Last change
on this file was
9530,
checked in by westram, 11 years ago
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- made global GLOBAL_PARS at least module-local
- renamed PARS_global → ArbParsimony
- made some functions members of ArbParsimony
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-
Property svn:eol-style set to
native
-
Property svn:keywords set to
Author Date Id Revision
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File size:
1.5 KB
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Line | |
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1 | // =============================================================== // |
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2 | // // |
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3 | // File : pars_main.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 PARS_MAIN_HXX |
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12 | #define PARS_MAIN_HXX |
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13 | |
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14 | #ifndef TREEDISPLAY_HXX |
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15 | #include <TreeDisplay.hxx> |
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16 | #endif |
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17 | |
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18 | #define MIN_SEQUENCE_LENGTH 20 |
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19 | |
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20 | class AW_root; |
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21 | class AWT_graphic_tree; |
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22 | class WeightedFilter; |
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23 | class AP_tree_nlen; |
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24 | class arb_progress; |
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25 | |
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26 | class ArbParsimony { |
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27 | AW_root *awr; |
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28 | AWT_graphic_tree *tree; |
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29 | |
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30 | public: |
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31 | ArbParsimony(AW_root *awroot) : awr(awroot), tree(NULL) {} |
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32 | |
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33 | AW_root *get_awroot() const { return awr; } |
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34 | AWT_graphic_tree *get_tree() const { return tree; } |
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35 | |
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36 | DEFINE_DOWNCAST_ACCESSORS(AP_tree_nlen, get_root_node, get_tree()->get_root_node()); |
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37 | |
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38 | void generate_tree(WeightedFilter *pars_weighted_filter); |
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39 | void optimize_tree(AP_tree *tree, arb_progress& progress); |
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40 | void kernighan_optimize_tree(AP_tree *at); |
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41 | }; |
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42 | |
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43 | void PARS_map_viewer(GBDATA *gb_species, AD_MAP_VIEWER_TYPE vtype); |
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44 | |
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45 | #else |
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46 | #error pars_main.hxx included twice |
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47 | #endif // PARS_MAIN_HXX |
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