ARB
NT_local_proto.h
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1 /* This file is generated by aisc_mkpt.
2  * Any changes you make here will be overwritten later!
3  */
4 
5 #ifndef NT_LOCAL_PROTO_H
6 #define NT_LOCAL_PROTO_H
7 
8 /* define ARB attributes: */
9 #ifndef ATTRIBUTES_H
10 # include <attributes.h>
11 #endif
12 
13 
14 /* AP_consensus.cxx */
15 
16 #ifndef AW_BASE_HXX
17 #include <aw_base.hxx>
18 #endif
19 
20 void AP_create_consensus_var(AW_root *aw_root, AW_default aw_def);
23 
24 /* AP_pos_var_pars.cxx */
26 
27 /* ColumnStat_2_gnuplot.cxx */
29 
30 /* NT_branchAnalysis.cxx */
31 
32 class TREE_canvas;
33 
35 
36 /* NT_cb.cxx */
37 
38 #ifndef ARBDB_BASE_H
39 #include <arbdb_base.h>
40 #endif
41 class TREE_canvas;
42 
44 AW_window *NT_create_select_tree_window(AW_root *awr, const char *awar_tree);
45 void NT_select_bottom_tree(AW_window *aww, const char *awar_tree);
49 
50 /* NT_concatenate.cxx */
54 
55 /* NT_dbrepair.cxx */
58 
59 /* NT_edconf.cxx */
63 void NT_start_editor_on_tree(AW_window *aww, int use_species_aside, TREE_canvas *ntw);
64 void NT_create_config_after_import(TREE_canvas *ntw, bool imported_from_scratch);
65 
66 /* NT_extern.cxx */
67 void NT_start(const char *arb_ntree_args, bool restart_with_new_ARB_PID);
68 void NT_exit(AW_window *aws, int exitcode);
69 void NT_restart(AW_root *aw_root, const char *arb_ntree_args);
72 void NT_fill_canvas_selection_list(class AW_selection_list *sellst, TREE_canvas *to_skip);
75 
76 /* NT_group_search.cxx */
77 TREE_canvas *NT_get_canvas_showing_tree(const char *tree_name, bool forceDisplay);
78 
79 /* NT_import.cxx */
81 
82 /* NT_join.cxx */
84 
85 /* NT_main.cxx */
87 
88 /* NT_shadeTree.cxx */
90 void NT_configure_treeShader(void);
91 
92 /* NT_sort.cxx */
96 
97 /* NT_sync_scroll.cxx */
99 
100 /* NT_taxonomy.cxx */
103 
104 /* NT_trackAliChanges.cxx */
105 void NT_create_trackAliChanges_Awars(AW_root *root, AW_default properties);
107 
108 /* NT_userland_fixes.cxx */
109 void NT_repair_userland_problems(void);
110 
111 /* NT_validManual.cxx */
112 void NT_createValidNamesAwars(AW_root *aw_root, AW_default aw_def);
114 
115 /* NT_validNames.cxx */
119 
120 /* ad_ext.cxx */
121 void NT_create_extendeds_vars(AW_root *aw_root, AW_default aw_def, GBDATA *gb_main);
123 
124 /* ad_spec.cxx */
127 
128 /* ad_transpro.cxx */
132 
133 /* ad_trees.cxx */
141 
142 #else
143 #error NT_local_proto.h included twice
144 #endif /* NT_LOCAL_PROTO_H */
AW_window * NT_create_sort_tree_by_other_tree_window(AW_root *aw_root, TREE_canvas *ntw)
Definition: ad_trees.cxx:1078
GB_ERROR NT_format_all_alignments(GBDATA *gb_main)
Definition: NT_main.cxx:52
const char * GB_ERROR
Definition: arb_core.h:25
AW_window * NT_create_branch_analysis_window(AW_root *aw_root, TREE_canvas *ntw)
void NT_restart(AW_root *aw_root, const char *arb_ntree_args)
Definition: NT_extern.cxx:353
void NT_install_treeShader(TREE_canvas *ntw, GBDATA *gb_main)
void NT_popup_configuration_admin(AW_window *aw_main, TREE_canvas *ntw)
Definition: NT_edconf.cxx:1247
void NT_deselect_group(AW_root *awr)
Definition: NT_extern.cxx:988
AW_window * NT_create_colstat_2_gnuplot_window(AW_root *root)
AW_window * NT_create_species_join_window(AW_root *root)
Definition: NT_join.cxx:143
void NT_create_compare_taxonomy_awars(AW_root *aw_root, AW_default props)
AW_window * NT_create_moveGroupInfo_window(AW_root *root)
Definition: ad_trees.cxx:683
void NT_create_multifurcate_tree_awars(AW_root *aw_root, AW_default props)
Definition: ad_trees.cxx:1097
void NT_create_sai_from_pfold(AW_window *aww)
Definition: ad_spec.cxx:116
AW_window * AP_create_max_freq_window(AW_root *aw_root)
AW_window * NT_create_syncScroll_window(AW_root *awr, TREE_canvas *ntw)
AW_window * NT_createConcatenationWindow(AW_root *aw_root)
AW_root * awr
Definition: awt_canvas.hxx:338
