1 | // =============================================================== // |
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2 | // // |
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3 | // File : SEC_main.cxx // |
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4 | // Purpose : main part of SECEDIT // |
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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 | |
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12 | #include <cstdio> |
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13 | |
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14 | #include <arbdb.h> |
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15 | #include <arbdbt.h> |
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16 | #include <aw_window.hxx> |
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17 | #include <aw_awars.hxx> |
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18 | #include <aw_preset.hxx> |
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19 | #include <awt.hxx> |
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20 | #include <ed4_extern.hxx> |
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21 | #include <FileBuffer.h> |
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22 | |
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23 | #include "SEC_root.hxx" |
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24 | #include "SEC_graphic.hxx" |
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25 | #include "SEC_helix.hxx" |
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26 | #include "SEC_drawn_pos.hxx" |
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27 | #include "SEC_toggle.hxx" |
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28 | |
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29 | #ifndef sec_assert // happens in NDEBUG mode |
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30 | #define sec_assert(cond) arb_assert(cond) |
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31 | #endif |
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32 | |
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33 | void SEC_root::invalidate_base_positions() { |
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34 | if (root_loop) { |
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35 | SEC_base_part *start_part = root_loop->get_fixpoint_strand(); |
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36 | SEC_base_part *part = start_part; |
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37 | |
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38 | do { |
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39 | part->get_region()->invalidate_base_count(); |
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40 | part = part->next(); |
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41 | } |
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42 | while (part != start_part); |
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43 | } |
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44 | } |
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45 | |
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46 | // ----------------------------------------------------- |
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47 | // auto-scrolling (triggered by structure self) |
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48 | // ----------------------------------------------------- |
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49 | |
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50 | void SEC_root::nail_position(size_t absPos) { |
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51 | if (drawnPositions) { |
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52 | nailedAbsPos = absPos; |
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53 | drawnAbsPos = *drawnPositions->drawn_at(absPos); |
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54 | } |
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55 | } |
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56 | |
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57 | void SEC_root::nail_cursor() { // re-position on cursor |
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58 | if (cursorAbsPos >= 0) { |
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59 | if (drawnPositions && !drawnPositions->empty()) { |
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60 | size_t abs; |
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61 | drawnAbsPos = drawnPositions->drawn_after(cursorAbsPos-1, &abs); |
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62 | nailedAbsPos = abs; |
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63 | } |
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64 | } |
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65 | } |
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66 | |
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67 | void SEC_root::add_autoscroll(const Vector& scroll) { |
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68 | if (autoscroll) *autoscroll += scroll; |
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69 | else autoscroll = new Vector(scroll); |
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70 | } |
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71 | |
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72 | bool SEC_root::perform_autoscroll() { |
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73 | bool scrolled = false; |
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74 | AWT_canvas *canvas = db->canvas(); |
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75 | |
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76 | if (canvas && (nailedAbsPos != -1 || autoscroll)) { |
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77 | AW_device *device = canvas->aww->get_device(AW_MIDDLE_AREA); |
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78 | |
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79 | if (nailedAbsPos != -1) { |
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80 | { |
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81 | int absPos = nailedAbsPos; |
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82 | Vector *scroll = autoscroll; |
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83 | |
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84 | // avoid endless recursion: |
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85 | nailedAbsPos = -1; |
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86 | autoscroll = 0; |
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87 | |
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88 | #warning make the refresh invisible |
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89 | canvas->refresh(); |
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90 | |
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91 | nailedAbsPos = absPos; |
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92 | autoscroll = scroll; |
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93 | } |
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94 | const Position *newPos = drawnPositions->drawn_at(nailedAbsPos); |
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95 | if (newPos) { |
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96 | Vector old2new(drawnAbsPos, *newPos); |
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97 | #if defined(DEBUG) && 0 |
