zilevsky

In alembic/env.py or migrations/env.py:
def include_object(object, name, type_, reflected, compare_to):
    if (type_ == "table" and object.schema == "exclude_from_migrations"):
        return False
    else:
       return True

def run_migrations_online():
   ....
   context.configure(connection=connection,
                  target_metadata=target_metadata,
                  include_object = include_object,
                  process_revision_directives=process_revision_directives,
                  **current_app.extensions['migrate'].configure_args)
   ...

class MyClass(db.Model):
__tablename__='my_class'
__table_args__ = {"schema": "exclude_from_migrations"}