Trying to run the following command:
$ canu -trim -p PacBio10_trimmed -d PacBio10_trimmed genomeSize=200000 -pacbio-corrected /work/03868/lguzmanz/liz_trials/PacBio_correctedreads/corrected_Canu_pacbio10.correctedReads.fasta.gz "useGrid=false"
Got the following error message:
ERROR:
ERROR: Failed with exit code 1.
ERROR:
Don't panic, but a mostly harmless error occurred and canu failed.
Disk space available: 17025761.9 GB
Last 50 lines of the relevant log file (/work/03868/lguzmanz/liz_trials/april_20/PacBio10_trimmed/trimming/PacBio10_trimmed.ovlStore.err):
Summing overlap counts for 1 reads from '/work/03868/lguzmanz/liz_trials/april_20/PacBio10_trimmed/trimming/1-overlapper/001/000001.counts'.
Found no overlaps to sort.
canu failed with 'failed to create the overlap store'.
I had to manually correct 18 PacBio reads because the correct/trim/assemble default canu code ran into issues, now that I look back on it, it was probably the same error with the "failed to create overlap store" when trimming.
Any help would be greatly appreciated!
$ canu -trim -p PacBio10_trimmed -d PacBio10_trimmed genomeSize=200000 -pacbio-corrected /work/03868/lguzmanz/liz_trials/PacBio_correctedreads/corrected_Canu_pacbio10.correctedReads.fasta.gz "useGrid=false"
Got the following error message:
ERROR:
ERROR: Failed with exit code 1.
ERROR:
Don't panic, but a mostly harmless error occurred and canu failed.
Disk space available: 17025761.9 GB
Last 50 lines of the relevant log file (/work/03868/lguzmanz/liz_trials/april_20/PacBio10_trimmed/trimming/PacBio10_trimmed.ovlStore.err):
Summing overlap counts for 1 reads from '/work/03868/lguzmanz/liz_trials/april_20/PacBio10_trimmed/trimming/1-overlapper/001/000001.counts'.
Found no overlaps to sort.
canu failed with 'failed to create the overlap store'.
I had to manually correct 18 PacBio reads because the correct/trim/assemble default canu code ran into issues, now that I look back on it, it was probably the same error with the "failed to create overlap store" when trimming.
Any help would be greatly appreciated!