Comments (2)
lpryszcz
commented on August 29, 2024
Hi,
Thanks for the report. I've never seen such error. It seems a problem with snap-aligner + last-aligner mapping for scaffolding, but it shouldn't affect you results.
Could you pull latest version (no recompile needed) and run it again?
Also, if the problem persists, you can run Redundans with --usebwa, which will switch to BWA MEM aligner.
Bests,
from redundans.
fennerm
commented on August 29, 2024
Hey sorry I forgot to respond to this, but I am currently rerunning redundans following your recommendations. I'll let you know how it goes. Thanks for your help!
from redundans.
Related Issues (20)
- GFAstats error HOT 3
- Question about scaffolding / gap closing HOT 5
- conda install error HOT 6
- TypeError: reduce() of empty iterable with no initial value HOT 7
- fasta2homozygous.py make my contig file empty HOT 2
- Gap closing error HOT 2
- Conda install issue HOT 1
- Different outputs HOT 2
- scaffolding options HOT 1
- RuntimeError: maximum recursion depth exceeded HOT 1
- Problem on performance HOT 1
- Increase the usage of combined assignment operators HOT 1
- [ERROR] Empty FastA file encountered: HOT 2
- Where is the `fasta2diverged.py` script? HOT 1
- How to use redundans in any path
- Gapcloser step no multithread HOT 2
- OSError: [Errno 8] Exec format error HOT 3
- redundant running too long time HOT 3
- SSPACE_Standard_v3.0.pl run failed with Can't open bwa output -- fatal HOT 2
- Docker/singularity container HOT 2
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