search for: lnetcdf

...ed and MD5 sums checked checking for nc-config... yes Using nc-config: nc-config Output of nc-config --all: This netCDF 4.2.1.1 has been built with the following features: --cc -> gcc --cflags -> -I/usr/local/include -I/usr/local/include --libs -> -L/usr/local/lib -lnetcdf --has-c++ -> no --cxx -> --has-c++4 -> no --cxx4 -> --fc -> --fflags -> --flibs -> --has-f90 -> no --has-dap -> no --has-nc2 -> yes --has-nc4 -> yes --has-hdf5 -> yes --has-hdf4 -> no --...

...TCDF_PATH' successfully to my custom places and then % R CMD INSTALL RNetCDF_1.1-3.tar.gz and got this: ... checking for executable suffix... checking for object suffix... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for main in -lnetcdf... yes checking for main in -ludunits... yes checking for /Users/zpzhang/research/library/include/netcdf.h... yes checking for /Users/zpzhang/research/library/include/udunits.h... yes configure: creating ./config.status config.status: creating R/load.R config.status: creating src/Makevars ** libs g...

...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 -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ISO C89... none needed checking for nc_open in -lnetcdf... yes checking for utInit in -ludunits2... no checking for utScan in -ludunits2... yes checking how to run the C preprocessor... gcc -std=gnu99 -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... no checking for sy...

...ource* package ?ncdf4? ... checking for nc-config... yes Using nc-config: nc-config Output of nc-config --all: This netCDF 4.2.1.1 has been built with the following features: --cc -> gcc --cflags -> -I/usr/local/include -I/usr/local/include --libs -> -L/usr/local/lib -lnetcdf --has-c++ -> no --cxx -> --has-c++4 -> no --cxx4 -> --fc -> --fflags -> --flibs -> --has-f90 -> no --has-dap -> yes --has-nc2 -> yes --has-nc4 -> yes --has-hdf5 -> yes --has-hdf4 -> no --has-pnetcdf-&...

...-o ncdf.o ncdf.c: In function 'R_nc_ttc_to_nctype': ncdf.c:424: warning: implicit declaration of function 'exit' ncdf.c:424: warning: incompatible implicit declaration of built-in function 'exit' gcc -std=gnu99 -shared -L/usr/local/lib64 -o ncdf.so ncdf2.o ncdf3.o ncdf.o-L. -lnetcdf /usr/bin/ld: /usr/local/lib/libnetcdf.a(attr.o): relocation R_X86_64_32 against `a local symbol' can not be used when making a shared object; recompile with -fPIC /usr/local/lib/libnetcdf.a: could not read symbols: Bad value collect2: ld returned 1 exit status make: *** [ncdf.so] Error 1 chmod:...

...... 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 netcdf.h usability... yes checking netcdf.h presence... yes checking for netcdf.h... yes Found netcdf.h in: . checking for nc_open in -lnetcdf... yes Found netcdf library file libnetcdf.a in directory . configure: creating ./config.status config.status: creating R/load.R config.status: creating src/Makevars ** libs gcc -m64 -std=gnu99 -I/usr/include/R -I. -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptio...

...ce* package ?ncdf4? ... checking for nc-config... yes Using nc-config: nc-config Output of nc-config --all: This netCDF 4.2.1.1 has been built with the following features: --cc -> gcc --cflags -> -I/usr/local/include -I/usr/local/include --libs -> -L/usr/local/lib -lnetcdf --has-c++ -> no --cxx -> --has-c++4 -> no --cxx4 -> --fc -> --fflags -> --flibs -> --has-f90 -> no --has-dap -> yes --has-nc2 -> yes --has-nc4 -> yes --has-hdf5 -> yes --has-hdf4 -> no -...

...... 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 netcdf.h usability... yes checking netcdf.h presence... yes checking for netcdf.h... yes Found netcdf.h in: . checking for nc_open in -lnetcdf... yes Found netcdf library file libnetcdf.a in directory . configure: creating ./config.status config.status: creating R/load.R config.status: creating src/Makevars ** libs gcc -std=gnu99 -I/usr/lib64/R/include -I/usr/lib64/R/include -I. -I/usr/local/include -fpic -g -O2 -c ncdf2.c -o ncdf2.o gcc...

...r default output... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for executable suffix... checking for object suffix... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for main in -lnetcdf... no configure: error: netcdf library not found ERROR: configuration failed for package 'RNetCDF' ** Removing '/usr/lib/R/library/RNetCDF' I have no reason to doubt that the Fedora-Extras authors are right, and that some changes in the configure scripts for these packages are req...

.../R -I/usr/local/include -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c ncdf3.c -o ncdf3.o gcc -m64 -std=gnu99 -shared -L/usr/local/lib64 -o ncdf.so ncdf.o ncdf2.o ncdf3.o -L/usr/local/lib -lnetcdf -L/usr/lib64/R/lib -lR /usr/bin/ld: /usr/local/lib/libnetcdf.a(attr.o): relocation R_X86_64_32 against `.rodata' can not be used when making a shared object; recompile with -fPIC /usr/local/lib/libnetcdf.a: could not read symbols: Bad value collect2: ld returned 1 exit status make: *** [ncdf....

...r default output... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for executable suffix... checking for object suffix... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for main in -lnetcdf... no configure: error: netcdf library not found ERROR: configuration failed for package 'RNetCDF' ** Removing '/usr/lib/R/library/RNetCDF' I have no reason to doubt that the Fedora-Extras authors are right, and that some changes in the configure scripts for these packages are req...

