I am getting the following error when I am trying to test plotting an ideogram from the vignette. sessioninfo attached. -A library(biovizBase) data(hg19IdeogramCyto) hg19IdeogramCyto #this gives the output plotIdeogram(hg19IdeogramCyto,"chr1",aspect.ratio=1/20) Error in get(x, envir = this, inherits = inh) : internal error -3 in R_decompress1In addition: Warning message:In get(x, envir = this, inherits = inh) : restarting interrupted promise evaluation sessionInfo()R version 2.15.2 (2012-10-26) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] grid stats graphics grDevices utils datasets methods [8] base other attached packages: [1] biovizBase_1.6.2 ggbio_1.6.4 BiocInstaller_1.8.3 [4] cummeRbund_2.0.0 Gviz_1.2.1 rtracklayer_1.18.2 [7] fastcluster_1.1.7 reshape2_1.2.2 ggplot2_0.9.3 [10] RSQLite_0.11.2 DBI_0.2-5 GenomicRanges_1.10.5 [13] IRanges_1.16.3 BiocGenerics_0.4.0 [[alternative HTML version deleted]]

On Tue, Jan 8, 2013 at 3:03 PM, Tim Triche, Jr. <tim.triche@gmail.com>wrote: > reload R and try it again. you may need to use the version of biovizBase > and ggbio in bioc-devel, I verified this morning that ideogram works as it > says on the tin (plotting differentially methylated regions for another > purpose) > > restart did the trick...thanks Tim -Abhi > > > On Tue, Jan 8, 2013 at 2:53 PM, Abhishek Pratap <apratap@lbl.gov> wrote: > >> I am getting the following error when I am trying to test plotting an >> ideogram from the vignette. sessioninfo attached. -A >> >> library(biovizBase) >> data(hg19IdeogramCyto) >> hg19IdeogramCyto #this gives the output >> plotIdeogram(hg19IdeogramCyto,"chr1",aspect.ratio=1/20) >> >> Error in get(x, envir = this, inherits = inh) : >> internal error -3 in R_decompress1In addition: Warning message:In >> >> get(x, envir = this, inherits = inh) : >> restarting interrupted promise evaluation >> >> >> >> >> >> sessionInfo()R version 2.15.2 (2012-10-26) >> >> Platform: x86_64-pc-linux-gnu (64-bit) >> >> locale: >> [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C >> [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 >> [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 >> [7] LC_PAPER=C LC_NAME=C >> [9] LC_ADDRESS=C LC_TELEPHONE=C >> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C >> >> attached base packages: >> [1] grid stats graphics grDevices utils datasets methods >> [8] base >> >> other attached packages: >> [1] biovizBase_1.6.2 ggbio_1.6.4 BiocInstaller_1.8.3 >> [4] cummeRbund_2.0.0 Gviz_1.2.1 rtracklayer_1.18.2 >> [7] fastcluster_1.1.7 reshape2_1.2.2 ggplot2_0.9.3 >> [10] RSQLite_0.11.2 DBI_0.2-5 GenomicRanges_1.10.5 >> [13] IRanges_1.16.3 BiocGenerics_0.4.0 >> >> [[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 >> > > > > -- > *A model is a lie that helps you see the truth.* > * > * > Howard Skipper<http: cancerres.aacrjournals.org="" content="" 31="" 9="" 1173.full.pdf=""> > [[alternative HTML version deleted]]