def _report_object_exists(typename, **kwargs):
"""
Generate standard log message + request error for warning:
Trying to POST an object that already exists
:param typename: name of type involved
:param **kwargs: arbitrary keyword parameters
:return: Connexion Error() type to return
"""
report = typename + ': Attempt to modify with a POST'
message = 'Attempt to modify '+typename+' with a POST'
logger().warning(struct_log(action=report, **kwargs))
return Error(message=message, code=405)
def _report_conversion_error(typename, exception, **kwargs):
"""
Generate standard log message + request error for warning:
Trying to POST an object that already exists
:param typename: name of type involved
:param exception: exception thrown by ORM
:param **kwargs: arbitrary keyword parameters
:return: Connexion Error() type to return
"""
report = 'Could not convert '+typename+' to ORM model'
message = typename + ': failed validation - could not convert to internal representation'
logger().error(struct_log(action=report, exception=str(exception), **kwargs))
return Error(message=message, code=400)
def _report_update_failed(typename, exception, **kwargs):
"""
Generate standard log message + request error for error:
Internal error performing update (PUT)
:param typename: name of type involved
:param exception: exception thrown by ORM
:param **kwargs: arbitrary keyword parameters
:return: Connexion Error() type to return
"""
report = typename + ' updated failed'
message = 'Internal error updating '+typename+'s'
logger().error(struct_log(action=report, exception=str(exception), **kwargs))
return Error(message=message, code=500)
def _report_write_error(typename, exception, **kwargs):
"""
Generate standard log message + request error for error:
Error writing to DB
:param typename: name of type involved
:param exception: exception thrown by ORM
:param **kwargs: arbitrary keyword parameters
:return: Connexion Error() type to return
"""
report = 'Internal error writing '+typename+' to DB'
message = typename + ': internal error saving ORM object to DB'
logger().error(struct_log(action=report, exception=str(exception), **kwargs))
err = Error(message=message, code=500)
return err
def post_variant(variant):
"""
Add a new variant
"""
db_session = orm.get_session()
# Does this variant already exist, by ID or by content?
try:
found_variant = variant_exists(**variant)
except orm.ORMException as e:
err = _report_search_failed('variant', e, **variant)
return err
if found_variant:
err = _report_object_exists('variant', **variant)
return err, 405
vid = uuid.uuid1()
variant['id'] = vid
variant['created'] = datetime.datetime.utcnow()
variant['updated'] = variant['created']
# convert to ORM representation
try:
orm_variant = models.Variant(**variant)
except orm.ORMException as e:
err = _report_conversion_error('variant', e, **variant)
return err, 400
try:
db_session.add(orm_variant)
db_session.commit()
except orm.ORMException as e:
err = _report_write_error('variant', e, **variant)
return err, 400
logger().info(struct_log(action='variant_created', **variant))
return variant, 201, {'Location': BASEPATH+'/variants/'+str(vid)}
def post_call(call):
"""
Add a new call
"""
db_session = orm.get_session()
try:
found_call = call_exists(**call)
except orm.ORMException as e:
err = _report_search_failed('call', e, **call)
return err
if found_call:
err = _report_object_exists('call', **call)
return err, 405
cid = uuid.uuid1()
call['id'] = cid
call['created'] = datetime.datetime.utcnow()
call['updated'] = call['created']
try:
orm_call = orm.models.Call(**call)
except orm.ORMException as e:
err = _report_conversion_error('call', e, **call)
return err
try:
db_session.add(orm_call)
db_session.commit()
except orm.ORMException as e:
err = _report_write_error('call', e, **call)
return err
logger().info(struct_log(action='call_post', status='created', call_id=str(cid), **call)) # noqa501
return call, 201, {'Location': BASEPATH+'/calls/'+str(cid)}
def post_individual(individual):
"""
Add a new individual
"""
db_session = orm.get_session()
try:
found_individual = individual_exists(db_session, **individual)
except orm.ORMException as e:
err = _report_search_failed('variant', e, **individual)
return err
if found_individual:
err = _report_object_exists('individual', **individual)
return err, 405
iid = uuid.uuid1()
individual['id'] = iid
individual['created'] = datetime.datetime.utcnow()
individual['updated'] = individual['created']
try:
orm_ind = orm.models.Individual(**individual)
except orm.ORMException as e:
err = _report_conversion_error('individual', e, **individual)
return err, 400
try:
db_session.add(orm_ind)
db_session.commit()
except orm.ORMException as e:
err = _report_write_error('individual', e, **individual)
return err, 500
logger().info(struct_log(action='individual_created',
ind_id=str(iid), **individual))
return individual, 201, {'Location': BASEPATH+'/individuals/'+str(iid)}