sounds a bit like http://www.mail-archive.com/[email protected]/msg18494.html
the corresponding bug-report (#14055) was closed as it was declared not-reproducible and solely due to the X-server (although the same code kills windows machines as well). Does the error only occur when drawing large polygons, as in #14055? Ludo On 09/13/2010 03:45 AM, [email protected] wrote: > Dear bioc-sig-sequencing, > > I received the following error message while running code from slide 17 from > the workshop lab CoverageEDA.pdf, 01/29/10 in Seattle, > (http://www.bioconductor.org/help/course-materials/2010/SeattleJan10/day3/CoverageEDA.pdf) > >> plotCoverage <- > + function (x, chrom, start = 1, end = length(x[[chrom]]), col = "blue", > + xlab = "Index", ylab = "Coverage", main = chrom) > + { > + xWindow <- as.vector(window(x[[chrom]], start, end)) > + x <- start:end > + xlim <- c(start, end) > + ylim <- c(0, max(xWindow)) > + plot(x = start, y = 0, xlim = xlim, ylim = ylim, xlab = xlab, > + ylab = ylab, main = main, type = "n") > + polygon(c(start, x, end), c(0, xWindow, 0), col = col) > + } >> plotCoverage(cov.arabtest1_s8, "chr1") > Error in polygon(c(start, x, end), c(0, xWindow, 0), col = col) : > X11 fatal IO error: please save work and shut down R > >> sessionInfo() > R version 2.12.0 Under development (unstable) (2010-08-02 r52661) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_US.utf8 LC_NUMERIC=C > [3] LC_TIME=en_US.utf8 LC_COLLATE=en_US.utf8 > [5] LC_MONETARY=C LC_MESSAGES=en_US.utf8 > [7] LC_PAPER=en_US.utf8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_US.utf8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] chipseq_0.99.1 BSgenome_1.17.6 ShortRead_1.7.11 > [4] Rsamtools_1.1.11 lattice_0.18-8 Biostrings_2.17.27 > [7] GenomicRanges_1.1.20 IRanges_1.7.15 > > loaded via a namespace (and not attached): > [1] Biobase_2.9.0 grid_2.12.0 hwriter_1.2 >> > > The plot works fine with the 2.11 release vesion of R. This is a linux > Ubuntu laptop running 10.04, 8 Gb ram. > > Thanks, > P. Terry > [email protected] > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-sig-sequencing mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
