def edit_family_cause(request, project_id, family_id):
error = None
project = get_object_or_404(Project, project_id=project_id)
family = get_object_or_404(Family, project=project, family_id=family_id)
if not project.can_admin(request.user):
raise PermissionDenied
causal_variants = list(CausalVariant.objects.filter(family=family))
if request.GET.get('variant'):
xpos, ref, alt = request.GET['variant'].split('|')
c = CausalVariant.objects.get_or_create(
family=family,
xpos=int(xpos),
ref=ref,
alt=alt,
)[0]
causal_variants = list(CausalVariant.objects.filter(family=family))
if request.method == 'POST':
form = EditFamilyCauseForm(family, request.POST)
if form.is_valid():
CausalVariant.objects.filter(family=family).delete()
for v_str in request.POST.getlist('variants'):
xpos, ref, alt = v_str.split('|')
CausalVariant.objects.create(
family=family,
xpos=int(xpos),
ref=ref,
alt=alt,
)
update_xbrowse_model(family,
analysis_status='S',
causal_inheritance_mode=form.
cleaned_data['inheritance_mode'])
return redirect('family_home',
project_id=project.project_id,
family_id=family.family_id)
else:
error = server_utils.form_error_string(form)
else:
form = EditFamilyForm(family)
variants = []
for c in causal_variants:
variants.append(
get_datastore(project).get_single_variant(project_id, family_id,
c.xpos, c.ref, c.alt))
return render(
request, 'family/edit_cause.html', {
'project': project,
'family': family,
'error': error,
'form': form,
'variants': [v.toJSON() for v in variants],
})
def edit_family_cause(request, project_id, family_id):
error = None
project = get_object_or_404(Project, project_id=project_id)
family = get_object_or_404(Family, project=project, family_id=family_id)
if not project.can_admin(request.user):
raise PermissionDenied
causal_variants = list(CausalVariant.objects.filter(family=family))
if request.GET.get('variant'):
xpos, ref, alt = request.GET['variant'].split('|')
c = CausalVariant.objects.get_or_create(
family=family,
xpos=int(xpos),
ref=ref,
alt=alt,
)[0]
causal_variants = list(CausalVariant.objects.filter(family=family))
if request.method == 'POST':
form = EditFamilyCauseForm(family, request.POST)
if form.is_valid():
CausalVariant.objects.filter(family=family).delete()
for v_str in request.POST.getlist('variants'):
xpos, ref, alt = v_str.split('|')
CausalVariant.objects.create(
family=family,
xpos=int(xpos),
ref=ref,
alt=alt,
)
update_xbrowse_model(
family,
analysis_status = 'S',
causal_inheritance_mode = form.cleaned_data['inheritance_mode'])
return redirect('family_home', project_id=project.project_id, family_id=family.family_id)
else:
error = server_utils.form_error_string(form)
else:
form = EditFamilyForm(family)
variants = []
for c in causal_variants:
variants.append(get_datastore(project).get_single_variant(project_id, family_id, c.xpos, c.ref, c.alt))
return render(request, 'family/edit_cause.html', {
'project': project,
'family': family,
'error': error,
'form': form,
'variants': [v.toJSON() for v in variants],
})