| 1 | // =========================================================== // |
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| 2 | // // |
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| 3 | // File : awt_tree_cmp.hxx // |
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| 4 | // Purpose : // |
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| 5 | // // |
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| 6 | // Institute of Microbiology (Technical University Munich) // |
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| 7 | // http://www.arb-home.de/ // |
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| 8 | // // |
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| 9 | // =========================================================== // |
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| 10 | |
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| 11 | #ifndef AWT_TREE_CMP_HXX |
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| 12 | #define AWT_TREE_CMP_HXX |
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| 13 | |
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| 14 | |
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| 15 | class AP_tree; |
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| 16 | class AWT_species_set; |
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| 17 | |
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| 18 | class AWT_species_set_root { |
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| 19 | long species_counter; |
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| 20 | long nsets; |
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| 21 | AWT_species_set **sets; |
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| 22 | int diff_bits[256]; |
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| 23 | |
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| 24 | public: |
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| 25 | long mstatus; |
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| 26 | long status; // temporary variables for status |
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| 27 | long nspecies; |
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| 28 | GBDATA *gb_main; |
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| 29 | GB_HASH *species_hash; |
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| 30 | |
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| 31 | // REAL PUBLIC |
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| 32 | AWT_species_set_root(GBDATA *gb_main,long nspecies); |
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| 33 | ~AWT_species_set_root(); |
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| 34 | |
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| 35 | void add(const char *species_name); // max nspecies |
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| 36 | void add(AWT_species_set *set); // max 2 * nspecies !!! |
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| 37 | AWT_species_set *search(AWT_species_set *set,long *best_cost); |
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| 38 | int search(AWT_species_set *set,FILE *log_file); // set's best_cost & best_node |
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| 39 | GB_ERROR copy_node_infos(FILE *log, bool delete_old_nodes, bool nodes_with_marked_only); |
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| 40 | AWT_species_set *find_best_matches_info(AP_tree *tree_source, FILE *log, bool setinner_node); |
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| 41 | AWT_species_set *move_tree_2_ssr(AP_tree *node); |
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| 42 | }; |
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| 43 | |
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| 44 | |
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| 45 | class AWT_species_set { |
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| 46 | public: |
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| 47 | unsigned char *bitstring; |
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| 48 | int unfound_species_count; |
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| 49 | double best_cost; |
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| 50 | AP_tree *best_node; |
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| 51 | AP_tree *node; |
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| 52 | // REAL PUBLIC: |
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| 53 | |
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| 54 | AWT_species_set(AP_tree *node,AWT_species_set_root *ssr,char *species_name); |
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| 55 | AWT_species_set(AP_tree *node,AWT_species_set_root *ssr,AWT_species_set *l,AWT_species_set *r); // or of two subsets |
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| 56 | ~AWT_species_set(); |
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| 57 | }; |
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| 58 | |
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| 59 | |
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| 60 | void AWT_move_info(GBDATA *gb_main, const char *tree_source,const char *tree_dest,const char *log_file, bool compare_node_info, bool overwrite_old_nodes, bool nodes_with_marked_only); |
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| 61 | |
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| 62 | #else |
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| 63 | #error awt_tree_cmp.hxx included twice |
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| 64 | #endif // AWT_TREE_CMP_HXX |
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