[Bioc-sig-seq] readAligned error

kirti prakash kirtiprakash3.14 at gmail.com
Mon Aug 30 18:48:53 CEST 2010


I am getting this error...

me3 <- readAligned("dirpath", type="Bowtie")
Error: Input/Output
  'readAligned' failed to parse files
  dirPath: 'xxx'
  pattern: ''
  type: 'Bowtie'
  error: Calloc could not allocate (9638489 of 4) memory

I have some six histone modifications files... I didn't got this error
for the first couple of files that I read.

I read this thread which discussed this problem but I could not follow much...


> sessionInfo()
R version 2.11.1 (2010-05-31)

 [1] LC_CTYPE=en_US.iso885915       LC_NUMERIC=C
 [3] LC_TIME=en_US.iso885915        LC_COLLATE=en_US.iso885915
 [5] LC_MONETARY=C                  LC_MESSAGES=en_US.iso885915
 [7] LC_PAPER=en_US.iso885915       LC_NAME=C
 [9] LC_ADDRESS=C                   LC_TELEPHONE=C

attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods
[8] base

other attached packages:
[1] HilbertVis_1.6.0    ShortRead_1.6.2     Rsamtools_1.0.7
[4] lattice_0.18-8      Biostrings_2.16.9   GenomicRanges_1.0.7
[7] IRanges_1.6.13      biomaRt_2.4.0

loaded via a namespace (and not attached):
[1] Biobase_2.8.0 hwriter_1.2   RCurl_1.4-3   tools_2.11.1  XML_3.1-0

Best regards,

Kirti Prakash

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