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98 | printf("drawnAbsPos=%.2f/%.2f newPos=%.2f/%.2f old2new=%.2f/%.2f\n", |
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99 | drawnAbsPos.xpos(), drawnAbsPos.ypos(), |
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100 | newPos->xpos(), newPos->ypos(), |
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101 | old2new.x(), old2new.y()); |
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102 | #endif // DEBUG |
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103 | add_autoscroll(old2new); |
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104 | } |
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105 | nailedAbsPos = -1; |
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106 | } |
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107 | if (autoscroll) { |
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108 | canvas->init_device(device); // loads correct zoom |
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109 | Vector screen_scroll = device->transform(*autoscroll); |
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110 | |
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111 | #if defined(DEBUG) && 0 |
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112 | printf("autoscroll=%.2f/%.2f screen_scroll=%.2f/%.2f\n", |
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113 | autoscroll->x(), autoscroll->y(), |
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114 | screen_scroll.x(), screen_scroll.y()); |
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115 | #endif // DEBUG |
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116 | |
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117 | delete autoscroll; |
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118 | autoscroll = 0; |
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119 | |
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120 | device->clear(-1); |
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121 | canvas->scroll(NULL, screen_scroll, false); |
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122 | scrolled = true; |
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123 | } |
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124 | } |
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125 | return scrolled; |
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126 | } |
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127 | // -------------------------------------------------------------------------------- |
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128 | |
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129 | void SEC_root::position_cursor(bool toCenter, bool evenIfVisible) { |
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130 | // centers the cursor in display (or scrolls it into view) |
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131 | // if 'evenIfVisible' is true, always do it, otherwise only if not fully visible |
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132 | |
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133 | const LineVector& cursorLine = get_last_drawed_cursor_position(); |
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134 | sec_assert(cursorLine.valid()); |
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135 | |
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136 | AWT_canvas *ntw = db->canvas(); |
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137 | AW_device *device = ntw->aww->get_device(AW_MIDDLE_AREA); |
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138 | |
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139 | Rectangle cursor(device->transform(cursorLine)); |
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140 | Rectangle screen = device->get_area_size(); |
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141 | |
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142 | if (evenIfVisible || !screen.contains(cursor)) { |
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143 | if (!toCenter) { |
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144 | if (perform_autoscroll()) { |
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145 | cursor = Rectangle(device->transform(cursorLine)); |
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146 | if (!screen.contains(cursor)) { |
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147 | toCenter = true; |
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148 | } |
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149 | } |
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150 | else { // if autoscroll didn't work |
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151 | toCenter = true; // center cursor |
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152 | } |
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153 | } |
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154 | |
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155 | if (toCenter) { |
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156 | Vector scroll(cursor.centroid(), screen.centroid()); |
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157 | |
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158 | #if defined(DEBUG) && 1 |
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159 | printf("Auto-scroll: scroll = (%f, %f) [Center cursor]\n", scroll.x(), scroll.y()); |
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160 | #endif |
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161 | ntw->scroll(NULL, -scroll, false); |
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162 | ntw->refresh(); |
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163 | } |
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164 | } |
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165 | } |
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166 | |
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167 | void SEC_toggle_cb(AW_window *, AW_CL cl_secroot, AW_CL) { |
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168 | SEC_root *root = (SEC_root*)cl_secroot; |
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169 | const SEC_db_interface *db = root->get_db(); |
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170 | |
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171 | GB_ERROR error = db->structure()->next(); |
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172 | if (error) aw_message(error); |
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173 | db->canvas()->refresh(); |
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174 | } |
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175 | |
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176 | void SEC_center_cb(AW_window *, AW_CL cl_secroot, AW_CL) { |
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177 | SEC_root *root = (SEC_root*)cl_secroot; |
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178 | root->position_cursor(true, true); |
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179 | } |
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180 | |
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181 | static void SEC_fit_window_cb(AW_window */*aw*/, AW_CL cl_secroot, AW_CL) { |
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182 | SEC_root *root = (SEC_root*)cl_secroot; |
