[back to the lists] So it seems that r-base-dev forgets to depend on libatlas-base-dev
You can fix this by installing libatlas-base-dev manually: apt-get install libatlas-base-dev This should solve the compilation/linking problem with KernSmooth, preprocessCore and any other package that needs to be linked against the BLAS/ATLAS/LAPACK libraries on Ubuntu 8.10 (Intrepid Ibex). Note that this problem only affects people that get their R-2.8 from r-base + r-base-dev Cheers, H. Tiandao Li wrote:
This is my installation: > install.packages("KernSmooth") Warning in install.packages("KernSmooth") : argument 'lib' is missing: using '/usr/local/lib/R/site-library' trying URL 'http://cran.fhcrc.org/src/contrib/KernSmooth_2.22-22.tar.gz' Content type 'application/x-gzip' length 28422 bytes (27 Kb) opened URL ================================================== downloaded 27 Kb * Installing *source* package 'KernSmooth' ... ** libs gfortran -fpic -g -O2 -c blkest.f -o blkest.o gfortran -fpic -g -O2 -c cp.f -o cp.o gfortran -fpic -g -O2 -c dgedi.f -o dgedi.o gfortran -fpic -g -O2 -c dgefa.f -o dgefa.o gfortran -fpic -g -O2 -c dgesl.f -o dgesl.o gcc -std=gnu99 -I/usr/share/R/include -fpic -g -O2 -c init.c -o init.o gfortran -fpic -g -O2 -c linbin2D.f -o linbin2D.o gfortran -fpic -g -O2 -c linbin.f -o linbin.o gfortran -fpic -g -O2 -c locpoly.f -o locpoly.o gfortran -fpic -g -O2 -c rlbin.f -o rlbin.o gfortran -fpic -g -O2 -c sdiag.f -o sdiag.o gfortran -fpic -g -O2 -c sstdiag.f -o sstdiag.ogcc -std=gnu99 -shared -o KernSmooth.so blkest.o cp.o dgedi.o dgefa.o dgesl.o init.o linbin2D.o linbin.o locpoly.o rlbin.o sdiag.o sstdiag.o -lf77blas -latlas -lgfortran -lm -lgfortran -lm -L/usr/lib/R/lib -lR/usr/bin/ld: cannot find -lf77blas collect2: ld returned 1 exit status make: *** [KernSmooth.so] Error 1 ERROR: compilation failed for package 'KernSmooth' ** Removing '/usr/local/lib/R/site-library/KernSmooth' The downloaded packages are in /tmp/RtmpqCLrkQ/downloaded_packages Warning message: In install.packages("KernSmooth") : installation of package 'KernSmooth' had non-zero exit statusOn Mon, Dec 1, 2008 at 4:05 PM, Hervé Pagès <[EMAIL PROTECTED] <mailto:[EMAIL PROTECTED]>> wrote:I'm taking this off-list for now. Tiandao Li wrote: [...] library() [...] KernSmooth Functions for kernel smoothing for Wand & Jones (1995) yes this shows that you have KernSmooth but my suggestion was that you try to install it *from source*. I don't know how you got this KernSmooth, maybe you installed the Ubuntu pkg r-cran-kernsmooth, which is a binary package (precompiled), so the fact that you were able to install it doesn't tell me anything useful... Thanks! H.
-- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: [EMAIL PROTECTED] Phone: (206) 667-5791 Fax: (206) 667-1319 ______________________________________________ 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.
