def create_feature_from_location(record: Record,
location: FeatureLocation,
counter: int = 1,
label: Optional[str] = None) -> CDSFeature:
""" Creates a CDS feature covering the provided location.
Arguments:
record: The Record the CDSFeature will belong to, used to generate
the feature translation
location: The FeatureLocation specifying the location of the CDSFeature
counter: An integer to use to format a default label 'allorf' with,
used only if label not provided
label: The locus tag, protein id, and gene name to use for the new
CDSFeature
Returns:
The CDSFeature created.
"""
if label is None:
label = 'allorf%03d' % counter
feature = CDSFeature(
location,
str(record.get_aa_translation_from_location(location)),
locus_tag=label,
protein_id=label,
gene=label)
feature.created_by_antismash = True
return feature
def create_feature_from_location(record: Record, location: FeatureLocation,
label: Optional[str] = None) -> CDSFeature:
""" Creates a CDS feature covering the provided location.
Arguments:
record: The Record the CDSFeature will belong to, used to generate
the feature translation
location: The FeatureLocation specifying the location of the CDSFeature
label: The locus tag, protein id, and gene name to use for the new
CDSFeature
Returns:
The CDSFeature created.
"""
if label is None:
digits = len(str(len(record)))
label = 'allorf_{start:0{digits}}_{end:0{digits}}'.format(
digits=digits, start=(location.start + 1), end=location.end
)
feature = CDSFeature(location, str(record.get_aa_translation_from_location(location)),
locus_tag=label, protein_id=label, gene=label)
feature.created_by_antismash = True
return feature
