TEFLoN2 test

After installing TEFLoN2 and its dependencies, you can test whether teflon2 works properly.

With RepeatMasker

If you are using RepeatMasker (Preparation custom):

snakemake --configfile tests/tmp_config_prep_custom.yaml -s Snakefile -np -j  $MAX_JOBS

And then:

snakemake --configfile tests/tmp_config_prep_custom.yaml -s Snakefile -p -j  $MAX_JOBS

Warning: this may take some time

Without RepeatMasker

If you are not using RepeatMasker (Preparation annotation):

snakemake --configfile tests/tmp_config_prep_annotation.yaml -s Snakefile -np -j  $MAX_JOBS

And then:

snakemake --configfile tests/tmp_config_prep_annotation.yaml -s Snakefile -p -j  $MAX_JOBS