2012-11-09

Table 1: Comparison of Ray instances with MPI ranks and mini-ranks.



Table 1: Comparison of Ray instances with MPI ranks and mini-ranks.
Metric
Ray with MPI ranks
Ray with mini-ranks
Accession
SRA010766
SRA010766
Description
Jay T. Flatley genome
Jay T. Flatley genome
Input files
164
164
Input sequences
1593032322
1593032322
Compression
Bzip2
Bzip2
K-mer length
21
21
MPI implementation
Open-MPI 1.6.2
Open-MPI 1.6.2
Compiler
GNU g++ 4.7.0
GNU g++ 4.7.0
Ray version
2.1.0-pre-release
2.1.1-devel (9cbf2a8277)
RayPlatform version
1.1.0-pre-release
7.0.0-devel (7e38d17e0f)
Interconnect
Mellanox MT26428
Mellanox MT26428
Processor
AMD Opteron 6172
AMD Opteron 6172
Machines
43
100
MPI ranks per machine
23 or 24
1
MPI ranks
1024
100
Mini-ranks per MPI rank
None
23
Mini-ranks
None
2300
Messaging strategy
Virtual routing with polytope
None
Routing graph
Polytope
None
Routing graph degree
62
None
Network testing
00:00:20
00:00:03
Counting sequences to assemble
00:13:45
00:10:34
Sequence loading
00:45:01
00:30:09
K-mer counting
02:55:18
00:11:44
Coverage distribution analysis
00:00:22
00:00:08
Graph construction
00:22:33
00:17:04
Null edge purging
00:20:25
00:19:49


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