Dear R experts, I'm trying to install rgdal in my R 2.11.1 (Ubuntu 10.10). I have as an ouput the following messages. It seems that there are problems with libgdal1.7.0 or sqlite3... Could someboby help me? Thanks a lot! Ale
> install.packages() Warning in install.packages() : argument 'lib' is missing: using '/home/ale/R/i686-pc-linux-gnu-library/2. 11' trying URL 'http://rm.mirror.garr.it/mirrors/CRAN/src/contrib/RSQLite_0.9-4. tar.gz' Content type 'application/x-gzip' length 1298948 bytes (1.2 Mb) opened URL ================================================== downloaded 1.2 Mb * installing *source* package ‘RSQLite’ ... checking for gcc... gcc -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 -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -std=gnu99 -E checking for gcc... (cached) gcc -std=gnu99 checking whether we are using the GNU C compiler... (cached) yes checking whether gcc -std=gnu99 accepts -g... (cached) yes checking for gcc -std=gnu99 option to accept ISO C89... (cached) none needed checking for library containing fdatasync... none required configure: creating ./config.status config.status: creating src/Makevars ** libs gcc -std=gnu99 -I/usr/share/R/include -DRSQLITE_USE_BUNDLED_SQLITE - DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS - DSQLITE_SOUNDEX -DTHREADSAFE=0 -fpic -g -O2 -c RS-DBI.c -o RS-DBI.o gcc -std=gnu99 -I/usr/share/R/include -DRSQLITE_USE_BUNDLED_SQLITE - DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS - DSQLITE_SOUNDEX -DTHREADSAFE=0 -fpic -g -O2 -c RS-SQLite.c -o RS-SQLite.o gcc -std=gnu99 -I/usr/share/R/include -DRSQLITE_USE_BUNDLED_SQLITE - DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS - DSQLITE_SOUNDEX -DTHREADSAFE=0 -fpic -g -O2 -c param_binding.c -o param_binding.o gcc -std=gnu99 -I/usr/share/R/include -DRSQLITE_USE_BUNDLED_SQLITE - DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS - DSQLITE_SOUNDEX -DTHREADSAFE=0 -fpic -g -O2 -c sqlite-all.c -o sqlite-all. o sqlite-all.c:1: warning: extra tokens at end of #ifdef directive mkdir -p ../inst/include cp sqlite/sqlite3.h ../inst/include cp sqlite/sqlite3ext.h ../inst/include gcc -std=gnu99 -shared -o RSQLite.so RS-DBI.o RS-SQLite.o param_binding.o sqlite-all.o -L/usr/lib/R/lib -lR installing to /home/ale/R/i686-pc-linux-gnu-library/2.11/RSQLite/libs ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ... ** testing if installed package can be loaded * DONE (RSQLite) The downloaded packages are in ‘/tmp/RtmprTwixW/downloaded_packages’ > install.packages() Warning in install.packages() : argument 'lib' is missing: using '/home/ale/R/i686-pc-linux-gnu-library/2. 11' trying URL 'http://rm.mirror.garr.it/mirrors/CRAN/src/contrib/rgdal_0.6-33.tar. gz' Content type 'application/x-gzip' length 1422992 bytes (1.4 Mb) opened URL ================================================== downloaded 1.4 Mb * installing *source* package ‘rgdal’ ... gdal-config: gdal-config checking for gcc... gcc -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 -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ANSI C... none needed checking how to run the C preprocessor... gcc -std=gnu99 -E checking for egrep... grep -E checking for ANSI C header files... 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 proj_api.h usability... yes checking proj_api.h presence... yes checking for proj_api.h... yes checking for pj_init_plus in -lproj... yes /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_int' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_double' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_exec' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_text' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_double' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_blob' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_step' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_get_table' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_open' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_free_table' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_reset' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_bytes' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_blob' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_last_insert_rowid' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_name' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_prepare' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_int' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_finalize' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_text' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_count' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_close' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_decltype' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_type' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_errmsg' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_free' collect2: ld returned 1 exit status ./configure: line 3065: ./proj_conf_test: No such file or directory /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_int' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_double' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_exec' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_text' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_double' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_blob' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_step' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_get_table' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_open' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_free_table' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_reset' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_bytes' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_blob' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_last_insert_rowid' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_name' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_prepare' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_int' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_finalize' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_bind_text' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_count' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_close' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_decltype' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_column_type' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_errmsg' /usr/lib/libgdal1.7.0.so: undefined reference to `sqlite3_free' collect2: ld returned 1 exit status ./configure: line 3099: ./proj_conf_test: No such file or directory Package CPP flags: -I/usr/include/gdal Package LIBS: -L/usr/lib -lgdal1.7.0 configure: creating ./config.status config.status: creating src/Makevars ** libs g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c OGR_write.cpp -o OGR_write.o g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c gdal-bindings.cpp -o gdal- bindings.o gcc -std=gnu99 -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686- pc-linux-gnu-library/2.11/sp/include" -fpic -g -O2 -c local_stubs.c -o local_stubs.o g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c ogr_geom.cpp -o ogr_geom.o gcc -std=gnu99 -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686- pc-linux-gnu-library/2.11/sp/include" -fpic -g -O2 -c ogr_polygons.c -o ogr_polygons.o g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c ogr_proj.cpp -o ogr_proj.o g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c ogrdrivers.cpp -o ogrdrivers.o g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c ogrsource.cpp -o ogrsource.o g++ -I/usr/share/R/include -I/usr/include/gdal -I"/home/ale/R/i686-pc-linux- gnu-library/2.11/sp/include" -fpic -g -O2 -c projectit.cpp -o projectit.o g++ -shared -o rgdal.so OGR_write.o gdal-bindings.o local_stubs.o ogr_geom.o ogr_polygons.o ogr_proj.o ogrdrivers.o ogrsource.o projectit.o -L/usr/lib - lgdal1.7.0 -lproj -L/usr/lib/R/lib -lR installing to /home/ale/R/i686-pc-linux-gnu-library/2.11/rgdal/libs ** R ** inst ** 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 '/home/ale/R/i686-pc-linux-gnu-library/2. 11/rgdal/libs/rgdal.so': /usr/lib/libgdal1.7.0.so.1: undefined symbol: sqlite3_bind_int ERROR: loading failed * removing ‘/home/ale/R/i686-pc-linux-gnu-library/2.11/rgdal’ The downloaded packages are in ‘/tmp/RtmprTwixW/downloaded_packages’ Warning message: In install.packages() : installation of package 'rgdal' had non-zero exit status ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.