Hi Vincent, Thank you very much for your reply. I don't see anything wrong with the maximum line I can load (N=363), but it is hard to tell if there is an extra space since it is a huge dataset I'll look through it better, hopefully I'll find something. Thanks again! 2014/1/23 Vincent Carey <stvjc@channing.harvard.edu> > i was able to trigger this error by supplying a snp id with more than 126 > characters (BUFFERSIZE of the > read_uncertain.c source). > > check for a record that has a very long string, perhaps because whitespace > was accidentally eliminated in > generating the impute2 output. > > > On Thu, Jan 23, 2014 at 12:08 PM, francesca casalino < > francy.casalino@gmail.com> wrote: > >> Hi all, >> I am trying to read a file called "chr1.gen" that contains imputation >> posterior probabilities (3 values per SNP) and SNP names in the second >> column, and I am trying to use the snpStats function "read.impute", but >> when I try to read the whole file: >> >> x=read.impute("chr1.gen")) >> >> I get the following error message: >> >> Error in read.impute("chr.gen") : >> input field exceeds buffer length >> >> However the data seems to load when I set a limit for the number of SNPs: >> >> x=read.impute("chr1.gen",nsnp=200) >> >> Does anyone know what this error means? Is it expecting maybe a subset of >> the file, or is this an R issue? I could not find any examples of this on >> the web, so if you have encountered this error before please let me know. >> >> Thank you >> >> -fra >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > [[alternative HTML version deleted]]