1 | #include <stdio.h> |
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2 | #include <stdlib.h> |
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3 | #include <string.h> |
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4 | #include <arbdb.h> |
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5 | #include <arbdbt.h> |
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6 | |
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7 | #include <aw_root.hxx> |
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8 | #include <aw_device.hxx> |
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9 | #include <aw_window.hxx> |
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10 | #include <aw_preset.hxx> |
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11 | #include <aw_awars.hxx> |
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12 | #include <aw_global.hxx> |
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13 | #include <awt.hxx> |
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14 | #include <AW_rename.hxx> |
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15 | |
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16 | #include "merge.hxx" |
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17 | |
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18 | GBDATA *GLOBAL_gb_merge = NULL; |
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19 | GBDATA *GLOBAL_gb_dest = NULL; |
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20 | |
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21 | void MG_exit(AW_window *aww, AW_CL cl_reload_db2, AW_CL) { |
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22 | int reload_db2 = (int)cl_reload_db2; |
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23 | if (GLOBAL_gb_main) { // running inside normal ARB (aka import) |
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24 | mg_assert(reload_db2 == 0); |
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25 | aww->hide(); |
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26 | } |
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27 | else { |
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28 | if (reload_db2) { |
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29 | char *db2_name = aww->get_root()->awar(AWAR_MAIN_DB"/file_name")->read_string(); |
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30 | const char *cmd = GBS_global_string("arb_ntree '%s' &", db2_name); |
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31 | int result = system(cmd); |
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32 | if (result != 0) fprintf(stderr, "Error running '%s'\n", cmd); |
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33 | free(db2_name); |
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34 | } |
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35 | exit (0); |
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36 | } |
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37 | } |
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38 | |
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39 | bool mg_save_enabled = true; |
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40 | |
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41 | void MG_save_merge_cb(AW_window *aww) |
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42 | { |
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43 | char *name = aww->get_root()->awar(AWAR_MERGE_DB"/file_name")->read_string(); |
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44 | GB_begin_transaction(GLOBAL_gb_merge); |
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45 | GBT_check_data(GLOBAL_gb_merge,0); |
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46 | GB_commit_transaction(GLOBAL_gb_merge); |
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47 | GB_ERROR error = GB_save(GLOBAL_gb_merge, name, "b"); |
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48 | if (error) aw_message(error); |
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49 | else awt_refresh_selection_box(aww->get_root(), AWAR_MERGE_DB); |
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50 | delete name; |
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51 | } |
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52 | |
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53 | AW_window *MG_save_source_cb(AW_root *aw_root, char *base_name) |
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54 | { |
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55 | static AW_window_simple *aws = 0; |
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56 | if (aws) return (AW_window *)aws; |
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57 | |
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58 | aws = new AW_window_simple; |
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59 | aws->init( aw_root, "MERGE_SAVE_DB_I", "SAVE ARB DB I"); |
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60 | aws->load_xfig("sel_box.fig"); |
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61 | |
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62 | aws->at("close");aws->callback((AW_CB0)AW_POPDOWN); |
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63 | aws->create_button("CLOSE","CLOSE","C"); |
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64 | |
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65 | aws->at("save");aws->callback(MG_save_merge_cb); |
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66 | aws->create_button("SAVE","SAVE","S"); |
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67 | |
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68 | aws->callback( (AW_CB0)AW_POPDOWN); |
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69 | aws->at("cancel"); |
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70 | aws->create_button("CLOSE","CANCEL","C"); |
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71 | |
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72 | awt_create_selection_box((AW_window *)aws,base_name); |
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73 | |
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74 | return (AW_window *)aws; |
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75 | } |
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76 | |
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77 | void MG_save_cb(AW_window *aww) |
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78 | { |
