HI,
i tried to run orthofinder on 2 plant species protein Fastas, and just shortly after launching the job failed (only produced the orthologues tsv file, which is still good but i needed other data too) the error said it reached 10,000 datasets which is a galaxy limit… its my first time doing bioinformatics and discovering usegalaxy platforms, and honestly, can’t understand how the platform has such a limit that would break even the simplest runs on a tool? if i can’t even run orthofinder on two plant species what can that tool be used for? and shouldn’t this be specified on the tool help section especially so users can avoid running bigger jobs which can take up to a week and then fail, i am also running a similar job on 10 plant species on a different history and have been eagerly waiting for the results (its been over 3 days already) and if i knew about the dataset limit and how it would break the job even after a long time, i would have looked elsewhere and not wait around to see it fail (as i am expecting…hope it will survive but i am not sure it will), i strongly recommend adding the warning about the 10,000 datasets (which i didn’t even expect to come out from the analysis) which i assume would face mny plant analysis runs.