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183 | const SEC_db_interface *db = root->get_db(); |
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184 | |
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185 | db->graphic()->request_update(SEC_UPDATE_ZOOM_RESET); |
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186 | db->canvas()->refresh(); |
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187 | } |
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188 | |
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189 | static void sec_mode_event(AW_window *aws, AW_CL cl_secroot, AW_CL cl_mode) |
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190 | { |
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191 | SEC_root *sec_root = (SEC_root*)cl_secroot; |
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192 | AWT_COMMAND_MODE mode = (AWT_COMMAND_MODE)cl_mode; |
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193 | |
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194 | // SEC_root *sec_root = SEC_GRAPHIC->sec_root; |
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195 | const char *text = 0; |
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196 | |
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197 | sec_root->set_show_constraints(SEC_NO_TYPE); |
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198 | |
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199 | switch(mode){ |
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200 | case AWT_MODE_ZOOM: { |
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201 | text="ZOOM MODE : CLICK or SELECT an area to ZOOM IN (LEFT) or ZOOM OUT (RIGHT) "; |
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202 | break; |
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203 | } |
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204 | case AWT_MODE_MOVE: { |
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205 | text="HELIX MODE LEFT: build helix RIGHT: remove helix"; |
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206 | break; |
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207 | } |
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208 | case AWT_MODE_SETROOT: { |
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209 | text="SET ROOT MODE LEFT: Set logical center of structure RIGHT: Reset angles on sub-structure"; |
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210 | break; |
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211 | } |
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212 | case AWT_MODE_ROT: { |
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213 | text="ROTATE MODE LEFT: Rotate helix/loop RIGHT: w/o substructure"; |
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214 | break; |
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215 | } |
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216 | case AWT_MODE_STRETCH: { |
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217 | text="STRETCH MODE : LEFT-CLICK & DRAG: stretch HELICES and LOOPS RIGHT: Reset"; |
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218 | sec_root->set_show_constraints(SEC_ANY_TYPE); |
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219 | break; |
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220 | } |
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221 | case AWT_MODE_MOD: { |
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222 | text="CONSTRAINT MODE LEFT: modify constraint"; |
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223 | sec_root->set_show_constraints(SEC_ANY_TYPE); |
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224 | break; |
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225 | } |
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226 | case AWT_MODE_LINE: { |
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227 | text="SET CURSOR MODE LEFT: Set Cursor in ARB_EDIT4"; |
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228 | break; |
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229 | } |
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230 | case AWT_MODE_PROINFO: { |
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231 | text="PROBE INFO MODE LEFT: Displays PROBE information RIGHT: Clears the Display"; |
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232 | break; |
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233 | } |
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234 | default: { |
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235 | #if defined(DEBUG) |
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236 | sec_assert(0); |
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237 | #endif // DEBUG |
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238 | break; |
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239 | } |
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240 | } |
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241 | |
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242 | sec_assert(strlen(text) < AWAR_FOOTER_MAX_LEN); // text too long! |
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243 | |
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244 | aws->get_root()->awar(AWAR_FOOTER)->write_string(text); |
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245 | |
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246 | AWT_canvas *ntw = sec_root->get_db()->canvas(); |
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247 | ntw->set_mode(mode); |
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248 | ntw->refresh(); |
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249 | } |
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250 | |
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251 | void SEC_undo_cb(AW_window *, AW_CL cl_db, AW_CL cl_undo_type) { |
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252 | SEC_db_interface *db = (SEC_db_interface*)cl_db; |
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253 | GB_UNDO_TYPE undo_type = (GB_UNDO_TYPE)cl_undo_type; |
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254 | |
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255 | GBDATA *gb_main = db->gbmain(); |
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256 | GB_ERROR error = GB_undo(gb_main, undo_type); |
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257 | if (error) { |
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258 | aw_message(error); |
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259 | } |
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260 | else{ |
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261 | GB_begin_transaction(gb_main); |
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262 | GB_commit_transaction(gb_main); |
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263 | db->canvas()->refresh(); |
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264 | } |
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265 | } |
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266 | |
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267 | // -------------------------------------------------------------------------------- |
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268 | |
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269 | #define ASS "ARB secondary structure v1" // dont change version here! |
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270 | #define ASS_START "["ASS"]" |
