[BUG] - RGI bwt gene_mapping about hamronization HOT 3 OPEN

Hi @MicroSeq, thanks for flagging this and apologies about the delay been out of country. That parser was actually developed by the lead RGI-bwt so hopefully its just got a little out of date re: the type checking.

@raphenya could you have a look and let me know which numerical fields in RGI-bwt outputs are ever going to be multiple numbers in a list or ranges?

from hamronization.

Reference Allele(s) Identity to CARD Reference Protein (%)

also causes an issue as it is reported as a range in some instances: ValueError: Expected sequence_identity to be <class 'float'>, got '92.82 - 100.0'

I changed the expected values in hAMRonizedResult.py to str instead of int and float respectively. Not sure if this breaks anything downstream yet but it allows for execution on the output so far.

from hamronization.

@raphenya just a bump to see if you've had a change to look at this and can let me know which RGI-bwt fields can be ranges vs numerical values.

from hamronization.