Hi dear all
It's the first time for me to install a developmental version of R, I came
across following errors, my system is
DISTRIB_ID=Ubuntu
DISTRIB_RELEASE=10.04
DISTRIB_CODENAME=lucid
DISTRIB_DESCRIPTION="Ubuntu 10.04.1 LTS"
I downloaded the dev version of R in cran R source, and downloaded the
recommended packages by using wget as described in R manual, and run
./tools/link-recommended
./configure runs successfully
make give me following errors
##########################
begin installing recommended package cluster
* installing *source* package ‘cluster’ ...
** libs
make[3]: Entering directory `/tmp/Rtmpgxd64f/R.INSTALL33128ce7/cluster/src'
gcc -std=gnu99
-I/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/include
-I/usr/local/include -fpic -g -O2 -c clara.c -o clara.o
gfortran -fpic -g -O -c daisy.f -o daisy.o
gfortran -fpic -g -O -c dysta.f -o dysta.o
gcc -std=gnu99
-I/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/include
-I/usr/local/include -fpic -g -O2 -c fanny.c -o fanny.o
gcc -std=gnu99
-I/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/include
-I/usr/local/include -fpic -g -O2 -c init.c -o init.o
gfortran -fpic -g -O -c meet.f -o meet.o
gfortran -fpic -g -O -c mona.f -o mona.o
gcc -std=gnu99
-I/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/include
-I/usr/local/include -fpic -g -O2 -c pam.c -o pam.o
gcc -std=gnu99
-I/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/include
-I/usr/local/include -fpic -g -O2 -c sildist.c -o sildist.o
gcc -std=gnu99
-I/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/include
-I/usr/local/include -fpic -g -O2 -c spannel.c -o spannel.o
gfortran -fpic -g -O -c twins.f -o twins.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o cluster.so clara.o
daisy.o dysta.o fanny.o init.o meet.o mona.o pam.o sildist.o spannel.o
twins.o -lgfortran -lm
make[3]: Leaving directory `/tmp/Rtmpgxd64f/R.INSTALL33128ce7/cluster/src'
installing to
/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/library/cluster/libs
** R
Warning in parse(outFile) :
invalid input found on input connection
'/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/library/cluster/R/cluster'
** data
** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Warning in parse(n = -1, file = file) :
invalid input found on input connection
'/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/library/cluster/R/cluster'
** help
Warning in readLines(file, warn = FALSE) :
invalid input found on input connection
'/tmp/Rtmpgxd64f/R.INSTALL33128ce7/cluster/man/plantTraits.Rd'
Warning: /tmp/Rtmpgxd64f/R.INSTALL33128ce7/cluster/man/plantTraits.Rd:69:
unexpected END_OF_INPUT 'Structuration de communaut
'
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Warning: S3 methods ‘clusplot.default’, ‘clusplot.partition’,
‘pltree.twins’, ‘silhouette.default’, ‘silhouette.clara’,
‘silhouette.partition’, ‘plot.agnes’, ‘plot.diana’, ‘plot.mona’,
‘plot.partition’, ‘plot.silhouette’, ‘print.mona’, ‘print.pam’,
‘print.summary.mona’, ‘print.summary.pam’, ‘print.summary.silhouette’,
‘summary.mona’, ‘summary.pam’, ‘summary.silhouette’ were declared in
NAMESPACE but not found
Error in namespaceExport(ns, exports) :
undefined exports: clusplot, pltree, silhouette, mona, pam,
bannerplot, lower.to.upper.tri.inds, upper.to.lower.tri.inds,
meanabsdev, sizeDiss, sortSilhouette
ERROR: loading failed
* removing
‘/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/library/cluster’
make[2]: *** [cluster.ts] Error 1
make[2]: Leaving directory
`/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/src/library/Recommended'
make[1]: *** [recommended-packages] Error 2
make[1]: Leaving directory
`/home/tengfei/R/x86_64-pc-linux-gnu-library/2.13/R-devel/src/library/Recommended'
make: *** [stamp-recommended] Error 2
#############
I don't know if I miss sth important or did anything wrong, sorry to
bother you guys.
Tengfei
--
Tengfei Yin
MCDB PhD student
1620 Howe Hall, 2274,
Iowa State University
Ames, IA,50011-2274
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