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snippy-multi ERROR: Can't open --ref BZ100/ref.fa

Open makerer5 opened this issue 7 months ago • 8 comments

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?

makerer5 avatar Jul 03 '24 10:07 makerer5