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271 | #define ASS_EOS "[end of structure]" |
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272 | #define ASS_EOF "[end of "ASS"]" |
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273 | |
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274 | static void export_structure_to_file(AW_window *, AW_CL cl_db) |
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275 | { |
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276 | SEC_db_interface *db = (SEC_db_interface*)cl_db; |
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277 | AW_root *aw_root = db->awroot(); |
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278 | char *filename = aw_root->awar(AWAR_SECEDIT_SAVEDIR"/file_name")->read_string(); |
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279 | FILE *out = fopen(filename, "wt"); |
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280 | GB_ERROR error = 0; |
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281 | |
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282 | if (out) { |
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283 | SEC_root *sec_root = db->secroot(); |
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284 | |
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285 | fputs(ASS_START, out); fputc('\n', out); |
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286 | |
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287 | char *strct = sec_root->buildStructureString(); |
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288 | fputs(strct, out); |
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289 | delete [] strct; |
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290 | |
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291 | fputs(ASS_EOS, out); fputc('\n', out); |
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292 | |
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293 | const XString& xstr = sec_root->get_xString(); |
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294 | const char *x_string = xstr.get_x_string(); |
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295 | |
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296 | sec_assert(xstr.get_x_string_length() == strlen(x_string)); |
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297 | |
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298 | char *foldInfo = SEC_xstring_to_foldedHelixList(x_string, xstr.get_x_string_length(), sec_root->get_helixDef()); |
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299 | fprintf(out, "foldedHelices=%s\n", foldInfo); |
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300 | free(foldInfo); |
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301 | |
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302 | fputs(ASS_EOF, out); fputc('\n', out); |
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303 | fclose(out); |
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304 | } |
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305 | else { |
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306 | error = GB_export_errorf("Can't write secondary structure to '%s'", filename); |
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307 | } |
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308 | |
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309 | if (error) aw_popup_ok(error); |
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310 | } |
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311 | |
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312 | inline GB_ERROR expectedError(const char *expected) { |
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313 | return GBS_global_string("expected '%s'", expected); |
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314 | } |
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315 | inline GB_ERROR expectContent(FileBuffer& file, const char *expected) { |
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316 | GB_ERROR error = 0; |
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317 | string line; |
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318 | if (!file.getLine(line) || line != expected) { |
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319 | error = expectedError(expected); |
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320 | } |
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321 | return error; |
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322 | } |
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323 | |
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324 | static string scanToken(FileBuffer& file, string& rest, GB_ERROR& error) { |
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325 | string line; |
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326 | string token; |
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327 | |
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328 | sec_assert(error == 0); |
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329 | |
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330 | if (file.getLine(line)) { |
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331 | size_t equal = line.find('='); |
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332 | |
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333 | if (equal == string::npos) { |
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334 | error = "Expected '='"; |
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335 | } |
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336 | else { |
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337 | token = line.substr(0, equal); |
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338 | rest = line.substr(equal+1); |
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339 | } |
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340 | } |
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341 | else { |
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342 | error = "Unexpected EOF"; |
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343 | } |
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344 | return token; |
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345 | } |
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346 | |
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347 | static GB_ERROR expectToken(FileBuffer& file, const char *token, string& content) { |
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348 | GB_ERROR error = 0; |
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349 | string foundToken = scanToken(file, content, error); |
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350 | if (foundToken != token) error = expectedError(token); |
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351 | return error; |
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352 | } |
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353 | |
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354 | static void import_structure_from_file(AW_window *, AW_CL cl_db) { |
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355 | GB_ERROR error = 0; |
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356 | SEC_db_interface *db = (SEC_db_interface*)cl_db; |
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357 | SEC_root *root = db->secroot(); |
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358 | |
