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GeneAssembly / biosal

biosal is a distributed BIOlogical Sequence Actor Library. THIS IS A MIRROR.
BSD 2-Clause "Simplified" License
6 stars 1 forks source link

request starting kmer from local actor in visitor, then switch to another one #844

Closed sebhtml closed 9 years ago

sebhtml commented 9 years ago

A visitor needs to ask a local graph store instead of using a nearby cached vertex.

sebhtml commented 9 years ago

77030934889bd3fe0f314200d7436ea28562fbf6

sebhtml commented 9 years ago

Test this on Beagle now.

Submitted build spate-Wisconsin_Restored_Prairie_Soil-ci-beagle2-36-1152-2015-01-21-17-16-09 (77030934889bd3fe0f314200d7436ea28562fbf6) 2916150.sdb

TODO

sebhtml commented 9 years ago

Beagle) grep TIMER spate-Wisconsin_Restored_Prairie_Soil-ci-beagle2-36-1152-2015-01-21-17-16-09.e2916150
TIMER [Load input / Count input data] 1 minutes, 11.213455 seconds TIMER [Load input / Distribute input data] 59.674091 seconds TIMER [Load input] 2 minutes, 10.887543 seconds TIMER [Build assembly graph / Distribute vertices] 8 minutes, 41.868042 seconds TIMER [Build assembly graph / Distribute arcs] 12 minutes, 21.919739 seconds TIMER [Build assembly graph] 21 minutes, 3.787720 seconds TIMER [Visit vertices for unitigs] 15 minutes, 17.670288 seconds TIMER [Walk for unitigs] 67 minutes, 21.220703 seconds TIMER [Total] 105 minutes, 53.917480 seconds

sebhtml commented 9 years ago

iteration 1 Beagle) grep remote spate-Wisconsin_Restored_Prairie_Soil-ci-beagle2-36-1152-2015-01-20-17-03-55.o2916067 |tail Script: biosal_unitig_visitor Name: 1016384 local sends: 2669160 remote sends: 237246 Script: biosal_unitig_visitor Name: 1011920 local sends: 2675975 remote sends: 239494 Script: biosal_unitig_visitor Name: 1017572 local sends: 2698551 remote sends: 242145 Script: biosal_unitig_visitor Name: 1016744 local sends: 2658235 remote sends: 242943 Script: biosal_unitig_visitor Name: 1012352 local sends: 2681006 remote sends: 243408 Script: biosal_unitig_visitor Name: 1013180 local sends: 2679054 remote sends: 244657 Script: biosal_unitig_visitor Name: 1016492 local sends: 2670971 remote sends: 242673 Script: biosal_unitig_visitor Name: 1016564 local sends: 2679657 remote sends: 242429 Script: biosal_unitig_visitor Name: 1018472 local sends: 2683342 remote sends: 241316 Script: biosal_unitig_visitor Name: 1017716 local sends: 2598157 remote sends: 237382

iteration 2 Beagle) grep remote spate-Wisconsin_Restored_Prairie_Soil-ci-beagle2-36-1152-2015-01-21-17-16-09.o2916150 |tail Script: biosal_unitig_visitor Name: 1014366 local sends: 2749672 remote sends: 222436 Script: biosal_unitig_visitor Name: 1015626 local sends: 2696691 remote sends: 216258 Script: biosal_unitig_visitor Name: 1010946 local sends: 2734885 remote sends: 218398 Script: biosal_unitig_visitor Name: 1018470 local sends: 2734899 remote sends: 218904 Script: biosal_unitig_visitor Name: 1012602 local sends: 2733369 remote sends: 222899 Script: biosal_unitig_visitor Name: 1015266 local sends: 2719097 remote sends: 217529 Script: biosal_unitig_visitor Name: 1015806 local sends: 2722897 remote sends: 218988 Script: biosal_unitig_visitor Name: 1009686 local sends: 2738686 remote sends: 482259 Script: biosal_unitig_visitor Name: 1016850 local sends: 2706691 remote sends: 221265 Script: biosal_unitig_visitor Name: 1013538 local sends: 2747702 remote sends: 220199