def sv_variant(institute_id, case_name, variant_id):
"""Display a specific structural variant."""
data = variant_controller(store, institute_id, case_name, variant_id, add_other=False)
if current_app.config.get("LOQUSDB_SETTINGS"):
LOG.debug("Fetching loqusdb information for %s", variant_id)
data["observations"] = observations(store, loqusdb, data["case"], data["variant"])
return data
def str_variant(institute_id, case_name, variant_id):
"""Display a specific STR variant."""
data = variant_controller(
store,
institute_id,
case_name,
variant_id,
add_other=False,
get_overlapping=False,
)
return data
def variant(institute_id, case_name, variant_id):
"""Display a specific SNV variant."""
LOG.debug("Variants view requesting data for variant %s", variant_id)
data = variant_controller(store, institute_id, case_name, variant_id=variant_id)
if data is None:
LOG.warning(
"An error occurred: variants view requesting data for variant {}".format(variant_id)
)
flash("An error occurred while retrieving variant object", "danger")
return redirect(request.referrer)
if current_app.config.get("LOQUSDB_SETTINGS"):
LOG.debug("Fetching loqusdb information for %s", variant_id)
data["observations"] = observations(store, loqusdb, data["case"], data["variant"])
return data
def str_variant(institute_id, case_name, variant_id):
"""Display a specific STR variant."""
data = variant_controller(
store,
institute_id,
case_name,
variant_id,
add_other=False,
get_overlapping=False,
)
if data is None:
flash("An error occurred while retrieving variant object", "danger")
return redirect(
url_for("variants.str_variants",
institute_id=institute_id,
case_name=case_name))
return data
def sv_variant(institute_id, case_name, variant_id):
"""Display a specific structural variant."""
data = variant_controller(store,
institute_id,
case_name,
variant_id,
add_other=False)
if data is None:
flash("An error occurred while retrieving variant object", "danger")
return redirect(
url_for("variants.sv_variants",
institute_id=institute_id,
case_name=case_name))
if current_app.config.get("LOQUSDB_SETTINGS"):
LOG.debug("Fetching loqusdb information for %s", variant_id)
data["observations"] = observations(store, loqusdb, data["case"],
data["variant"])
return data