filter-out EVIDENCE option needs to produce a file with the lines lines filtered with that evidence

[dougli1sqrd]

So on an ontobio-parse-assocs.py run, with the --filter-out IEA option, we should build a file with all the lines included, and one called group_name_noiea.gaf.

[cmungall]

how should we do this to avoid hardcoding ad-hoc assumptions about filenames?

How about adding a different parameter

--filter-from <CODE> <FILE>

e.g.

--filter-from IEA foo_noiea.gaf

[dougli1sqrd]

well we have a -o output file some/file/at/location/group.gaf. We can then just say for some --filter-out CODE we can write out a some/fileat/location/group_noCODE.gaf. Since if we don't include an output file, we probably similarly don't want a noCODE.gaf file.

[dougli1sqrd]

#66 Does this with the --filtered-file option