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79 | char *name = aww->get_root()->awar(AWAR_MAIN_DB"/file_name")->read_string(); |
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80 | char *type = aww->get_root()->awar(AWAR_MAIN_DB"/type")->read_string(); |
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81 | aw_openstatus("Saving database"); |
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82 | GB_begin_transaction(GLOBAL_gb_dest); |
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83 | GBT_check_data(GLOBAL_gb_dest,0); |
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84 | GB_commit_transaction(GLOBAL_gb_dest); |
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85 | GB_ERROR error = GB_save(GLOBAL_gb_dest, name, type); |
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86 | aw_closestatus(); |
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87 | if (error) aw_message(error); |
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88 | else awt_refresh_selection_box(aww->get_root(), AWAR_MAIN_DB); |
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89 | delete name; |
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90 | delete type; |
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91 | } |
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92 | |
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93 | AW_window *MG_save_result_cb(AW_root *aw_root, char *base_name) |
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94 | { |
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95 | static AW_window_simple *aws = 0; |
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96 | if (aws) return (AW_window *)aws; |
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97 | aw_root->awar_string( AWAR_DB_COMMENT, "<no description>", GLOBAL_gb_dest); |
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98 | |
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99 | aws = new AW_window_simple; |
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100 | aws->init( aw_root, "MERGE_SAVE_WHOLE_DB", "SAVE WHOLE DATABASE"); |
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101 | aws->load_xfig("sel_box.fig"); |
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102 | |
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103 | aws->at("close");aws->callback((AW_CB0)AW_POPDOWN); |
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104 | aws->create_button("CLOSE","CLOSE","C"); |
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105 | |
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106 | awt_create_selection_box((AW_window *)aws,base_name); |
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107 | |
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108 | aws->at("user"); |
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109 | aws->label("Type"); |
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110 | aws->create_option_menu(AWAR_MAIN_DB"/type"); |
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111 | aws->insert_option("Binary","B","b"); |
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112 | aws->insert_option("Bin (with FastLoad File)","f","bm"); |
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113 | aws->update_option_menu(); |
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114 | |
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115 | aws->at("user2"); |
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116 | aws->create_button(0,"Database Description"); |
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117 | |
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118 | |
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119 | |
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120 | aws->callback( (AW_CB0)AW_POPDOWN); |
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121 | aws->at("cancel4"); |
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122 | aws->create_button("CLOSE","CANCEL","C"); |
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123 | |
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124 | aws->callback( (AW_CB0)AW_POPDOWN); |
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125 | aws->at("cancel4"); |
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126 | aws->create_button("CLOSE", "CANCEL","C"); |
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127 | |
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128 | aws->at("save4");aws->callback(MG_save_cb); |
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129 | aws->create_button("SAVE","SAVE","S"); |
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130 | |
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131 | |
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132 | aws->at("user3"); |
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133 | aws->create_text_field(AWAR_DB_COMMENT); |
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134 | |
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135 | return (AW_window *)aws; |
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136 | } |
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137 | |
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138 | void |
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139 | MG_save_quick_cb(AW_window *aww) |
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140 | { |
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141 | char *name = aww->get_root()->awar(AWAR_MAIN_DB"/file_name")->read_string(); |
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142 | aw_openstatus("Saving database"); |
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143 | GB_begin_transaction(GLOBAL_gb_dest); |
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144 | GBT_check_data(GLOBAL_gb_dest,0); |
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145 | GB_commit_transaction(GLOBAL_gb_dest); |
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146 | GB_ERROR error = GB_save_quick_as(GLOBAL_gb_dest, name); |
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147 | aw_closestatus(); |
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148 | if (error) aw_message(error); |
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149 | else awt_refresh_selection_box(aww->get_root(), AWAR_MAIN_DB); |
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150 | delete name; |
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151 | } |
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152 | |
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153 | AW_window *MG_save_quick_result_cb(AW_root *aw_root, char *base_name) |
