def releases(request):
release_id = request.GET.get('release_id')
if release_id:
releases = DataRelease.objects.filter(id=release_id).values().all()
else:
releases = DataRelease.objects.values().all()
latest = DataRelease.objects.order_by('-id')[0].id
change_types = {
x['name']: x['id']
for x in ChangeType.objects.values().all()
}
for release in releases:
variants = Variant.objects.filter(Data_Release_id=release['id'])
release['variants_added'] = variants.filter(
Change_Type_id=change_types['new']).count()
release['variants_classified'] = variants.filter(
Q(Change_Type_id=change_types['changed_classification'])
| Q(Change_Type_id=change_types['added_classification'])).count()
release['variants_modified'] = variants.filter(
Q(Change_Type_id=change_types['added_information'])
| Q(Change_Type_id=change_types['changed_information'])).count()
release['variants_deleted'] = variants.filter(
Change_Type_id=change_types['deleted']).count()
response = JsonResponse({"releases": list(releases), "latest": latest})
response['Access-Control-Allow-Origin'] = '*'
return response
def range_filter(reference_genome, variants, reference_name, start, end):
"""Filters variants by range depending on the reference_genome"""
if 'chr' in reference_name:
reference_name = reference_name.replace('chr', '')
variants = variants.filter(Chr=reference_name)
if reference_genome == 'hg36':
variants = variants.order_by('Hg36_Start')
variants = variants.filter(Hg36_Start__lt=end, Hg36_End__gt=start)
elif reference_genome == 'hg37':
variants = variants.order_by('Hg37_Start')
variants = variants.filter(Hg37_Start__lt=end, Hg37_End__gt=start)
elif reference_genome == 'hg38':
variants = variants.order_by('Hg38_Start')
variants = variants.filter(Hg38_Start__lt=end, Hg38_End__gt=start)
return variants
def range_filter(reference_genome, variants, reference_name, start, end):
"""Filters variants by range depending on the reference_genome"""
if 'chr' in reference_name:
reference_name = reference_name.replace('chr', '')
variants = variants.filter(Chr=reference_name)
if reference_genome == 'hg36':
variants = variants.order_by('Hg36_Start')
variants = variants.filter(Hg36_Start__lt=end, Hg36_End__gt=start)
elif reference_genome == 'hg37':
variants = variants.order_by('Hg37_Start')
variants = variants.filter(Hg37_Start__lt=end, Hg37_End__gt=start)
elif reference_genome == 'hg38':
variants = variants.order_by('Hg38_Start')
variants = variants.filter(Hg38_Start__lt=end, Hg38_End__gt=start)
return variants
def releases(request):
release_id = request.GET.get('release_id')
if release_id:
releases = DataRelease.objects.filter(id=release_id).values().all()
else:
releases = DataRelease.objects.values().all()
latest = DataRelease.objects.order_by('-id')[0].id
change_types = {x['name']: x['id'] for x in ChangeType.objects.values().all()}
for release in releases:
variants = Variant.objects.filter(Data_Release_id=release['id'])
release['variants_added'] = variants.filter(Change_Type_id=change_types['new']).count()
release['variants_classified'] = variants.filter(
Q(Change_Type_id=change_types['changed_classification']) | Q(Change_Type_id=change_types['added_classification'])).count()
release['variants_modified'] = variants.filter(
Q(Change_Type_id=change_types['added_information']) | Q(Change_Type_id=change_types['changed_information'])).count()
release['variants_deleted'] = variants.filter(Change_Type_id=change_types['deleted']).count()
response = JsonResponse({"releases": list(releases), "latest": latest})
response['Access-Control-Allow-Origin'] = '*'
return response
