[BioC] rtracklayer export fails
Michael Dondrup
michael.dondrup at uni.no
Sat Feb 19 21:21:10 CET 2011
Hi,
I am trying to use export in the rtracklayer package on R 2.12.1 on MacOS but already the example fails, see below:
Best
Michael
> example(export)
export> track <- import(system.file("tests", "v1.gff", package = "rtracklayer"))
export> ## Not run: export(track, "my.gff", version = "3")
export> ## equivalently,
export> ## Not run: export(track, "my.gff3")
export> ## or
export> ## Not run:
export> ##D con <- file("my.gff3")
export> ##D export(track, con, "gff3")
export> ##D close(con)
export> ##D
export> ## End(Not run)
export> ## or as a string
export> export(track, format = "gff3")
Error: evaluation nested too deeply: infinite recursion / options(expressions=)?
> sessionInfo()
R version 2.12.1 (2010-12-16)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] rtracklayer_1.10.6 RCurl_1.4-3 bitops_1.0-4.1 IRanges_1.8.9
loaded via a namespace (and not attached):
[1] annotate_1.28.0 AnnotationDbi_1.12.0 Biobase_2.10.0 Biostrings_2.18.2
[5] BSgenome_1.18.0 DBI_0.2-5 DESeq_1.2.1 genefilter_1.32.0
[9] geneplotter_1.28.0 GenomicRanges_1.2.0 grid_2.12.1 RColorBrewer_1.0-2
[13] RSQLite_0.9-2 splines_2.12.1 survival_2.36-2 tools_2.12.1
[17] XML_3.2-0 xtable_1.5-6
>
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