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154 | { |
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155 | static AW_window_simple *aws = 0; |
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156 | if (aws) return (AW_window *)aws; |
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157 | |
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158 | aws = new AW_window_simple; |
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159 | aws->init( aw_root, "SAVE_CHANGES_OF_DB_II_AS", "SAVE CHANGES TO DB2 AS"); |
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160 | aws->load_xfig("sel_box.fig"); |
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161 | |
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162 | aws->at("close");aws->callback((AW_CB0)AW_POPDOWN); |
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163 | aws->create_button("CLOSE","CLOSE","C"); |
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164 | |
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165 | aws->at("save");aws->callback(MG_save_quick_cb); |
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166 | aws->create_button("SAVE","SAVE","S"); |
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167 | |
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168 | awt_create_selection_box((AW_window *)aws,base_name); |
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169 | |
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170 | return (AW_window *)aws; |
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171 | } |
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172 | |
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173 | |
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174 | static void MG_create_db_dependent_awars(AW_root *aw_root, GBDATA *gb_merge, GBDATA *gb_dest) { |
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175 | MG_create_db_dependent_rename_awars(aw_root, gb_merge, gb_dest); |
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176 | } |
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177 | |
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178 | static void MG_popup_if_renamed(AW_window *aww, AW_CL cl_create_window) { |
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179 | GB_ERROR error = MG_expect_renamed(); |
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180 | if (!error) { |
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181 | static GB_HASHI *popup_hash = GBS_create_hashi(10); |
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182 | AW_window *aw_popup = (AW_window*)GBS_read_hashi(popup_hash, cl_create_window); |
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183 | |
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184 | if (!aw_popup) { // window has not been created yet |
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185 | typedef AW_window *(*window_creator)(AW_root *); |
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186 | window_creator create_window = (window_creator)cl_create_window; |
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187 | aw_popup = create_window(aww->get_root()); |
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188 | GBS_write_hashi(popup_hash, cl_create_window, (long)aw_popup); |
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189 | } |
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190 | |
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191 | aw_popup->show(); |
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192 | } |
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193 | |
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194 | if (error) aw_message(error); |
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195 | } |
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196 | |
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197 | // uses gb_dest and gb_merge |
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198 | void MG_start_cb2(AW_window *aww,AW_root *aw_root, bool save_enabled, bool dest_is_new) { |
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199 | GB_ERROR error = 0; |
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200 | |
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201 | mg_save_enabled = save_enabled; |
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202 | |
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203 | { |
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204 | GB_transaction ta_merge(GLOBAL_gb_merge); |
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205 | GB_transaction ta_dest(GLOBAL_gb_dest); |
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206 | |
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207 | GBT_mark_all(GLOBAL_gb_dest,0); // unmark everything in dest DB |
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208 | |
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209 | // set DB-type to non-genome (compatibility to old DBs) |
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210 | // when exporting to new DB (dest_is_new == true) -> use DB-type of merge-DB |
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211 | bool merge_is_genome = GEN_is_genome_db(GLOBAL_gb_merge, 0); |
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212 | |
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213 | int dest_genome = 0; |
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214 | if (dest_is_new) { |
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215 | if (merge_is_genome) { |
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216 | dest_genome = aw_message("Enter destination DB-type", "Normal,Genome"); |
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217 | } |
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218 | else { |
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219 | dest_genome = 0; // from non-genome -> to non-genome |
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220 | } |
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221 | } |
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222 | |
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223 | GEN_is_genome_db(GLOBAL_gb_dest, dest_genome); // does not change anything if type is already defined |
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224 | } |
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225 | |
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226 | if (!error) { |
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227 | GB_transaction ta_merge(GLOBAL_gb_merge); |
