Dear Bioconductor I've installed R-1.6.2 and then tried installing Bioconductor using the getBioC script on my HP-UX 11.0 workstation. I get the following warning messages: Warning messages: 1: Installation of package XML had non-zero exit status in: installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) 2: Package AnnBuilder version 1.0.2 requires package RPgSQL in: resolve.depends(pkgInfo, repEntry, force, searchOptions = searchOptions) 3: Installation of package rhdf5 had non-zero exit status in: installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) What can be done to fix these warnings? Thanks Mr. Kelly Choo, Webmaster - Pacific Institute for the Mathematical Sciences System Administrator - Department of Mathematics and Statistics University of Victoria PO Box 3045 STN CSC PHONE: (250) 472-4927 http://www.pims.math.ca Victoria BC V8W 3P4 FAX: (250) 721-8962 http://www.math.uvic.ca

Hello Kelly ... > 1: Installation of package XML had non-zero exit status in: > installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) I'll get to this with #3, and proceed directly to #2. > 2: > Package AnnBuilder version 1.0.2 requires package RPgSQL > in: resolve.depends(pkgInfo, repEntry, force, searchOptions = > searchOptions) This is the easy one. RPgSQL is not directly available under CRAN apparently. You can manually retreive it at: http://cran.r-project.org/src/contrib/Devel/ > 3: Installation of package rhdf5 had non-zero exit status in: > installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) > What can be done to fix these warnings? The package rhdf5 and the XML package both deal with compilation. My suspicion would be that something is not interacting properly with your compilation environment. As a test to see if it is getBioC()/reposTools or R in general, please try this from your R session: 'install.packages("XML")' and see if that works, and let me know the results. -J