def get(self, request, pk, format=None):
taxon = self.get_object(pk)
serializer = TaxonSerializer(taxon)
data = serializer.data
records = BiologicalCollectionRecord.objects.filter(
taxon_gbif_id=taxon
)
# Endemism
endemism_value = ''
endemism = records.values_list('endemism', flat=True).distinct()
if endemism:
endemism_value = endemism[0]
data['endemism'] = endemism_value
# Origins
origin_value = ''
origin = records.values_list('category', flat=True).distinct()
if origin:
for category in BiologicalCollectionRecord.CATEGORY_CHOICES:
if category[0] == origin[0]:
origin_value = category[1]
data['origin'] = origin_value
data['count'] = records.count()
return Response(data)
def get(self, request, pk, format=None):
taxon = self.get_object(pk)
serializer = TaxonSerializer(taxon)
data = serializer.data
records = BiologicalCollectionRecord.objects.filter(taxonomy=taxon)
# Endemism
if taxon.endemism:
data['endemism'] = taxon.endemism.name
# Origins
origin_value = ''
origin = records.values_list('category', flat=True).distinct()
if origin:
for category in BiologicalCollectionRecord.CATEGORY_CHOICES:
if category[0] == origin[0]:
origin_value = category[1]
data['origin'] = origin_value
data['count'] = records.count()
# Taxonomic rank tree
taxonomic_rank = self.get_taxonomic_rank_values(taxon)
for rank in taxonomic_rank:
data.update(rank)
return Response(data)
def get(self, request, *args):
taxon_group_id = request.GET.get('taxonGroup', '')
rank = request.GET.get('rank', '')
taxon_name = request.GET.get('taxon', '')
if not taxon_group_id:
raise Http404('Missing taxon group id')
try:
taxon_group = TaxonGroup.objects.get(id=taxon_group_id)
except TaxonGroup.DoesNotExist:
raise Http404('Taxon group does not exist')
taxon_list = taxon_group.taxonomies.all()
if rank:
taxon_list = taxon_list.filter(rank=rank)
if taxon_name:
taxon_list = taxon_list.filter(
canonical_name__icontains=taxon_name)
page = self.paginate_queryset(taxon_list)
if page is not None:
serializer = self.get_paginated_response(
TaxonSerializer(page, many=True).data)
else:
serializer = TaxonSerializer(taxon_list, many=True)
return Response(serializer.data)
def get(self, request, pk, format=None):
taxon = self.get_object(pk)
serializer = TaxonSerializer(taxon)
data = serializer.data
records = BiologicalCollectionRecord.objects.filter(validated=True,
taxonomy=taxon)
# Endemism
if taxon.endemism:
data['endemism'] = taxon.endemism.name
# Origins
origin_value = ''
origin = records.values_list('category', flat=True).distinct()
if origin:
for category in BiologicalCollectionRecord.CATEGORY_CHOICES:
if category[0] == origin[0]:
origin_value = category[1]
data['origin'] = origin_value
data['count'] = records.count()
data['total_sites'] = records.distinct('site').count()
# Taxonomic rank tree
taxonomic_rank = self.get_taxonomic_rank_values(taxon)
for rank in taxonomic_rank:
data.update(rank)
common_names = []
# Common name
if taxon.vernacular_names.filter(language='eng').exists():
common_names = list(
taxon.vernacular_names.all().filter(language='eng').values())
elif taxon.vernacular_names.all().values().exists():
common_names = list(taxon.vernacular_names.all().values())
if len(common_names) == 0:
data['common_name'] = 'Unknown'
else:
data['common_name'] = str(common_names[0]['name']).capitalize()
return Response(data)
def get(self, request, pk, format=None):
taxon = self.get_object(pk)
serializer = TaxonSerializer(taxon)
return Response(serializer.data)
def get_taxonomy(self, obj):
return TaxonSerializer(obj.taxonomy).data