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marbl / canu

A single molecule sequence assembler for genomes large and small.
http://canu.readthedocs.io/
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canu issue #2319

Closed NINI-recherche closed 3 days ago

NINI-recherche commented 3 weeks ago

canu -d '/home/ubintu/sars-cov-2_test/4_canu' -p prefix genomeSize=30K -nanopore-raw '/home/ubintu/sars-cov-2_test/3_NanoFilt/Filtered.fastq' -stopOnReadQuality=false Don't panic, but a mostly harmless error occurred and canu failed.

Disk space available: 107.412 GB

Last 50 lines of the relevant log file (/home/ubintu/sars-cov-2_test/4_canu/unitigging/prefix.ctgStore/partitionedReads.err):

gkStore::gkStore_clone()- failed to find path of '/home/ubintu/sars-cov-2_test/4_canu/unitigging/prefix.gkpStore': Invalid argument

canu failed with 'failed to partition the reads'.

brianwalenz commented 3 weeks ago

Which version is this? It looks like an exceptionally old version, so my first recommendation would be to update to the latest.

skoren commented 3 days ago

Idle, outdated version of canu