| add_cross_link_interaction(Int prot1, Int res1, Int prot2, Int res2, bool used_in_filter, Float linker_len) (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| add_ev_pair(Int prot1, Int prot2) (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| add_interaction(const Ints &ii, bool used_for_filter, float linker_len) (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| add_protein(std::string name, int start_res, int end_res, const std::string &mol_fn, const std::string &surface_fn, const std::string &ref_fn) | IMP::multifit::ProteomicsData | |
| add_protein(const ProteinRecordData &rec) | IMP::multifit::ProteomicsData | |
| clear_caches() | IMP::base::Object | virtual |
| do_destroy() | IMP::base::Object | virtual |
| ev_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| find(const std::string &name) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_check_level() const (defined in IMP::base::Object) | IMP::base::Object | |
| get_cross_link(int xlink_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_cross_link_length(int xlink_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_cross_link_part_of_filter(int xlink_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_end_res(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_ev_pair(int ev_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_interaction(int interaction_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_interaction_linker_length(int interaction_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_interaction_part_of_filter(int interaction_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_log_level() const (defined in IMP::base::Object) | IMP::base::Object | |
| get_name() const (defined in IMP::base::Object) | IMP::base::Object | |
| get_num_allowed_violated_cross_links() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_num_allowed_violated_ev() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_num_allowed_violated_interactions() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_number_of_cross_links() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_number_of_ev_pairs() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_number_of_interactions() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_number_of_proteins() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_protein_data(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_protein_filename(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_protein_name(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_reference_filename(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_start_res(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_surface_filename(int protein_ind) const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| get_type_name() const (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | virtual |
| get_version_info() const | IMP::multifit::ProteomicsData | virtual |
| interaction_in_filter_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| interaction_linker_len_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| interactions_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| NonCopyable() (defined in IMP::base::NonCopyable) | IMP::base::NonCopyable | protected |
| num_allowed_violated_ev_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| num_allowed_violated_interactions_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| num_allowed_violated_xlinks_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| Object(std::string name) | IMP::base::Object | protected |
| Object() | IMP::base::Object | protected |
| prot_data_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| prot_map_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| ProteomicsData() (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| set_check_level(CheckLevel l) | IMP::base::Object | |
| set_log_level(LogLevel l) | IMP::base::Object | |
| set_name(std::string name) (defined in IMP::base::Object) | IMP::base::Object | |
| set_num_allowed_violated_cross_links(int n) (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| set_num_allowed_violated_ev(int n) (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| set_num_allowed_violated_interactions(int n) (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | |
| set_was_used(bool tf) const | IMP::base::Object | |
| show(std::ostream &out=std::cout) const (defined in IMP::base::Object) | IMP::base::Object | |
| xlink_in_filter_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| xlink_len_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
| xlinks_ (defined in IMP::multifit::ProteomicsData) | IMP::multifit::ProteomicsData | protected |
