Comments (4)
I have extracted the sequence which caused the problem and ran it with the command:
cctyper q.fa test --prodigal meta -t 4
Here is the result.
test-DX2.zip
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I am also having a similar problem. Any workarounds available?
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Thank you for reporting, and providing a sequence which causes the bug.
A workaround for now shuold be to use the --skip_blast argument.
I will look into fixing the bug ASAP.
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Hi both
The bug is now fixed.
The new fixed version (1.6.4) is published on pip and can be upgraded like this:
python -m pip install cctyper --upgrade
It will be available on conda later today.
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Related Issues (20)
- FileNotFoundError: blast.tab HOT 3
- Complete genome and draft genome HOT 2
- A complement to CRISRPRCasFinder or its own thing? HOT 1
- Execution against protein fasta and gff HOT 2
- Different results from CRISPR Cas typer web server and standalone version HOT 5
- Error when running cctyper: sed: cannot rename <output filename>/sed78a7GM: Permission denied HOT 2
- ![image](https://user-images.githubusercontent.com/121949837/212599561-d771b233-4bde-4850-8e5f-98a4164f78cb.png)
- Option to use Prodigal-gv
- Meaning of asterisk at the end of protein sequence HOT 1
- Creating empty files when there's no data HOT 1
- castyping.py having an issue with positional arguments. HOT 2
- CCTyper results HOT 4
- Orphan CRISPR definition HOT 2
- (Question) provide GFF file for pre computed gene calls? HOT 5
- XGBoost model incompatible HOT 8
- If minced detects a CRISPR with N's in the repeat sequence
- (Question) How can I plot svg post-hoc after a run? HOT 1
- ValueError: invalid literal for int() with base 10: 'lengt' HOT 2
- access to sequences that used to geenrate Cas profiles
- access to sequences that used to geenrate Cas profiles HOT 1
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