gtdbtk classify: error: one of the arguments --skip_ani_screen --mash_db is required

Question

Closed this issue 2 years ago · 3 comments

Hi,

I hope you're having a good week.

I'm running atlas, version 2.14.0 Snakemake 7.18.2 on the provided test data and I get the following error:

gtdbtk classify: error: one of the arguments --skip_ani_screen --mash_db is required

I'm running on slurm, but I didn't use Snakemake to submit the job I just submitted "atlas run genomes" to sbatch.

I've attached the log file with the error and the standard output from the cluster.

Is this something you can help me with?

Thank you,

Justin G

Answer 1 · 2023-02-21T08:16:18.000Z

Answer 2 · 2023-02-21T08:22:13.000Z

It should be fixed with the latest commit on the master branch.

@JustinGibbons Could you please try.

Answer 3 · 2023-02-24T00:27:00.000Z

I installed the latest conda environment (2.14.2) and it is now working.

Thank you for your help