alekseyzimin / masurca

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Assembly failure during terminator step #9

Closed BlackmanLabUCB closed 6 years ago

BlackmanLabUCB commented 6 years ago

I received the error message below during an assembly with Masurca 3.2.4. The file with the incorrect array type is present in the 7-CGW folder and the 8-consensus step appears to have run successfully. Please let me know what I might do to correct this error. Thanks!

----------------------------------------START Wed Mar 21 09:50:44 2018 /clusterfs/vector/home/groups/software/sl-7.x86_64/modules/MaSuRCA-3.2.4/CA/Linux-amd64/bin/terminator -g /global/scratch/blackman/LRD/CA/genom e.gkpStore -t /global/scratch/blackman/LRD/CA/genome.tigStore 13 -c /global/scratch/blackman/LRD/CA/7-CGW/genome 12 -o /global/scratch/blackm an/LRD/CA/9-terminator/genome > /global/scratch/blackman/LRD/CA/9-terminator/genome.asm.err /clusterfs/vector/home/groups/software/sl-7.x86_64/modules/MaSuRCA-3.2.4/CA/Linux-amd64/bin/terminator: AS_configure()-- AS_CGW_ERROR_RATE set t o 0.15 ====> Reading /global/scratch/blackman/LRD/CA/7-CGW/genome.ckp.12 at Wed Mar 21 09:50:44 2018

runCA failed.


Stack trace:

at /clusterfs/vector/home/groups/software/sl-7.x86_64/modules/MaSuRCA-3.2.4/bin/../CA/Linux-amd64/bin/runCA line 1121. main::caFailure('terminator failed', '/global/scratch/blackman/LRD/CA/9-terminator/terminator.err') called at /clusterfs/vector/home/gro ups/software/sl-7.x86_64/modules/MaSuRCA-3.2.4/bin/../CA/Linux-amd64/bin/runCA line 4394 main::terminate() called at /clusterfs/vector/home/groups/software/sl-7.x86_64/modules/MaSuRCA-3.2.4/bin/../CA/Linux-amd64/bin/runCA lin e 5348


Failure message:

terminator failed

BlackmanLabUCB commented 6 years ago

Ran again with more RAM, and the run completed.