To find out, send us the lines that were printed in your console before the errors occured, those following * installing *source* package ‘rgdal’ ...
On 13/01/16 10:48, Subhash Karemore wrote: > Hi, > > I am trying to install R package 'rgdal' on SUSE Linux Enterprise Server. > However it is failing with compilation error. > > Errors: > ---------- > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c OGR_write.cpp -o OGR_write.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [OGR_write.o] Error 127 (ignored) > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c gdal-bindings.cpp -o > gdal-bindings.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [gdal-bindings.o] Error 127 (ignored) > gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/local/include > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector > -funwind-tables -fasynchronous-unwind-tables -c init.c -o init.o > gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/local/include > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector > -funwind-tables -fasynchronous-unwind-tables -c local_stubs.c -o > local_stubs.o > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c ogr_geom.cpp -o ogr_geom.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [ogr_geom.o] Error 127 (ignored) > gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/local/include > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector > -funwind-tables -fasynchronous-unwind-tables -c ogr_polygons.c -o > ogr_polygons.o > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c ogr_proj.cpp -o ogr_proj.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [ogr_proj.o] Error 127 (ignored) > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c ogrdrivers.cpp -o ogrdrivers.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [ogrdrivers.o] Error 127 (ignored) > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c ogrsource.cpp -o ogrsource.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [ogrsource.o] Error 127 (ignored) > I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -I/usr/local/include > -I"/usr/lib64/R/library/sp/include" -c projectit.cpp -o projectit.o > /bin/sh: I/usr/lib64/R/include: No such file or directory > make: [projectit.o] Error 127 (ignored) > -shared -L/usr/lib64/R/lib -L/usr/local/lib64 -o rgdal.so OGR_write.o > gdal-bindings.o init.o local_stubs.o ogr_geom.o ogr_polygons.o ogr_proj.o > ogrdrivers.o ogrsource.o projectit.o -L/usr/local/lib -lgdal -lproj > -L/usr/lib64/R/lib -lR > /bin/sh: line 2: -shared: command not found > make: *** [rgdal.so] Error 127 > ERROR: compilation failed for package 'rgdal' > * removing '/usr/lib64/R/library/rgdal' > > The downloaded source packages are in > '/tmp/Rtmpd0WifB/downloaded_packages' > Updating HTML index of packages in '.Library' > Making 'packages.html' ... done > Warning message: > In install.packages("rgdal", repos = "http://cran.r-project.org") : > installation of package 'rgdal' had non-zero exit status > > However it got installed successfully on openSUSE. Here is the output: > --------------------------------------------------------------------------------------- > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > OGR_write.cpp -o OGR_write.o > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > gdal-bindings.cpp -o gdal-bindings.o > gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c init.c > -o init.o > gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > local_stubs.c -o local_stubs.o > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > ogr_geom.cpp -o ogr_geom.o > gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > ogr_polygons.c -o ogr_polygons.o > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > ogr_proj.cpp -o ogr_proj.o > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > ogrdrivers.cpp -o ogrdrivers.o > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > ogrsource.cpp -o ogrsource.o > g++ -std=c++11 -I/usr/lib64/R/include -DNDEBUG -I/usr/include/gdal > -I/usr/local/include -I"/usr/lib64/R/library/sp/include" -fpic > -fmessage-length=0 -grecord-gcc-switches -O2 -Wall -D_FORTIFY_SOURCE=2 > -fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -c > projectit.cpp -o projectit.o > g++ -std=c++11 -shared -L/usr/lib64/R/lib -L/usr/local/lib64 -o rgdal.so > OGR_write.o gdal-bindings.o init.o local_stubs.o ogr_geom.o ogr_polygons.o > ogr_proj.o ogrdrivers.o ogrsource.o projectit.o -L/usr/lib64 -lgdal -lproj > -L/usr/lib64/R/lib -lR > installing to /usr/lib64/R/library/rgdal/libs > ** R > ** data > ** inst > ** preparing package for lazy loading > ** help > *** installing help indices > ** building package indices > ** installing vignettes > ** testing if installed package can be loaded > * DONE (rgdal) > > The command I used for installing the package is "install.package('rgdal', > repos='http://cran.r-project.org')". I don't know why R package installation > is failing on SLES. Even other R packages are getting installed successfully > on SLES. It seems that it is not picking gcc compiler on SLES. Could you > please let me know, why installation of R package 'rgdal' is failing on SLES? > Do I need set anything? > > Thanks > Subhash > > _______________________________________________ > R-sig-Geo mailing list > R-sig-Geo@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-geo > -- Edzer Pebesma Institute for Geoinformatics (ifgi), University of Münster Heisenbergstraße 2, 48149 Münster, Germany; +49 251 83 33081 Journal of Statistical Software: http://www.jstatsoft.org/ Computers & Geosciences: http://elsevier.com/locate/cageo/ Spatial Statistics Society http://www.spatialstatistics.info
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