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sanger-pathogens / Roary

Rapid large-scale prokaryote pan genome analysis
http://sanger-pathogens.github.io/Roary
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Core gene file missing #522

Open weishwu opened 3 years ago

weishwu commented 3 years ago

Hi,

I got an error message saying:

2020/08/26 23:40:29 Running command: protein_alignment_from_nucleotides -v pan_genome_sequences/proS.fa 2020/08/29 12:26:05 Running command: prank -d=pan_genome_sequences/proS.fa -o=pan_genome_sequences/proS.fa.aln -codon -F -quiet -once > /dev/null 2>&1 && mv pan_genome_sequences/proS.fa.aln*.fas pan_genome_sequences/proS.fa.aln sh: line 1: 257041 Aborted (core dumped) prank -d=pan_genome_sequences/proS.fa -o=pan_genome_sequences/proS.fa.aln -codon -F -quiet -once > /dev/null 2>&1 MSG: Could not read file 'pan_genome_sequences/proS.fa.aln': No such file or directory Core gene file missing: pan_genome_sequences/proS.fa.aln

My command line is: roary -p 20 -s -f roary_output -e -v ./gffs/*.gff

How can I fix this? Thanks.