def step_impl(context):
mapper = LeaderMapper()
match = HlaBGenotypeMatch(context.genotype_patient,
context.genotypes_donors)
match_status_info = mapper.get_match_status_info(match)
context.match_statuses = ",".join(
[subj["leader_match_status"] for subj in match_status_info])
def step_impl(context):
mapper = LeaderMapper()
match = HlaBGenotypeMatch(context.genotype_patient,
context.genotypes_donors)
match_status_info = mapper.get_match_status_info(match)
context.rank_list = ",".join(
[str(subj["rank"]) for subj in match_status_info])
def get(self, hla_genotype_input):
"""
returns leader-peptide allotype(s) of HLA-B allele(s)
"""
try:
hla_genotypes = [geno.strip() for geno in list(set(hla_genotype_input.split(',')))]
results = []
mapper = LeaderMapper()
for hla_genotype in hla_genotypes:
results.append(mapper.get_leader_genotype_info(hla_genotype))
return jsonify(results)
except Exception as e:
return e.__dict__, 500
def post(self):
"""
returns leader-peptide allotype(s) of HLA-B allele(s)log fie
"""
try:
hla_allotype_input = request.json['allele']
hla_allotypes = [allo.strip() for allo in list(set(hla_allotype_input.split(',')))]
results = []
mapper = LeaderMapper()
for hla_allotype in hla_allotypes:
results.append(mapper.get_leader_allotype_info(hla_allotype))
return jsonify(results)
except Exception as e:
return e.__dict__, 500
def step_impl(context):
mapper = LeaderMapper()
leader_info = mapper.get_leader_allotype_info(context.allotype)
context.leader_allotype = leader_info['common_leader']
known = leader_info['known'] or []
context.known = (", ".join(known[0:3]) or "None")
context.exceptions = (leader_info['exceptions'] and ", ".join(
[str(allotype) for allotype in leader_info['exceptions']]) or "None")
context.unknowns = (leader_info['unknowns'] and ", ".join(
[str(allotype) for allotype in leader_info['unknowns'][:3]]) or "None")
def step_impl(context):
mapper = LeaderMapper()
leader_info = mapper.get_leader_allotype_info(context.allotype)
context.leader_allotype = leader_info["common_leader"]
known = leader_info["known"] or []
context.known = ", ".join(known[0:3]) or "None"
context.exceptions = (
leader_info["exceptions"]
and ", ".join([str(allotype) for allotype in leader_info["exceptions"]])
or "None"
)
context.unknowns = (
leader_info["unknowns"]
and ", ".join([str(allotype) for allotype in leader_info["unknowns"][:3]])
or "None"
)
def post(self):
"""
returns leader match status of single HLA-B-mismatched transplants sorted via a three-letter nomenclature: (1) non-shared patient's mismatch, (2) non-shared donor's mismatch, (3) shared allotype.
"""
try:
patient = request.json['hla-b_genotype_patient']
donors = request.json['hla-b_genotype_donors']
match = HlaBGenotypeMatch(HlaBGenotype(patient['genotype'], id=patient['id']),
[HlaBGenotype(donor['genotype'], id=donor['id']) for donor in donors])
results = LeaderMapper().get_match_status_info(match)
return jsonify(results)
except Exception as e:
return e.__dict__, 500
def step_impl(context):
mapper = LeaderMapper()
leader_info = mapper.get_leader_genotype_info(context.genotype)
context.leader_genotype = str(
leader_info["hla-b_allotype_one"]["common_leader"]) + str(
leader_info["hla-b_allotype_two"]["common_leader"])
def get(self):
"""
returns dictionary of HLA-B allotypes and corresponding leader types.
"""
return jsonify(LeaderMapper().get_map())
def step_impl(context):
mapper = LeaderMapper()
match_status_info = mapper.get_match_status_info(context.genotype_match)[0]
context.match_status = match_status_info["leader_match_status"] or "invalid"
