def mark_causative(institute_id,
case_name,
variant_id,
partial_causative=False):
"""Mark a variant as confirmed causative."""
institute_obj, case_obj = institute_and_case(store, institute_id,
case_name)
variant_obj = store.variant(variant_id)
user_obj = store.user(current_user.email)
link = url_for("variant.variant",
institute_id=institute_id,
case_name=case_name,
variant_id=variant_id)
if request.form["action"] == "ADD":
if "partial_causative" in request.form:
omim_terms = request.form.getlist("omim_select")
hpo_terms = request.form.getlist("hpo_select")
store.mark_partial_causative(institute_obj, case_obj, user_obj,
link, variant_obj, omim_terms,
hpo_terms)
else:
store.mark_causative(institute_obj, case_obj, user_obj, link,
variant_obj)
elif request.form["action"] == "DELETE":
if partial_causative == "True":
store.unmark_partial_causative(institute_obj, case_obj, user_obj,
link, variant_obj)
else:
store.unmark_causative(institute_obj, case_obj, user_obj, link,
variant_obj)
# send the user back to the case that was marked as solved
case_url = url_for(".case", institute_id=institute_id, case_name=case_name)
return redirect(request.referrer)
def mark_causative(institute_id, case_name, variant_id):
"""Mark a variant as confirmed causative."""
institute_obj, case_obj = institute_and_case(store, institute_id, case_name)
variant_obj = store.variant(variant_id)
user_obj = store.user(current_user.email)
link = url_for('variants.variant', institute_id=institute_id, case_name=case_name,
variant_id=variant_id)
if request.form['action'] == 'ADD':
store.mark_causative(institute_obj, case_obj, user_obj, link, variant_obj)
elif request.form['action'] == 'DELETE':
store.unmark_causative(institute_obj, case_obj, user_obj, link, variant_obj)
# send the user back to the case that was marked as solved
case_url = url_for('.case', institute_id=institute_id, case_name=case_name)
return redirect(case_url)
def mark_causative(institute_id, case_name, variant_id):
"""Mark a variant as confirmed causative."""
institute_obj, case_obj = institute_and_case(store, institute_id, case_name)
variant_obj = store.variant(variant_id)
user_obj = store.user(current_user.email)
link = url_for('variants.variant', institute_id=institute_id, case_name=case_name,
variant_id=variant_id)
if request.form['action'] == 'ADD':
store.mark_causative(institute_obj, case_obj, user_obj, link, variant_obj)
elif request.form['action'] == 'DELETE':
store.unmark_causative(institute_obj, case_obj, user_obj, link, variant_obj)
# send the user back to the case that was marked as solved
case_url = url_for('.case', institute_id=institute_id, case_name=case_name)
return redirect(case_url)
