Entering edit mode
9.6 years ago
scchess
▴
640
I have a very small data-set for metagenomic. The largest .fa file is about 15349 bytes and there are six of those files.
I am following the instructions on http://metavelvet.dna.bio.keio.ac.jp/MV.html exactly. In particular running velveth to construct a directory of k-mer hash table. It completed immediately most probably because my data set is small enough. Next, I tried running velvetg exactly as shown in the web site. But I got
velvetg DF1 -exp_cov auto -ins_length 260
[0.000000] Reading roadmap file DF1/Roadmaps
[0.000391] 46 roadmaps read
velvetg: Can't calloc 281474976710656 void*s totalling 2251799813685248 bytes: Cannot allocate memory
This is clearly nonsense. Does anybody know how to work with the assembler?
What value of kmer did you select in velveth?
51 exactly as recommended in the web site.