* checking for file 'Rredland/DESCRIPTION' ... OK
* preparing 'Rredland':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'Rredland' ...
checking for gcc... 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 gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc -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 for BerkeleyDB... yes
checking db.h usability... yes
checking db.h presence... yes
checking for db.h... yes
checking whether compiling/linking BerkeleyDB code works... yes
checking BerkeleyDB in /usr... ok
checking for pkg-config... /usr/bin/pkg-config
checking for redland-config... /usr/local/bin/redland-config
checking for redland... yes
checking PKG_CFLAGS... -I/usr/local/include
checking PKG_LIBS... -L/usr/local/lib -L/usr/lib64/mysql -L/usr/lib64 -L/usr/ssl/lib -lrdf -ldb-4.2 -lmysqlclient -lcrypt -lnsl -lrasqal -lraptor -lcurl -lssl -lcrypto -ldl -lxml2 -lz -lpthread -lm
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/include -I/usr/local/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c Rredl.c -o Rredl.o
Rredl.c: In function `get_rdfnode_ref':
Rredl.c:314: warning: `node' might be used uninitialized in this function
gcc -shared -L/usr/local/lib64 -o Rredland.so Rredl.o -L/usr/local/lib -L/usr/lib64/mysql -L/usr/lib64 -L/usr/ssl/lib -lrdf -ldb-4.2 -lmysqlclient -lcrypt -lnsl -lrasqal -lraptor -lcurl -lssl -lcrypto -ldl -lxml2 -lz -lpthread -lm
** R
** data
** inst
** save image
Loading required package: graph
** help
>>> Building/Updating help pages for package 'Rredland'
Formats: text html latex example
cleanXSDT text html latex example
getProperties text html latex example
gordb text html latex example
makeRedlURI text html latex example
readRDF text html latex example
redlModel-class text html latex example
redlWorld-class text html latex example
** building package indices ...
* DONE (Rredland)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'Rredland_1.2.0.tar.gz'