References basic::options::OptionKeys::sewing::assembly_type, basic::options::OptionKeys::sewing::box_length, utility::io::oc::cerr, demo.D060_Folding::counter, basic::options::OptionKeys::inout::dbms::database_name, basic::Tracer::Debug, basic::options::OptionKeys::sewing::do_not_remove_connection_inconsistencies, utility::options::OptionKeys::options::exit, utility::io::izstream::getline(), utility::io::izstream::good(), basic::options::OptionKeys::sewing::hash_tag_only_terminal_Es, devel::init(), basic::options::OptionKeys::in::file::l, basic::options::OptionKeys::sewing::max_clash_score, basic::options::OptionKeys::sewing::max_models, min(), basic::options::OptionKeys::sewing::min_hash_score, basic::options::OptionKeys::sewing::mode, basic::options::OptionKeys::sewing::model_file_name, utility::mpi_nprocs(), utility::mpi_rank(), name, basic::options::OptionKeys::sewing::num_procs, basic::options::OptionKeys::sewing::num_segments_to_match, basic::options::option, options, app.surface_docking.surface_docking::pose, basic::options::OptionKeys::sewing::rank, utility::receive_integer_from_anyone(), utility::receive_integer_from_node(), basic::options::OptionKeys::sewing::score_file_name, basic::options::OptionKeys::mh::path::scores, utility::send_integer_to_node(), basic::options::OptionKeys::sewing::sewing, utility::excn::EXCN_Base::show(), basic::options::OptionKeys::sewing::starting_model, utility::to_string(), basic::options::TR(), basic::options::OptionKeys::inout::dbms::user, utility_exit_with_message, and value.