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snippy-multi ERROR: Can't open --ref BZ100/ref.fa #591
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can you try 'less multi.sh' and show your result? Maybe I can help u after seeing that |
Thank you very much for helping me solve this error. |
Please confirm: |
Sorry, I made a mistake in the previous statement.
|
make sure the output path changed to an absolute path |
Hi,
I have a question for you about snippy-multi:
I tried to run snippy-multi.
I first generated a label file (input.tab) as follows:
BZ93 /home/disk/project/G20240703/genome_analysis/geome/BZ93.fsa
BZ_48_8 /home/disk/project/G20240703/genome_analysis/geome/BZ_48_8.fsa
BZ107 /home/disk/project/G20240703/genome_analysis/geome/BZ107.fsa
BZ85 /home/disk/project/G20240703/genome_analysis/geome/BZ85.fsa
BZ77 /home/disk/project/G20240703/genome_analysis/geome/BZ77.fsa
BZ67 /home/disk/project/G20240703/genome_analysis/geome/BZ67.fsa
BZ79 /home/disk/project/G20240703/genome_analysis/geome/BZ79.fsa
BZ98 /home/disk/project/G20240703/genome_analysis/geome/BZ98.fsa
When I run the following command, I get the following error:
snippy-multi input.tab --ref sequence.fasta --cpus 16 --outdir mysnippy > multi.sh
sh multi.sh
ERROR: Can't open --ref BZ100/ref.fa
I tried to find the answer in the github issue, and the #463 issue is exactly the same as my current situation. But he solved the problem by replacing the GBK file with a fasta file, but my reference genome is a fasta file.
Why does "ERROR: Can't open --ref BZ100/ref.fa" still appear now?
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