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228 | GB_transaction ta_dest(GLOBAL_gb_dest); |
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229 | |
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230 | GB_change_my_security(GLOBAL_gb_dest,6,"passwd"); |
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231 | GB_change_my_security(GLOBAL_gb_merge,6,"passwd"); |
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232 | if (aww) aww->hide(); |
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233 | |
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234 | MG_create_db_dependent_awars(aw_root, GLOBAL_gb_merge, GLOBAL_gb_dest); |
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235 | } |
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236 | |
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237 | if (!error) { |
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238 | GB_transaction ta_merge(GLOBAL_gb_merge); |
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239 | GB_transaction ta_dest(GLOBAL_gb_dest); |
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240 | |
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241 | MG_set_renamed(false, aw_root, "Not renamed yet."); |
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242 | |
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243 | AW_window_simple_menu *awm = new AW_window_simple_menu(); |
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244 | awm->init(aw_root,"ARB_MERGE", "ARB_MERGE"); |
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245 | awm->load_xfig("merge/main.fig"); |
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246 | |
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247 | awm->create_menu( 0, "File", "F", "merge_file.hlp", AWM_ALL ); |
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248 | #if defined(DEBUG) |
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249 | awm->insert_menu_topic("db_browser", "Browse loaded database(s)", "", "db_browser.hlp", AWM_ALL, AW_POPUP, (AW_CL)AWT_create_db_browser, 0); |
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250 | awm->insert_separator(); |
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251 | #endif // DEBUG |
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252 | if (mg_save_enabled && GB_read_clients(GLOBAL_gb_merge)>=0) { |
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253 | awm->insert_menu_topic("save_DB1","Save Data Base I ...", "S","save_as.hlp",AWM_ALL, AW_POPUP, (AW_CL)MG_save_source_cb,(AW_CL)AWAR_MERGE_DB ); |
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254 | } |
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255 | |
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256 | awm->insert_menu_topic("quit","Quit", "Q","quit.hlp", AWM_ALL, MG_exit, 0, 0 ); |
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257 | if (mg_save_enabled) { |
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258 | awm->insert_menu_topic("quit","Quit & Start DB II", "D","quit.hlp", AWM_ALL, MG_exit, 1, 0 ); |
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259 | } |
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260 | |
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261 | awm->insert_menu_topic("save_props","Save properties (to ~/.arb_prop/ntree.arb)", "p","savedef.hlp", AWM_ALL, (AW_CB)AW_save_defaults, 0, 0 ); |
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262 | |
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263 | awm->button_length(30); |
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264 | |
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265 | if (GB_read_clients(GLOBAL_gb_merge)>=0){ // merge 2 database |
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266 | awm->at("alignment"); |
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267 | awm->callback((AW_CB1)AW_POPUP,(AW_CL)MG_merge_alignment_cb); |
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268 | awm->help_text("mg_alignment.hlp"); |
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269 | awm->create_button("CHECK_ALIGNMENTS", "Check Alignments ..."); |
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270 | |
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271 | awm->at("names"); |
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272 | awm->callback((AW_CB1)AW_POPUP,(AW_CL)MG_merge_names_cb); |
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273 | awm->help_text("mg_names.hlp"); |
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274 | awm->create_button("CHECK_NAMES", "Check Names ..."); |
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275 | } |
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276 | else { // export into new database |
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277 | MG_set_renamed(true, aw_root, "Not necessary"); // a newly created database needs no renaming |
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278 | } |
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279 | |
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280 | awm->at("species"); |
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281 | awm->callback(MG_popup_if_renamed, (AW_CL)MG_merge_species_cb); |
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282 | awm->help_text("mg_species.hlp"); |
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283 | awm->create_button("TRANSFER_SPECIES", "Transfer Species ... "); |
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284 | |
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285 | awm->at("extendeds"); |
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286 | awm->callback((AW_CB1)AW_POPUP,(AW_CL)MG_merge_extendeds_cb); |
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287 | awm->help_text("mg_extendeds.hlp"); |
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288 | awm->create_button("TRANSFER_SAIS", "Transfer SAIs ..."); |
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289 | |
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290 | awm->at("trees"); |
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291 | awm->callback(MG_popup_if_renamed, (AW_CL)MG_merge_trees_cb); |
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292 | awm->help_text("mg_trees.hlp"); |
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293 | awm->create_button("TRANSFER_TREES", "Transfer Trees ..."); |
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294 | |
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295 | awm->at("configs"); |
