Hi I'm using EMBOSS 6.1.0 on a fairly small Linux VM which has about 3Gb of RAM.
I find it strange that extractseq reports a memory problem: -bash-3.00# /usr/local/EMBOSS-6.1.0/bin/extractseq -sequence chr1.fasta -outseq chr1_.1.fasta -regions '34415690-34415711' Extract regions from a sequence Uncaught exception: Allocation failed, insufficient memory available, raised at ajstr.c:2406 Whereas if I write a Bioperl script using SeqIO and the trunk() function, it works perfectly. I'd have thought EMBOSS would be more streamlined and memory efficient than Bioperl? Thanks Mick _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss
