Hi Seth, Thank you so much for being so resourceful and helpful!
Best regards, Julie ******************************************* Lihua Julie Zhu, Ph.D Research Associate Professor Program Gene Function and Expression University of Massachusetts Medical School 364 Plantation Street, Room 613 Worcester, MA 01605 508-856-5256 http://www.umassmed.edu/pgfe/faculty/zhu.cfm On 2/9/10 4:43 PM, "Seth Falcon" <[email protected]> wrote: > On 2/9/10 1:21 PM, Julie Zhu wrote: >> BTW, have you encountered the error: segfault from C stack overflow? > > I did some looking into the segfault reported by P. Terry. I believe > that the root cause here is in R's gsub implementation and I am trying > to track it down. > > The crash comes from a call to gsub inside biomaRt's getBM function > where it tries to eliminate newline characters in a long string. The > call is essentially: > > gsub("\n", "", big) > > where big is a length one character vector containing ~16M characters > and ~33.5K newlines. > > I'll try to report back when I have more details. > > + seth _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