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296 | awm->callback(MG_popup_if_renamed, (AW_CL)MG_merge_configs_cb); |
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297 | awm->help_text("mg_configs.hlp"); |
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298 | awm->create_button("TRANSFER_CONFIGS", "Transfer Configurations ..."); |
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299 | |
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300 | if (mg_save_enabled && GB_read_clients(GLOBAL_gb_dest)>=0){ // No need to save when importing data |
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301 | awm->at("save"); |
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302 | awm->callback(AW_POPUP,(AW_CL)MG_save_result_cb,(AW_CL)AWAR_MAIN_DB); |
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303 | awm->create_button("SAVE_WHOLE_DB2", "Save Whole DB II ..."); |
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304 | |
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305 | awm->at("save_quick"); |
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306 | awm->highlight(); |
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307 | awm->callback(AW_POPUP,(AW_CL)MG_save_quick_result_cb,(AW_CL)AWAR_MAIN_DB); |
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308 | awm->create_button("SAVE_CHANGES_OF_DB2", "Save Changes of DB II as ..."); |
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309 | } |
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310 | |
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311 | awm->button_length(15); |
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312 | |
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313 | awm->at("db1"); |
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314 | awm->create_button(0,AWAR_MERGE_DB"/file_name"); |
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315 | |
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316 | awm->at("db2"); |
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317 | awm->create_button(0,AWAR_MAIN_DB"/file_name"); |
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318 | |
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319 | awm->button_length(0); |
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320 | awm->shadow_width(1); |
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321 | awm->at("icon"); |
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322 | awm->callback(AW_POPUP_HELP, (AW_CL)"mg_main.hlp"); |
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323 | awm->create_button("HELP_MERGE", "#merge/icon.bitmap"); |
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324 | |
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325 | awm->show(); |
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326 | } |
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327 | |
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328 | if (error) aw_message(error); |
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329 | } |
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330 | |
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331 | void MG_start_cb(AW_window *aww) |
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332 | { |
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333 | AW_root *awr = aww->get_root(); |
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334 | GB_ERROR error = 0; |
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335 | { |
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336 | char *merge = awr->awar(AWAR_MERGE_DB"/file_name")->read_string(); |
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337 | if (!strlen(merge) || (strcmp(merge,":") && GB_size_of_file(merge)<=0)) { |
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338 | error = "Cannot find database I file"; |
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339 | } |
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340 | else { |
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341 | char *main = awr->awar(AWAR_MAIN_DB"/file_name")->read_string(); |
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342 | if (!strlen(main) || (strcmp(main,":") && GB_size_of_file(main)<=0 )) { |
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343 | error = "Cannot find main file -> creating empty database"; |
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344 | } |
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345 | else { |
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346 | aw_openstatus("Loading databases"); |
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347 | |
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348 | aw_status("DATABASE I"); |
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349 | GLOBAL_gb_merge = GBT_open(merge,"rw","$(ARBHOME)/lib/pts/*"); |
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350 | if (!GLOBAL_gb_merge) { |
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351 | error = GB_get_error(); |
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352 | } |
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353 | else { |
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354 | AWT_announce_db_to_browser(GLOBAL_gb_merge, GBS_global_string("Database I (source; %s)", merge)); |
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355 | |
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356 | aw_status("DATABASE II"); |
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357 | GLOBAL_gb_dest = GBT_open(main,"rwc","$(ARBHOME)/lib/pts/*"); |
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358 | |
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359 | if (!GLOBAL_gb_dest) { |
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360 | error = GB_get_error(); |
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361 | } |
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362 | else { |
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363 | AWT_announce_db_to_browser(GLOBAL_gb_dest, GBS_global_string("Database II (destination; %s)", main)); |
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364 | } |
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365 | } |
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366 | aw_closestatus(); |
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367 | } |
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368 | free(main); |
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369 | } |
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370 | free(merge); |
