Open ctb opened 5 years ago
I tried
./run_eelpond examples/nema.yaml quantify diffexp
and it yelled at me about missing input files, so then I tried
./run_eelpond examples/nema.yaml assemble quantify diffexp
which seems to be appropriately making use of the preexisting assembly. Yay!
I think the desired behavior is to produce better error messages and suggestions. Doing this in a modular way is key - I don't think run_eelpond
should have this error checking in it directly! Maybe we could put in something that when a particular rule file is included, it has some high level checks that it runs, or maybe that should be connected in some way to the higher level workflows mentioned in pipeline_defaults.yaml
?
assemble quantify diffexp
worked!
I first ran:
which completed successfully, and then ran:
which did... nothing?
The output did include
but that directory doesn't exist.