[R] Memory leak with character arrays?

[Jean lobry]

Dear Peter,

>The file that I'm reading contains the upstream regions of the yeast
>genome, with each upstream region labeled using a FASTA header, i.e.:
>
>     FASTA header for gene 1
>     upstream region.....
>     .....
>     ....
>     FASTA header for gene 2
>     upstream....
>     ....

you may want to have a look at the read.fasta() function in the
seqinr package. There is an example page 16 of this document:
http://pbil.univ-lyon1.fr/software/SeqinR/seqinr_1_0-6.pdf
about importing the content of a fasta file with 21,161 sequences
from Arabidopsis thaliana into an object which is about 15 Mb in RAM.

HTH,

-- 
Jean R. Lobry            (lobry at biomserv.univ-lyon1.fr)
Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I,
43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE
allo  : +33 472 43 27 56     fax    : +33 472 43 13 88
http://pbil.univ-lyon1.fr/members/lobry/