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371 | } |
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372 | |
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373 | if (error) aw_message(error); |
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374 | else MG_start_cb2(aww, awr, true, false); |
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375 | } |
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376 | |
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377 | |
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378 | AW_window *create_merge_init_window(AW_root *awr) |
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379 | { |
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380 | AW_window_simple *aws = new AW_window_simple; |
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381 | aws->init( awr, "MERGE_SELECT_DATABASES", "MERGE SELECT TWO DATABASES"); |
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382 | aws->load_xfig("merge/startup.fig"); |
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383 | |
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384 | aws->button_length( 10 ); |
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385 | aws->label_length( 10 ); |
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386 | |
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387 | aws->callback( (AW_CB0)exit); |
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388 | aws->at("close"); |
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389 | aws->create_button("QUIT","QUIT","A"); |
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390 | |
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391 | aws->callback(AW_POPUP_HELP,(AW_CL)"arb_merge.hlp"); |
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392 | aws->at("help"); |
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393 | aws->create_button("HELP","HELP","H"); |
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394 | |
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395 | awt_create_selection_box(aws,AWAR_MERGE_DB,""); |
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396 | aws->at("type"); |
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397 | aws->create_option_menu(AWAR_MERGE_DB"/filter"); |
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398 | aws->insert_option("ARB","A","arb"); |
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399 | aws->insert_default_option("OTHER","O",""); |
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400 | aws->update_option_menu(); |
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401 | |
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402 | awt_create_selection_box(aws,AWAR_MAIN_DB,"m"); |
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403 | aws->at("mtype"); |
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404 | aws->create_option_menu(AWAR_MAIN_DB"/filter"); |
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405 | aws->insert_option("ARB","A","arb"); |
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406 | aws->insert_default_option("OTHER","O",""); |
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407 | aws->update_option_menu(); |
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408 | |
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409 | aws->callback(MG_start_cb); |
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410 | |
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411 | aws->button_length(0); |
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412 | aws->shadow_width(1); |
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413 | aws->at("icon"); |
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414 | aws->create_button("GO","#merge/icon_vertical.bitmap","G"); |
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415 | |
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416 | return (AW_window *)aws; |
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417 | } |
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418 | |
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419 | void MG_create_all_awars(AW_root *awr, AW_default aw_def,const char *fname_one, const char *fname_two) |
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420 | { |
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421 | aw_create_selection_box_awars(awr, AWAR_MAIN_DB, "", ".arb", fname_two, aw_def); |
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422 | awr->awar_string( AWAR_MAIN_DB"/type", "b",aw_def); |
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423 | |
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424 | aw_create_selection_box_awars(awr, AWAR_MERGE_DB, "", ".arb", fname_one, aw_def); |
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425 | |
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426 | MG_create_trees_awar(awr,aw_def); |
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427 | MG_create_config_awar(awr,aw_def); |
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428 | MG_create_extendeds_awars(awr,aw_def); |
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429 | MG_create_alignment_awars(awr,aw_def); |
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430 | MG_create_species_awars(awr,aw_def); |
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431 | MG_create_gene_species_awars(awr, aw_def); |
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432 | |
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433 | MG_create_rename_awars(awr, aw_def); |
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434 | AWTC_create_rename_awars(awr, aw_def); |
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435 | AWT_create_db_browser_awars(awr, aw_def); |
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436 | } |
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437 | |
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438 | AW_window *create_MG_main_window(AW_root *aw_root) |
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439 | { |
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440 | MG_create_all_awars(aw_root,AW_ROOT_DEFAULT); |
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441 | AW_window *aww=create_merge_init_window(aw_root); |
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442 | aww->show(); |
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443 | return aww; |
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444 | } |
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445 | |
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