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xiaochuanle / NECAT

Nanopore data assembler
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Correction failed for one partition #38

Open j-bartos opened 3 years ago

j-bartos commented 3 years ago

Hi,

durring the read correction, I am not able to finish one of the steps. The error occurs while running oc2cns. While many other partitions run successfully, one of them failed several times (I run the job at several different computers in the cluster, thus it seems to me as more "data-linked" problem then "machine-linked" one.)

The job produced following log named "cns_1_cns_part_35.sh.log"

Assertion Fail At 'consensus/read_id_pool.c: 163'
Expression: 'iter != ((cns_read_ids)->n_buckets)'
Context Information: 'global_id = 3500000'
[Fri Nov 26 18:14:53 2021] INFO: 'consensus partition 35' BEGINS (consensus/consensus_one_partition.c, 120)
[Fri Nov 26 18:14:53 2021] INFO: 'loading candidates' BEGINS (consensus/consensus_one_partition.c, 24)
[Fri Nov 26 18:23:57 2021] INFO: 'loading candidates' takes 543.44 secs. (consensus/consensus_one_partition.c, 35)
[Fri Nov 26 18:23:57 2021] INFO: 'sorting candidates' BEGINS (consensus/consensus_one_partition.c, 41)
[Fri Nov 26 18:28:43 2021] INFO: 'sorting candidates' takes 285.84 secs. (consensus/consensus_one_partition.c, 43)
[Fri Nov 26 18:32:38 2021] INFO: Load 0 reads, total 0 bps (consensus/read_id_pool.c, 145)

Any idea how to solve the problem?

Thanks, Jan