test

The test command is used to run three small archaeal genomes through the classify workflow.

If your installation is unable to run the test command with an exit code of 0, then there is an issue with your installation.

Arguments

usage: gtdbtk test [--out_dir OUT_DIR] [--cpus CPUS] [--debug] [-h]

optional arguments

--out_dir

directory to output files

--cpus

number of CPUs to use

Default: 1

--debug

create intermediate files for debugging purposes

Files output

• gtdbtk.log

• gtdbtk.json

• gtdbtk.warnings.log

• output/

• test_execution.log

Example

Input

gtdbtk test --out_dir /tmp/test --cpus 3

Output

[2020-04-13 09:50:58] INFO: GTDB-Tk v1.1.0
[2020-04-13 09:50:58] INFO: gtdbtk test --out_dir /tmp/test --cpus 3
[2020-04-13 09:50:58] INFO: Using GTDB-Tk reference data version r89: /release89
[2020-04-13 09:50:58] INFO: Command: gtdbtk classify_wf --genome_dir /tmp/test/genomes --out_dir /tmp/test/output --cpus 3
[2020-04-13 09:52:35] INFO: Test has successfully finished.