1) I have been working from your page. http://aroma-project.org/vignettes/CalMaTe - over the course of the last couple of days. I have been following that carefully..
2) > print(cmtN); CalMaTeCalibration: Data sets (2): <Total>: AromaUnitTotalCnBinarySet: Name: CLLtest Tags: ACC,ra,-XY,BPN,-XY,RMA,FLN,-XY Full name: CLLtest,ACC,ra,-XY,BPN,-XY,RMA,FLN,-XY Number of files: 6 Names: 1_S7_CD3_SNP6, 2_S7_CD15_SNP6, 3_S7_CD19_SNP6, ..., 6_S29_CD19_SNP6 [6] Path (to the first file): totalAndFracBData/CLLtest,ACC,ra,-XY,BPN,-XY,RMA,FLN,-XY/GenomeWideSNP_6 Total file size: 43.06 MB RAM: 0.01MB <FracB>: AromaUnitFracBCnBinarySet: Name: CLLtest Tags: ACC,ra,-XY,BPN,-XY,RMA,FLN,-XY Full name: CLLtest,ACC,ra,-XY,BPN,-XY,RMA,FLN,-XY Number of files: 6 Names: 1_S7_CD3_SNP6, 2_S7_CD15_SNP6, 3_S7_CD19_SNP6, ..., 6_S29_CD19_SNP6 [6] Path (to the first file): totalAndFracBData/CLLtest,ACC,ra,-XY,BPN,-XY,RMA,FLN,-XY/GenomeWideSNP_6 Total file size: 43.06 MB RAM: 0.00MB Number of arrays: 6 Number of references: 3 (50.00%) Additional parameters: [2] references: int [1:3] 2 4 6, flavor: chr "v2" 3) > sessionInfo() R version 2.14.2 (2012-02-29) Platform: i386-pc-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] preprocessCore_1.16.0 BiocInstaller_1.2.1 sfit_0.1.9 calmate_0.9.2 [5] MASS_7.3-17 aroma.affymetrix_2.5.0 affxparser_1.26.4 aroma.apd_0.2.2 [9] R.huge_0.3.0 aroma.core_2.5.0 aroma.light_1.24.0 matrixStats_0.5.0 [13] R.rsp_0.7.5 R.cache_0.6.2 R.filesets_1.1.5 digest_0.5.2 [17] R.utils_1.12.1 R.oo_1.9.3 R.methodsS3_1.2.2 loaded via a namespace (and not attached): [1] splines_2.14.2 tools_2.14.2 thanks, M On Thursday, June 14, 2012 2:31:02 PM UTC-4, Henrik Bengtsson wrote: > > > > Hi All, > > I have my test run almost completed and at the step > > dsCNList <- process(cmtN, verbose=verbose); > > I get the following memory error > > Error: cannot allocate vector of size 95.4 Mb > > > > I am on Windows7, 32bit and have many Gs of storage. > > > > Any ideas for how to deal with this? > > My best guess now is that you have done lots of other things in the > same R session before doing your aroma analysis, but it is impossible > to tell based on that single line of code. So, please post (1) your > complete script (at least up to the point where you get the error), > (2) the output of print(cmtN), (3) the output of sessionInfo() after > you get the error. > > /Henrik > > > thanks, M > > > > -- > > 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 [email protected] > > 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 [email protected] To unsubscribe and other options, go to http://www.aroma-project.org/forum/
