Hi, thanks for reporting on this issue.
On Sun, Dec 5, 2010 at 10:37 AM, Yan Jiao <y.j...@ucl.ac.uk> wrote: > Dear all, > > I'm doing DNA segmentation on affymetrix 100k SNP data, 50k_hind chip data > works fine, I'm just trying to do the same on Xba chip, but I got the > following error: > > Failed with error: 'package 'sfit' is not installed for 'arch=i386'' > Error in list(`doCRMAv1("Fockens_2", chipType = "Mapping50K_Xba240", > chromosomes = 8, verbose = TRUE)` = <environment>, : > > Then I tried to install sfit: > source("http://www.braju.com/R/hbLite.R"); >>installPackages("http://www.braju.com/R/repos/sfit_0.1.9.zip"); > trying URL 'http://www.braju.com/R/repos/sfit_0.1.9.zip' > Content type 'application/zip' length 85895 bytes (83 Kb) > opened URL > downloaded 83 Kb > > Installing package(s) into 'C:\Users\rmhkyji/R/win-library/2.12' > (as 'lib' is unspecified) > package 'sfit' successfully unpacked and MD5 sums checked >> library("sfit"); > Error: package 'sfit' is not installed for 'arch=i386' I've checked, and it turned out that the Windows binary of 'sfit' was incorrectly flagged as an x64-only package. I've uploaded a correct version. Please try again. source("http://www.braju.com/R/hbLite.R"); hbInstall("aroma.affymetrix"); should do. > > I didn't come across this error for hind chip, is this library not used for > Hind chip? To clarify, the 'sfit' package is used for the allele-crosstalk calibration of *any* SNP chip type. The error has nothing to with the chip type you are trying to process; the error is that the package 'sfit' cannot be loaded. I suspect that when you processed the Mapping50K_Hind240 chip type, you had a different R setup, than you have now, e.g. you installed R v2.12.0 since(?). R v2.12.0 do more rigorous sanity checks when loading Windows binary package and I guess R v2.11.0 let it pass unnoticed (which in turn is indeed ok with the 'sfit' package). /Henrik > > Many thanks > > yan [snip] -- 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/