Hi,
Have come across a cigar-vector that is problematic to process.
#load package
> library(GenomicAlignments)
#load data (see attached file)
> load("2014-02-17-cigarExample.rdata")
#run function cigarToRleList
> cigarRle <- cigarToRleList(cigarExample)
Error in .Call2("Rle_constructor", values, lengths, check, 0L, PACKAGE =
"IRanges") :
integer overflow while summing elements in 'lengths'
> sessionInfo()
R Under development (unstable) (2013-11-13 r64209)
Platform: x86_64-unknown-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=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] GenomicAlignments_0.99.18 Rsamtools_1.15.26
[3] Biostrings_2.31.12 XVector_0.3.6
[5] GenomicRanges_1.15.26 IRanges_1.21.23
[7] BiocGenerics_0.9.3
loaded via a namespace (and not attached):
[1] BatchJobs_1.1-1135 BBmisc_1.5 BiocParallel_0.5.8 bitops_1.0-6
[5] brew_1.0-6 codetools_0.2-8 DBI_0.2-7 digest_0.6.4
[9] fail_1.2 foreach_1.4.1 iterators_1.0.6 plyr_1.8
[13] RSQLite_0.11.4 sendmailR_1.1-2 stats4_3.1.0 tools_3.1.0
[17] zlibbioc_1.9.0
_______________________________________________
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
