Hi,
I want to create a AnnotationTrack from a Grange object. However, I got this error "Error: cannot allocate vector of size 1817.1 Gb". My grange contains 493849 rows.
gr
GRanges object with 493849 ranges and 0 metadata columns:
seqnames ranges strand
<rle> <iranges> <rle>
[1] chr1 10125-10350 *
[2] chr1 564525-564725 *
[3] chr1 565225-566100 *
[4] chr1 566500-567325 *
[5] chr1 567450-567925 *
... ... ... ...
[493845] chrX 155229425-155229675 *
[493846] chrX 155230050-155231750 *
[493847] chrX 155232025-155233400 *
[493848] chrX 155233450-155234625 *
[493849] chrX 155259700-155259975 *
seqinfo: 23 sequences from an unspecified genome; no seqlengths
DNAseUnionmerged <- AnnotationTrack(gr, name="DNAseUnionmerged", col="#00FFFF", fill='#00FFFF', stacking="dense", chromosome = "chr1")
Error: cannot allocate vector of size 1817.1 Gb
Any help would be appreciated.
Thanks
Jiangyuan
Vector allocation ERRORs generally mean the data you are trying to create does not fit into your RAM. Depending on what you were doing before this, you might consider doing a
gc()
(garbage collect) to try and free up space. There is some discussion on these types of issues on stackover flow