Hi Henrik, I'm using doASCRMAv2() and then CalMaTe package on a SNP array 6.0 series.
I use the code as found in the vignette of CalMaTeCalibration: #------------------------------------ # Plot allele B fractions (before and after) #------------------------------------ # Sample #1 and Chromosome 17 ii <- 1; # Extract raw (TCN,BAF) df <- getFile(ds$total, ii); dfR <- getAverageFile(ds$total, verbose=verbose); gamma <- extractRawCopyNumbers(df, logBase=NULL, chromosome=chr); gammaR <- extractRawCopyNumbers(dfR, logBase=NULL, chromosome=chr); gamma <- 2*divideBy(gamma, gammaR); All went fine until the yellow-highlighted line, where I got the following error: Exception: Failed assign column 'y', because: replacement has 0 rows, data has 46632 at #07. value[[3L]](cond) - value[[3L]]() is local of the calling function at #06. tryCatchOne(expr, names, parentenv, handlers[[1L]]) - tryCatchOne() is local of the calling function at #05. tryCatchList(expr, classes, parentenv, handlers) - tryCatchList() is local of the calling function at #04. tryCatch({ this <- NextMethod("[[<-") }, error = function(ex) { msg <- sprintf("Failed assign column '%s', because: %s", name, ex$message) throw(msg) }) - tryCatch() is in environment 'base' at #03. `[[<-.RichDataFrame`(`*tmp*`, field, value = numeric(0)) - `[[<-.RichDataFrame`() is in environment 'aroma.core' at #02. `[[<-`(`*tmp*`, field, value = numeric(0)) - `[[<-`() is local of the calling function at #01. `*.RawGenomicSignals`(2, divideBy(gamma, gammaR)) - `*.RawGenomicSignals`() is in environment 'aroma.core' Error: Failed assign column 'y', because: replacement has 0 rows, data has 46632 Thanks a lot in advance! -- -- 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/ --- You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To unsubscribe from this group and stop receiving emails from it, send an email to aroma-affymetrix+unsubscr...@googlegroups.com. For more options, visit https://groups.google.com/d/optout.