[Forwarding this to the list so that others can read this thread] Pierre
On Wed, Sep 1, 2010 at 12:57 PM, Matt <matt.kowg...@gmail.com> wrote: > Hi Pierre, > > Thanks for the reply. I guess it's a problem with the source because what > you say is exactly what I did and I get the error message shown. > > Best, > Matt > > On Wed, Sep 1, 2010 at 3:20 PM, Pierre Neuvial <pie...@stat.berkeley.edu> > wrote: >> >> Hi Matt, >> >> You want to *update* the package, not *patch* it: the difference >> between updates and patches is explained at >> http://aroma-project.org/howtos/updateOrPatch. >> >> So, to update aroma.affymetrix, do: >> >> source("http://aroma-project.org/hbLite.R";); >> hbInstall("aroma.affymetrix"); >> >> as explained at http://aroma-project.org/install >> >> Hope this helps, >> >> Pierre. >> >> On Wed, Sep 1, 2010 at 10:08 AM, Matt <matt.kowg...@gmail.com> wrote: >> > Hi there, >> > >> > I'd like to update my version of aroma.affymetrix, current version in >> > use 0.9.1, so that I can utilize the new CN processing method. I >> > followed the instructions on the site but I get the following error >> > message >> > >> > Patching /home/matthew/.Rpatches/aroma.affymetrix/20080508/ >> > WeightsFile.R >> > Failed to source: >> > http://www.braju.com/R//patches/aroma.affymetrix/download.R >> > Error in stop(ex$message) : >> > Your version (0.9.1) of aroma.affymetrix is out of date. Please >> > update. >> > In addition: There were 11 warnings (use warnings() to see them) >> >> sessionInfo() >> > R version 2.7.0 Under development (unstable) (2008-01-21 r44087) >> > x86_64-unknown-linux-gnu >> > >> > locale: >> > >> > LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=en_US.UTF-8;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C >> > >> > attached base packages: >> > [1] tools stats graphics grDevices datasets utils >> > methods >> > [8] base >> > >> > other attached packages: >> > [1] Biobase_2.0.1 aroma.affymetrix_0.9.1 >> > aroma.apd_0.1.7 >> > [4] R.huge_0.2.0 digest_0.4.2 >> > aroma.light_1.16.1 >> > [7] affxparser_1.12.2 R.rsp_0.3.6 >> > R.cache_0.3.0 >> > [10] R.utils_1.5.0 R.oo_1.7.3 R.methodsS3_1.2.0 >> > >> > >> > How can I fix this? >> > >> > Thanks for any help. >> > Mattt >> > >> > -- >> > When reporting problems on aroma.affymetrix, make sure 1) to run the >> > latest version of the package, 2) to report the output of sessionInfo() and >> > traceback(), and 3) to post a complete code example. >> > >> > >> > You received this message because you are subscribed to the Google >> > Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. >> > To post to this group, send email to aroma-affymetrix@googlegroups.com >> > To unsubscribe and other options, go to >> > http://www.aroma-project.org/forum/ >> > >> >> -- >> When reporting problems on aroma.affymetrix, make sure 1) to run the >> latest version of the package, 2) to report the output of sessionInfo() and >> traceback(), and 3) to post a complete code example. >> >> >> You received this message because you are subscribed to the Google Groups >> "aroma.affymetrix" group with website http://www.aroma-project.org/. >> To post to this group, send email to aroma-affymetrix@googlegroups.com >> To unsubscribe and other options, go to >> http://www.aroma-project.org/forum/ > > -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/