...arvarid’: ncdf3.c:221: warning: assignment discards qualifiers from pointer target type ncdf3.c: In function ‘R_nc_get_vara_numvarid’: ncdf3.c:267: warning: assignment discards qualifiers from pointer target type gcc -std=gnu99 -shared -o ncdf.so ncdf.o ncdf2.o ncdf3.o -L/apps/netcdf/4.0.1/gcc/lib -lnetcdf -L/usr/lib64/R/lib -lR /usr/bin/ld: /apps/netcdf/4.0.1/gcc/lib/libnetcdf.a(attr.o): relocation R_X86_64_32 against `.rodata' can not be used when making a shared object; recompile with -fPIC /apps/netcdf/4.0.1/gcc/lib/libnetcdf.a: could not read symbols: Bad value collect2: ld returned 1 exit s...

...r.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o ./RcppExports.o rampR.o R_init_mzR.o -lpthread -lnetcdf -L/usr/lib64/R/lib -lR g++: error: cramp.o: No such file or directory g++: error: ramp_base64.o: No such file or directory g++: error: ramp.o: No such file or directory g++: error: RcppRamp.o: No such file or directory g++: error: RcppRampModule.o: No such file or directory g++: error: rnetCDF.o:...

...configure, as ./configure --with-netCDF=/usr/local/netcdf-3.5.0 To configure the path, but keep getting the following error. climate at netCDF : > R CMD INSTALL /home/climate/murphyb/netCDF * Installing *source* package 'netCDF' ... loading cache ./config.cache checking for ncopen in -lnetcdf... no configure: error: libnetcdf not found ERROR: configuration failed for package 'netCDF' I know it is a path problem but can not find the file to modify to get the correct path. Know doubt this happened before but could somebody tell me what to modify to correct this problems. Thanks...

...'R_nc_ttc_to_nctype': ncdf.c:424: warning: implicit declaration of function 'exit' ncdf.c:424: warning: incompatible implicit declaration of built-in function 'exit' gcc -std=gnu99 -shared -L/usr/local/lib64 -o ncdf.so ncdf2.o ncdf3.o ncdf.o -L/usr/local/netcdf-3.6.1/lib -lnetcdf /usr/bin/ld: /usr/local/netcdf-3.6.1/lib/libnetcdf.a(attr.o): relocation R_X86_64_32 against `a local symbol' can not be used when making a shared object; recompile with -fPIC /usr/local/netcdf-3.6.1/lib/libnetcdf.a: could not read symbols: Bad value collect2: ld returned 1 exit status make:...

...ty/misc/TabReader.o >> ./pwiz/utility/misc/random_access_compressed_ifstream.o >> ./pwiz/utility/misc/SHA1.o >> ./pwiz/utility/misc/SHA1Calculator.o >> ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o >> ./RcppExports.o >> rampR.o R_init_mzR.o -lpthread -lnetcdf >> -L/usr/lib64/R/lib -lR >> g++: error: cramp.o: No such file or directory >> g++: error: ramp_base64.o: No such file or directory >> g++: error: ramp.o: No such file or directory >> g++: error: RcppRamp.o: No such file or directory >> g++: error: RcppRampModul...

...r/local/include -fpic -g -O2 -c ncdf2.c -o ncdf2.o gcc -std=gnu99 -I/home/challar/R/R-2.11.1/include -I/home/challar/netcdf/include -I/usr/local/include -fpic -g -O2 -c ncdf3.c -o ncdf3.o gcc -std=gnu99 -shared -L/usr/local/lib64 -o ncdf.so ncdf.o ncdf2.o ncdf3.o -L/home/challar/netcdf/lib -lnetcdf installing to /home/challar/R/R-2.11.1/library/ncdf/libs ** R ** preparing package for lazy loading ** help *** installing help indices ** building package indices ... ** testing if installed package can be loaded Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared library ...

.../misc/Filesystem.o > ./pwiz/utility/misc/TabReader.o > ./pwiz/utility/misc/random_access_compressed_ifstream.o > ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o > ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o ./RcppExports.o > rampR.o R_init_mzR.o -lpthread -lnetcdf -L/usr/lib64/R/lib -lR > g++: error: cramp.o: No such file or directory > g++: error: ramp_base64.o: No such file or directory > g++: error: ramp.o: No such file or directory > g++: error: RcppRamp.o: No such file or directory > g++: error: RcppRampModule.o: No such file or directory...

...-o > strpos.o > /opt/SUNWspro/bin/cc -G -o Snackbar.so ddirectread.o ddirectwrite.o > dflatread.o dflatwrite.o directread.o directwrite.o flatread.o flatwrite.o > idirectread.o idirectwrite.o iflatread.o iflatwrite.o inpoly.o ncgetvar.o > strpos.o -L/usr/local/lib -L/opt/local/lib -lnetcdf -R/opt/SUNWspro/lib > -L/opt/SUNWspro/lib -L/opt/SUNWspro/WS6U1/lib -L/usr/ccs/lib -L/usr/lib -lfui > -lfai -lfai2 -lfsumai -lfprodai -lfminlai -lfmaxlai -lfminvai -lfmaxvai -lfsu > -lsunmath -lm > R > help > >>> Building/Updating help pages for package `Snackbar'...

I was trying to install software named ncview on a centos 5.3 box. ./configure command gave this error: Error, the X libraries and development headers must be installed for ncview to work! I was surprised that there were many google hits related to ubuntu, none for centos. So even though I eventually figured out what to do, I decided to share this with the list anyhow, so maybe next time I