def get(self, request, pk):
instance = self.get_object(request, pk)
data = serialize(instance, **self.template)
for i in range(len(data['results'])):
data['results'][i]['variant'] = VariantResource.get(
request, data['results'][i]['variant_id'])
data['results'][i].pop('variant_id')
result_id = data['results'][i]['id']
data['results'][i]['num_assessments'] = Assessment.objects.filter(
sample_result__id=result_id,
sample_result__resultset__id=pk).count()
try:
assessment = Assessment.objects.get(
sample_result__id=result_id,
sample_result__resultset__id=pk,
user=request.user.id)
data['results'][i]['assessment'] = \
serialize(assessment, **api.templates.ResultAssessment)
except Assessment.DoesNotExist:
data['results'][i]['assessment'] = {}
return data
def get(self, request, pk):
instance = self.get_object(request, pk)
data = serialize(instance, **self.template)
for i in range(len(data['results'])):
data['results'][i]['variant'] = VariantResource.get(
request, data['results'][i]['variant_id'])
data['results'][i].pop('variant_id')
result_id = data['results'][i]['id']
data['results'][i]['num_assessments'] = Assessment.objects.filter(
sample_result__id=result_id,
sample_result__resultset__id=pk).count()
try:
assessment = Assessment.objects.get(
sample_result__id=result_id,
sample_result__resultset__id=pk,
user=request.user.id)
data['results'][i]['assessment'] = \
serialize(assessment, **api.templates.ResultAssessment)
except Assessment.DoesNotExist:
data['results'][i]['assessment'] = {}
return data
def _cache_data(self, request, pk, key):
related = ['sample', 'variant', 'genotype']
try:
result = self.model.objects.select_related(*related).get(pk=pk)
except self.model.DoesNotExist:
raise Http404
data = serialize(result, **self.template)
data['_links'] = {
'self': {
'rel': 'self',
'href': reverse('api:samples:variant',
kwargs={'pk': data['id']})
},
'sample': {
'rel': 'related',
'href': reverse('api:samples:sample',
kwargs={'pk': data['sample']['id']})
},
'variant': {
'rel': 'related',
'href': reverse('api:variants:variant',
kwargs={'pk': data['variant_id']}),
}
}
# Integrate the Variant resource data
data['variant'] = VariantResource.get(request, data['variant_id'])
data.pop('variant_id')
cache.set(key, data, timeout=api.CACHE_TIMEOUT)
return data
def _cache_data(self, request, pk, key):
uri = request.build_absolute_uri
related = ['sample', 'variant', 'genotype', 'score']
try:
result = self.model.objects.select_related(*related).get(pk=pk)
except self.model.DoesNotExist:
raise Http404
data = serialize(result, **self.template)
data['_links'] = {
'self': {
'rel':
'self',
'href':
uri(reverse('api:samples:variant', kwargs={'pk': data['id']}))
},
'sample': {
'rel':
'related',
'href':
uri(
reverse('api:samples:sample',
kwargs={'pk': data['sample']['id']}))
},
'variant': {
'rel':
'related',
'href':
uri(
reverse('api:variants:variant',
kwargs={'pk': data['variant_id']})),
}
}
# Integrate the Variant resource data
data['variant'] = VariantResource.get(request, data['variant_id'])
data.pop('variant_id')
try:
score = ResultScore.objects.get(result=result)
data['score'] = {
'score': score.score,
'rank': score.rank,
}
except ResultScore.DoesNotExist:
pass
cache.set(key, data, timeout=api.CACHE_TIMEOUT)
return data