cat ~/vcontact-output/genome_by_genome_overview.csv: No such file or directory

[die hu]

I used vcontact2 to find the taxonomy in 30 samples.

vcontact2/Vontact2/bin/vcontact -t ${SLURM_CPUS_PER_TASK:-1} --raw-proteins "$2"/viral_genomes.faa --rel-mode 'Diamond' --proteins-fp "$2"/viral_genomes_g2g.csv --db 'ProkaryoticViralRefSeq94-Merged' --pcs-mode MCL --vcs-mode ClusterONE --c1-bin /gpfs1/data/msb/tools/vcontact2/cluster_one-1.0.jar --output-dir "$2"/vcontact-output

there are 28 samples that have genome_by_genome_overview.csv. But 2 of them didn't create this file, it has 23 other files in vcontact-output.

So what was happened?

And more, I do not understand this file result. Why do some rows contain my viral contigs id, while others are genome in the second column? Does it mean that it is proper annotation for my sample that contains my viral contigs id?

Kind regards