Dear All Can you help me get biolite packages installed? I seem to be missing Redifine.h. What I've tried... Installed R-devel I didn't have a copy of Redifine.h at all so I created one from the code on http://www.cs.kent.ac.uk/projects/cxxr/doc/html/Rdefines_8h- source.html and put it in /usr/local/include/ (it was a long shot, it didn't work!) The error I'm getting is.... > source("http://bioconductor.org/biocLite.R") > biocLite("affy") Running biocinstall version 2.2.11 with R version 2.7.2 Your version of R requires version 2.2 of BioConductor. Warning in install.packages(pkgs = pkgs, repos = repos, dependencies = dependencies, : argument 'lib' is missing: using '/usr/lib/R/library' * Installing *source* package 'Biobase' ... ** libs gcc -m32 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack- protector --param=ssp-buffer-size=4 -m32 -march=i386 -mtune=generic -fasynchronous-unwind-tables -c anyMissing.c -o anyMissing.o anyMissing.c:11:22: error: Rdefines.h: No such file or directory anyMissing.c:14: error: expected ?=?, ?,?, ?;?, ?asm? or ?__attribute__? before ?anyMissing? make: *** [anyMissing.o] Error 1 ERROR: compilation failed for package 'Biobase' Linux version 2.6.25-14.fc9.i686 (mockbuild@) (gcc version 4.3.0 20080428 (Red Hat 4.3.0-8) (GCC) ) #1 SMP Thu May 1 06:28:41 EDT 2008 Many Thanks _________________________________________________________________ Explore the seven wonders of the world

John Coulthard <bahhab at="" hotmail.com=""> writes: > Dear All > > Can you help me get biolite packages installed? I seem to be missing > Redifine.h. Likely you've used a linux package installer that separates the header files from the rest of the distribution, probably in a 'devel' package. This thread might be relevant. http://tolstoy.newcastle.edu.au/R/e4/help/08/07/16589.html though not directly Red Hat related Martin > What I've tried... Installed R-devel I didn't have a copy of > Redifine.h at all so I created one from the code on > http://www.cs.kent.ac.uk/projects/cxxr/doc/html/Rdefines_8h- source.html > and put it in /usr/local/include/ (it was a long shot, it didn't > work!) > > The error I'm getting is.... > >> source("http://bioconductor.org/biocLite.R") biocLite("affy") > Running biocinstall version 2.2.11 with R version 2.7.2 Your version > of R requires version 2.2 of BioConductor. Warning in > install.packages(pkgs = pkgs, repos = repos, dependencies = > dependencies, : argument 'lib' is missing: using '/usr/lib/R/library' > > > > * Installing *source* package 'Biobase' ... ** libs gcc -m32 -std=gnu99 > -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe -Wall > -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector > --param=ssp-buffer-size=4 -m32 -march=i386 -mtune=generic > -fasynchronous-unwind-tables -c anyMissing.c -o anyMissing.o > anyMissing.c:11:22: error: Rdefines.h: No such file or directory > anyMissing.c:14: error: expected ?=?, ?,?, ?;?, ?asm? or > ?__attribute__? before ?anyMissing? make: *** [anyMissing.o] Error 1 > ERROR: compilation failed for package 'Biobase' > > > Linux version 2.6.25-14.fc9.i686 (mockbuild@) (gcc version 4.3.0 > 20080428 (Red Hat 4.3.0-8) (GCC) ) #1 SMP Thu May 1 06:28:41 EDT 2008 > > Many Thanks > _________________________________________________________________ > Explore the seven wonders of the world > > _______________________________________________ Bioconductor mailing > list Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor Search the > archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M2 B169 Phone: (206) 667-2793