AbNumber
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ANARCI import
I had issues installing AbNumber due to missing HMMER dependency on Mac M3, which I solved by the following workaround:
Instal hmmer
Install anarci via: git clone https://github.com/oxpig/ANARCI.git
and follow instructions on github
Install abnumber via: pip install git+https://github.com/prihoda/abnumber
However, when importing abnumber I get this error
>>> import abnumber
ANARCI module not available. Please install it separately or install AbNumber through Bioconda
See: https://abnumber.readthedocs.io/
ANARCI seems to be working, but has different import name than specified in https://github.com/prihoda/AbNumber/blob/c3e869a8f0564e98d0d6cd6ce42909893fdbb238/abnumber/common.py#L7 The below namely works:
# Command
from ANARCI import anarci
anarci(
[(f'id{1}', 'AATATATATAT')],
scheme='imgt',
allowed_species=None,
)
#Out:
([None],
[None],
[[['id',
'description',
'evalue',
'bitscore',
'bias',
'query_start',
'query_end']]])
So maybe https://github.com/prihoda/AbNumber/blob/c3e869a8f0564e98d0d6cd6ce42909893fdbb238/abnumber/common.py#L7 should be changed to from ANARCI import anarci