Hi,
I am currently trying to assemble a amoeba genome and I have about 300 million Solexa reads (paired end, 200 bp insert size).
When using velvet:
velveth . 31 -fasta -shortPaired input.fa
velvetg . -ins_length 200 -exp_cov 50 -cov_cutoff 5 -max_coverage
300 -min_pair_count 20
I get a error message like this:
---
velvetg: Can't calloc 18446744072010747658 InsertionMarkers totalling
18446744046528688288 bytes: Cannot allocate memory
Reading roadmap file ./Roadmaps
301083362 roadmaps reads
Creating insertion markers
---
So what to do with that message ? Do I really need that much memory ? 18000 Petabyte ? It has to be a bug ...
Thanks for any comments,
andpet
I am currently trying to assemble a amoeba genome and I have about 300 million Solexa reads (paired end, 200 bp insert size).
When using velvet:
velveth . 31 -fasta -shortPaired input.fa
velvetg . -ins_length 200 -exp_cov 50 -cov_cutoff 5 -max_coverage
300 -min_pair_count 20
I get a error message like this:
---
velvetg: Can't calloc 18446744072010747658 InsertionMarkers totalling
18446744046528688288 bytes: Cannot allocate memory
Reading roadmap file ./Roadmaps
301083362 roadmaps reads
Creating insertion markers
---
So what to do with that message ? Do I really need that much memory ? 18000 Petabyte ? It has to be a bug ...
Thanks for any comments,
andpet
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