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HingeAssembler / HINGE

Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"
http://genome.cshlp.org/content/27/5/747.full.pdf+html?sid=39918b0d-7a7d-4a12-b720-9238834902fd
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Multiple CPU cores #92

Open mictadlo opened 7 years ago

mictadlo commented 7 years ago

Hi, Does HINGE support Multiple CPU cores, if yes then how many?

Thank you in advance.

Michal

govinda-kamath commented 7 years ago

HINGE does not currently support multiple CPU cores yet. Most of the computational cost of HINGE is in DALIGNER, which does support multiple cores. However, we're under active development and are thinking of adding multi-core support to some time consuming portions of HINGE.

mictadlo commented 7 years ago

Can I pass anyhow a number of cores to DALIGNER?

govinda-kamath commented 7 years ago

The command would be

HPC.daligner -T<no-of-threads> <db-name> | bash -v

More details are here