'Computing best solutions' - Running for too long

[izabel-degeus]

Hello,

I'd like to ask for help regarding the run of 'macsyfinder --db-type ordered_replicon --sequence-db myfile.fasta --models CasFinder all'.

I'm having trouble for my data to get past the 'Computing best solutions' part. It works fine for other models like defense-finder-models/DefenseFinder_1, and this seems to only take a fraction of seconds. However, for CasFinder, It runs for hours without finishing the job. I'd like to know what could be going wrong.

Thanks in advance.

[bneron]

Hi izabel, macsyfinder is know to not find solution in reasonable time in some case (it's describe in macsyfinder paper https://peercommunityjournal.org/item/10.24072/pcjournal.250.pdf "Assessing the performance of MacSyFinder v2") it depend of the complexity of the model, the accuracy of the profile and the genome. in some circumstances the space of solutions is too wide to be covered. But it's the first time that someone report this behavior with CasFinder model. Can you give me the out put of macsydata list and your input data to investigate what's happen on your case

best,

BErtrand