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MDU-PHL / bohra

A pipeline for bioinformatics analysis of bacterial genomes
GNU General Public License v3.0
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run/rerun `-f` flag not working #33

Closed willpitchers closed 4 years ago

willpitchers commented 4 years ago

I find that if I run e.g. bohra run --input_file isolates.tab --job_id PA_20200115_1 --reference ref.fa --mask phastaf/phage.bed -mdu -n ...and get the warning message:

[WARNING:01/15/2020 02:59:44 PM] This may be a re-run of an existing job. Please try again using rerun instead of run OR use -f to force an overwrite of the existing job.
[WARNING:01/15/2020 02:59:44 PM] Exiting....

...then running the same command with -f added only repeats the same error message.

tseemann commented 4 years ago

@willpitchers bohra rerun ?