lib/rt.jar:/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java:lib/fits.jar:lib/netcdf.jar ncsa/hdf/hdf5lib/exceptions/HDF5AtomException.java
/opt/sun-jdk-1.6.0.17/bin/javac -classpath /opt/sun-jdk-1.6.0.17/jre/lib/rt.jar:/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java:lib/fits.jar:lib/netcdf.jar ncsa/hdf/hdf5lib/exceptions/HDF5AttributeException.java
/opt/sun-jdk-1.6.0.17/bin/javac -classpath /opt/sun-jdk-1.6.0.17/jre/lib/rt.jar:/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java:lib/fits.jar:lib/netcdf.jar ncsa/hdf/hdf5lib/exceptions/HDF5BtreeException.java
make[1]: Entering directory `/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java/native'
make[2]: Entering directory `/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java/native'
cd hdf5lib; \
	make ; 
make[3]: Entering directory `/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java/native/hdf5lib'
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o exceptionImp.o exceptionImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5Constants.o h5Constants.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5Imp.o h5Imp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5aImp.o h5aImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5dImp.o h5dImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5fImp.o h5fImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5gImp.o h5gImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5iImp.o h5iImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5pImp.o h5pImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5rImp.o h5rImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5sImp.o h5sImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5tImp.o h5tImp.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o nativeData.o nativeData.c
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5util.o h5util.c
h5util.c: In function 'h5str_sprintf':
h5util.c:171: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
h5util.c:176: warning: format '%u' expects type 'unsigned int', but argument 3 has type 'long unsigned int'
h5util.c:181: warning: format '%u' expects type 'unsigned int', but argument 3 has type 'long unsigned int'
x86_64-pc-linux-gnu-gcc -shared -Dx86_64 -fPIC -DH5_USE_16_API -D_FILE_OFFSET_BITS=64  -I. -I/usr/include -I/opt/sun-jdk-1.6.0.17/include -I/opt/sun-jdk-1.6.0.17/include/linux   -c -o h5zImp.o h5zImp.c
mkdir -p ../../lib/linux;
x86_64-pc-linux-gnu-gcc -shared -o ../../lib/linux/libjhdf5.so  exceptionImp.o h5Constants.o h5Imp.o h5aImp.o h5dImp.o h5fImp.o h5gImp.o h5iImp.o h5pImp.o h5rImp.o h5sImp.o h5tImp.o nativeData.o h5util.o h5zImp.o /usr/lib64/libhdf5.a /usr/lib64/libz.a  -lm
/usr/lib/gcc/x86_64-pc-linux-gnu/4.3.4/../../../../x86_64-pc-linux-gnu/bin/ld: /usr/lib64/libhdf5.a(H5.o): relocation R_X86_64_32 against `a local symbol' can not be used when making a shared object; recompile with -fPIC
/usr/lib64/libhdf5.a: could not read symbols: Bad value
collect2: ld returned 1 exit status
make[3]: *** [libjhdf5] Error 1
make[3]: Leaving directory `/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java/native/hdf5lib'
make[2]: *** [do-hdf5lib] Error 2
make[2]: Leaving directory `/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java/native'
make[1]: *** [hdf5lib] Error 2
make[1]: Leaving directory `/var/tmp/portage/dev-java/hdf-java-2.5/work/hdf-java/native'
make: *** [natives] Error 2
make: *** Waiting for unfinished jobs....
 [31;01m*[0m 
 [31;01m*[0m ERROR: dev-java/hdf-java-2.5 failed.
 [31;01m*[0m Call stack:
 [31;01m*[0m               ebuild.sh, line   49:  Called src_compile
 [31;01m*[0m             environment, line 4108:  Called die
 [31;01m*[0m The specific snippet of code:
 [31;01m*[0m       emake || die
 [31;01m*[0m  The die message:
 [31;01m*[0m   (no error message)
 [31;01m*[0m 
 [31;01m*[0m If you need support, post the topmost build error, and the call stack if relevant.
 [31;01m*[0m A complete build log is located at '/var/tmp/portage/dev-java/hdf-java-2.5/temp/build.log'.
 [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/dev-java/hdf-java-2.5/temp/environment'.
 [31;01m*[0m This ebuild is from an overlay: '/usr/local/portage/'
 [31;01m*[0m 
!!! When you file a bug report, please include the following information:
GENTOO_VM=sun-jdk-1.6  CLASSPATH="" JAVA_HOME="/opt/sun-jdk-1.6.0.17"
JAVACFLAGS="-source 1.5 -target 1.5" COMPILER=""
and of course, the output of emerge --info