Overlap and Layout Step

[shanewidanagama]

Hello,

I'm attempting to run the overlap and layout step of DBG2OLC using contigs assembled with SOAPdenovo2 and pacbio long reads, however running the following command produces a bad alloc error:

./DBG2OLC k 17 AdaptiveTh 0.0001 KmerCovTh 2 MinOverlap 20 RemoveChimera 1 Contigs output61.contig f SRR7881464_1.fastq

Author: Chengxi Ye cxy@umd.edu.
last update: Jun 11, 2015.
Loading contigs.
terminate called after throwing an instance of 'std::bad_alloc'
  what():  std::bad_alloc
Aborted

I am using the precompiled version of DBG2OLC. I am very new to bioinformatics, so any help is much appreciated!

[shanewidanagama]

It looks like I was just running from the login node, so the assembler was not able to allocate enough space.