Hi, I'm using openSUSE 11.4 (x86_64) with R version 2.15.0 (2012-03-30). I'm trying to install GEOquery, but get the following error message: ERROR: configuration failed for package ?XML? * removing ?/usr/lib64/R/library/XML? ERROR: dependency ?XML? is not available for package ?GEOquery? * removing ?/usr/lib64/R/library/GEOquery? N.B., I can only install extra programs/packages etc via the 'sudo zypper install' command, due to computer restrictions in my institute Any help on how to resolve this problem would be very much appreciated! Best regards, Tom Bartlett

On Tue, May 29, 2012 at 2:42 PM, Bartlett, Thomas <thomas.bartlett.10 at="" ucl.ac.uk=""> wrote: > Hi, > > I'm using openSUSE 11.4 (x86_64) with R version 2.15.0 (2012-03-30). I'm trying to install GEOquery, but get the following error message: > > ERROR: configuration failed for package ?XML? > * removing ?/usr/lib64/R/library/XML? > ERROR: dependency ?XML? is not available for package ?GEOquery? > * removing ?/usr/lib64/R/library/GEOquery? > > N.B., I can only install extra programs/packages etc via the 'sudo zypper install' command, due to computer restrictions in my institute > > Any help on how to resolve this problem would be very much appreciated! Hi, Tom. I would suggest using biocLite(). If you do not have write permissions to the R system location (and it sounds like you do not), then R will install packages in your home directory. In any case, this is failing because the XML package is not installing correctly. Note that the XML package has some install notes: http://cran.r-project.org/web/packages/XML/INSTALL You might take a look at them and see if that helps. Sean