[BioC] MEDIPS
Paolo Kunderfranco
paolo.kunderfranco at gmail.com
Wed Oct 9 12:33:22 CEST 2013
Dear All,
I am facing some problems with MEDIPS package,
I Think I'am running out of memory once I run the command MEDIPS.meth
................
Adjusting p.values for multiple testing...
Creating results table...
Adding differential coverage results...
Error: cannot allocate vector of size 207.9 Mb
Inoltre: Warning messages:
1: In unlist(vlist, recursive = FALSE, use.names = FALSE) :
Reached total allocation of 24501Mb: see help(memory.size)
2: In unlist(vlist, recursive = FALSE, use.names = FALSE) :
Reached total allocation of 24501Mb: see help(memory.size)
3: In unlist(vlist, recursive = FALSE, use.names = FALSE) :
Reached total allocation of 24501Mb: see help(memory.size)
4: In unlist(vlist, recursive = FALSE, use.names = FALSE) :
Reached total allocation of 24501Mb: see help(memory.size)
Is there a way to avoid this problem?
I have a 24 Gb RAM workstation I don't see why it fails...
Thanks,
Paolo
> sessionInfo()
R version 3.0.0 (2013-04-03)
Platform: x86_64-w64-mingw32/x64 (64-bit)
locale:
[1] LC_COLLATE=Italian_Italy.1252 LC_CTYPE=Italian_Italy.1252
LC_MONETARY=Italian_Italy.1252 LC_NUMERIC=C
LC_TIME=Italian_Italy.1252
attached base packages:
[1] parallel stats graphics grDevices utils datasets
methods base
other attached packages:
[1] MEDIPS_1.10.0 BiocInstaller_1.10.3 gtools_3.1.0
DNAcopy_1.34.0 BSgenome_1.28.0 Biostrings_2.28.0
GenomicRanges_1.12.4 IRanges_1.18.1 BiocGenerics_0.6.0
loaded via a namespace (and not attached):
[1] biomaRt_2.16.0 bitops_1.0-6 edgeR_3.2.4 limma_3.16.8
RCurl_1.95-4.1 Rsamtools_1.12.4 stats4_3.0.0 tools_3.0.0
XML_3.98-1.1 zlibbioc_1.6.0
More information about the Bioconductor
mailing list