1 | // =============================================================== // |
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2 | // // |
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3 | // File : ali_pt.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 ALI_PT_HXX |
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12 | #define ALI_PT_HXX |
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13 | |
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14 | #ifndef ALI_OTHER_STUFF_HXX |
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15 | #include "ali_other_stuff.hxx" |
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16 | #endif |
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17 | #ifndef ALI_TLIST_HXX |
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18 | #include "ali_tlist.hxx" |
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19 | #endif |
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20 | #ifndef ALI_SEQUENCE_HXX |
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21 | #include "ali_sequence.hxx" |
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22 | #endif |
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23 | #ifndef CLIENT_H |
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24 | #include <client.h> |
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25 | #endif |
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26 | |
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27 | enum ALI_PT_MODE { ServerMode, SpecifiedMode }; |
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28 | |
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29 | struct ALI_PT_CONTEXT { |
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30 | char *servername; |
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31 | GBDATA *gb_main; |
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32 | |
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33 | int matches_min; |
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34 | float percent_min; |
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35 | unsigned long fam_list_max; |
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36 | unsigned long ext_list_max; |
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37 | |
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38 | char *use_specified_family; |
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39 | }; |
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40 | |
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41 | // class of family members |
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42 | struct ali_pt_member : virtual Noncopyable { |
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43 | char *name; |
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44 | int matches; |
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45 | |
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46 | ali_pt_member(char *speciesname, int number_of_matches) { |
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47 | name = speciesname; |
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48 | matches = number_of_matches; |
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49 | } |
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50 | ~ali_pt_member() { |
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51 | if (name) |
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52 | free((char *) name); |
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53 | } |
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54 | }; |
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55 | |
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56 | |
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57 | // Class for accessing the PT server |
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58 | class ALI_PT : virtual Noncopyable { |
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59 | private: |
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60 | ALI_PT_MODE mode; |
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61 | |
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62 | char *specified_family; |
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63 | unsigned long fam_list_max; |
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64 | unsigned long ext_list_max; |
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65 | float percent_min; |
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66 | int matches_min; |
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67 | |
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68 | aisc_com *link; |
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69 | T_PT_LOCS locs; |
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70 | T_PT_MAIN com; |
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71 | |
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72 | ALI_TLIST<ali_pt_member *> *family_list; |
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73 | ALI_TLIST<ali_pt_member *> *extension_list; |
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74 | |
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75 | |
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76 | int init_communication(); |
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77 | char *get_family_member(char *specified_family, unsigned long number); |
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78 | char *get_extension_member(char *specified_family, unsigned long number); |
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79 | int open(char *servername); |
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80 | void close(); |
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81 | |
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82 | public: |
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83 | ALI_PT(ALI_PT_CONTEXT *context); |
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84 | ~ALI_PT(); |
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85 | |
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86 | int find_family(ALI_SEQUENCE *sequence, int find_type = 1); |
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87 | |
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88 | ALI_TLIST<ali_pt_member *> *get_family_list(); |
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89 | ALI_TLIST<ali_pt_member *> *get_extension_list(); |
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90 | |
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91 | int first_family_(char **seq_name, int *matches); |
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92 | int next_family_(char **seq_name, int *matches); |
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93 | }; |
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94 | |
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95 | #else |
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96 | #error ali_pt.hxx included twice |
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97 | #endif // ALI_PT_HXX |
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