Run has already reached the number of specified iterations

[nicolettacommins]

My runs were interrupted on the final iteration, but when I try to resume the run I get "Run has already reached the number of specified iterations." The intermediate files from the final (5th) iteration are still in a temp directory and final output files of Gubbins have not been created. This only seems to be happening with my runs that were in the middle of the 5th iteration and not ones that were in earlier iterations. Is there a way to force Gubbins to finish the final iteration and produce the output files? I'm using v3.2.1.

[nickjcroucher]

What's the command you're using?

[nicolettacommins]

Here is the command that I'm using:

run_gubbins.py mab_all_samples_bolOutgroup.fasta -t raxmlng --threads 8 -o SAMEA2070538_mapped_to_MAB -u -v -p default_params -f 25 --resume mab_all_samples_bolOutgroup.1658263885.iteration_4.tre

[nickjcroucher]

Sorry, daft mistake now fixed in 4581de1ee1436d68dd4357e53f60d2f485582983 - if you can clone the repo and run a local install, that should fix the problem