Hello, Working on an ubuntu 13.04 with a sessionInfo() specified below, I try to update my packages, and RSQLite update consistently fails like this:
> update.packages(checkBuilt=TRUE, ask=FALSE) Warning: package 'RUnit' in library '/usr/lib/R/site-library' will not be updated trying URL 'http://cran.rstudio.com/src/contrib/RSQLite_0.11.4.tar.gz' Content type 'application/x-gzip' length 1599919 bytes (1.5 Mb) opened URL ================================================== downloaded 1.5 Mb * installing *source* package RSQLite ... ** package RSQLite successfully unpacked and MD5 sums checked 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 -DNDEBUG -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_SOUNDEX -DSQLITE_MAX_VARIABLE_NUMBER=40000 -DSQLITE_MAX_COLUMN=30000 -DTHREADSAFE=0 -fpic -O3 -pipe -g -c RS-DBI.c -o RS-DBI.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_SOUNDEX -DSQLITE_MAX_VARIABLE_NUMBER=40000 -DSQLITE_MAX_COLUMN=30000 -DTHREADSAFE=0 -fpic -O3 -pipe -g -c RS-SQLite.c -o RS-SQLite.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_SOUNDEX -DSQLITE_MAX_VARIABLE_NUMBER=40000 -DSQLITE_MAX_COLUMN=30000 -DTHREADSAFE=0 -fpic -O3 -pipe -g -c param_binding.c -o param_binding.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_SOUNDEX -DSQLITE_MAX_VARIABLE_NUMBER=40000 -DSQLITE_MAX_COLUMN=30000 -DTHREADSAFE=0 -fpic -O3 -pipe -g -c sqlite-all.c -o sqlite-all.o sqlite-all.c:1:35: warning: extra tokens at end of #ifdef directive [enabled by default] gcc: internal compiler error: Killed (program cc1) Please submit a full bug report, with preprocessed source if appropriate. See <file:///usr/share/doc/gcc-4.7/README.Bugs> for instructions. make: *** [sqlite-all.o] Error 4 ubuntu@ip-10-226-133-215:~$ ERROR: compilation failed for package RSQLite * removing /usr/lib/R/site-library/RSQLite * restoring previous /usr/lib/R/site-library/RSQLite SESSION INFO: > sessionInfo() R version 3.0.2 (2013-09-25) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base I tried also to install RSQLite via r-cran-rsqlite, but the it installs me the 0.11.1 instead of 0.11.4. Any idea of how to get things right? Thx -- ======================== Thibault Helleputte, +32 498 64 24 63 www.thibaulthelleputte.be Twitter @THelleputte ======================== [[alternative HTML version deleted]]
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