AW_window * NT_create_alignment_admin_window(AW_root *root, AW_window *aw_popmedown)
Definition: NT_cb.cxx:109
AW_window * NT_create_multifurcate_tree_window(AW_root *aw_root, TREE_canvas *ntw)
Definition: ad_trees.cxx:1116
AW_window * NT_create_compareTopologies_window(AW_root *root)
Definition: ad_trees.cxx:628
void NT_fill_canvas_selection_list(class AW_selection_list *sellst, TREE_canvas *to_skip)
Definition: NT_extern.cxx:966
AW_window * NT_create_select_alignment_window(AW_root *awr)
Definition: NT_cb.cxx:119
TREE_canvas * NT_get_canvas_showing_tree(const char *tree_name, bool forceDisplay)
AW_window * NT_create_resort_window(AW_root *awr)
Definition: NT_sort.cxx:209
AW_window * NT_create_extendeds_window(AW_root *aw_root)
Definition: ad_ext.cxx:318
void NT_createConcatenationAwars(AW_root *aw_root, AW_default aw_def, GBDATA *gb_main)
void NT_delete_mark_all_cb(AW_window *, TREE_canvas *ntw)
Definition: NT_cb.cxx:31
AW_window * AP_create_pos_var_pars_window(AW_root *root)
GB_ERROR NT_repair_DB(GBDATA *gb_main)
void AP_create_consensus_var(AW_root *aw_root, AW_default aw_def)
AW_window * NT_create_searchManuallyNames_window(AW_root *aw_root)
void NT_create_config_after_import(TREE_canvas *ntw, bool imported_from_scratch)
Definition: NT_edconf.cxx:1316
void NT_create_extendeds_vars(AW_root *aw_root, AW_default aw_def, GBDATA *gb_main)
Definition: ad_ext.cxx:286
AW_window * NT_create_consense_window(AW_root *aw_root)
Definition: ad_trees.cxx:940
void NT_create_twoTreeSelection(AW_window *aws)
Definition: ad_trees.cxx:566
TREE_canvas * NT_create_main_window(AW_root *aw_root)
Definition: NT_extern.cxx:1828
AW_window * AP_create_con_expert_window(AW_root *aw_root)
void NT_exit(AW_window *aws, int exitcode)
Definition: NT_extern.cxx:344
AW_window * NT_create_startEditorOnOldConfiguration_window(AW_root *awr)
Definition: NT_edconf.cxx:1265
AW_window * NT_createMergeSimilarSpeciesWindow(AW_root *aw_root)
void NT_create_trackAliChanges_Awars(AW_root *root, AW_default properties)
void NT_resort_data_by_phylogeny(AW_window *, TREE_canvas *ntw)
Definition: NT_sort.cxx:167
void NT_suggestValidNames(AW_window *)
void NT_activate_configMarkers_display(TREE_canvas *ntw)
Definition: NT_edconf.cxx:255
AW_window * NT_create_realign_dna_window(AW_root *root)
void NT_create_transpro_variables(AW_root *root, AW_default props)
void NT_deleteValidNames(AW_window *)
void NT_start(const char *arb_ntree_args, bool restart_with_new_ARB_PID)
Definition: NT_extern.cxx:331
void NT_importValidNames(AW_window *)
TREE_canvas * NT_get_canvas_by_index(int idx)
Definition: NT_extern.cxx:945
void NT_select_bottom_tree(AW_window *aww, const char *awar_tree)
Definition: NT_cb.cxx:92
void NT_createValidNamesAwars(AW_root *aw_root, AW_default aw_def)
void NT_start_editor_on_tree(AW_window *aww, int use_species_aside, TREE_canvas *ntw)
Definition: NT_edconf.cxx:1288
AW_window * NT_create_select_tree_window(AW_root *awr, const char *awar_tree)
Definition: NT_cb.cxx:60
TreeNode * NT_get_tree_root_of_canvas(TREE_canvas *ntw)
Definition: NT_extern.cxx:825
void NT_import_sequences(AW_window *aww, TREE_canvas *ntw)
Definition: NT_import.cxx:48
void NT_count_different_chars(AW_window *, GBDATA *gb_main)
Definition: ad_spec.cxx:30
AW_window * NT_create_compare_taxonomy_window(AW_root *aw_root, TREE_canvas *ntw)
GBDATA * gb_main
Definition: adname.cxx:33
AW_window * aww
Definition: awt_canvas.hxx:337
AW_window * NT_create_dna_2_pro_window(AW_root *root)
Definition: ad_transpro.cxx:72
void NT_create_alignment_vars(AW_root *aw_root, AW_default aw_def, GBDATA *gb_main)
Definition: NT_cb.cxx:98
AW_window * NT_create_trackAliChanges_window(AW_root *root)
void NT_repair_userland_problems(void)
void NT_configure_treeShader(void)
void NT_rerepair_DB(AW_window *, GBDATA *gb_main)
void NT_create_resort_awars(AW_root *awr, AW_default aw_def)
Definition: NT_sort.cxx:199