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359 | if (!root->has_xString()) { |
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360 | error = "Please select a species in EDIT4"; |
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361 | } |
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362 | else { |
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363 | char *filename = db->awroot()->awar(AWAR_SECEDIT_SAVEDIR"/file_name")->read_string(); |
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364 | FILE *in = fopen(filename, "rt"); // closed by FileBuffer |
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365 | |
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366 | if (!in) { |
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367 | error = GB_export_errorf("Can't open file '%s'", filename); |
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368 | } |
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369 | else { |
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370 | FileBuffer file(filename, in); |
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371 | error = expectContent(file, ASS_START); |
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372 | |
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373 | string structure; |
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374 | while (!error) { |
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375 | string line; |
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376 | if (!file.getLine(line)) error = expectedError(ASS_EOS); |
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377 | else { |
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378 | if (line == ASS_EOS) break; |
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379 | structure += line + "\n"; |
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380 | } |
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381 | } |
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382 | |
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383 | char *x_string = 0; |
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384 | if (!error) { |
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385 | string content; |
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386 | string token = scanToken(file, content, error); |
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387 | |
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388 | if (!error) { |
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389 | // we already have an existing xstring, use it's length for new xstring |
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390 | size_t xlength = root->get_xString().getLength(); |
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391 | |
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392 | if (token == "foldedHelices") { // new version |
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393 | x_string = SEC_foldedHelixList_to_xstring(content.c_str(), xlength, root->get_helixDef(), error); // sets error |
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394 | } |
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395 | else if (token == "no of helices") { // old version |
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396 | int saved_helices = atoi(content.c_str()); |
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397 | |
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398 | error = expectToken(file, "length of xstring", content); // ignore, using curr value |
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399 | if (!error) error = expectToken(file, "xstring_rel_helix", content); |
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400 | if (!error) { |
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401 | int helices_in_db; |
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402 | x_string = old_decode_xstring_rel_helix(content.c_str(), xlength, root->get_helixDef(), &helices_in_db); |
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403 | if (helices_in_db != saved_helices) { |
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404 | error = GBS_global_string("Number of helices does not match (file=%i, db=%i).\n" |
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405 | "Saving the structure again from another DB with correct number of helices will work around this restriction.", |
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406 | saved_helices, helices_in_db); |
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407 | } |
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408 | } |
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409 | } |
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410 | else { |
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411 | error = "Expected 'foldedHelices' or 'no of helices'"; |
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412 | } |
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413 | } |
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414 | if (!error) error = expectContent(file, ASS_EOF); |
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415 | } |
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416 | |
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417 | if (error) { |
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418 | error = GBS_global_string("%s", file.lineError(error).c_str()); |
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419 | } |
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420 | else { |
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421 | db->graphic()->write_data_to_db(structure.c_str(), x_string); |
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422 | db->canvas()->refresh(); |
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423 | } |
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424 | free(x_string); |
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425 | } |
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426 | free(filename); |
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427 | } |
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428 | if (error) aw_popup_ok(error); |
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429 | } |
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430 | |
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431 | #undef ASS |
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432 | #undef ASS_START |
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433 | #undef ASS_EOS |
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434 | #undef ASS_EOF |
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435 | |
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436 | static AW_window *SEC_importExport(AW_root *root, int export_to_file, SEC_db_interface *db) |
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437 | { |
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438 | AW_window_simple *aws = new AW_window_simple; |
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439 | |
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440 | if (export_to_file) aws->init(root, "export_secondary_structure", "Export secondary structure to ..."); |
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441 | else aws->init(root, "import_secondary_structure", "Import secondary structure from ..."); |
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442 | |
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443 | aws->load_xfig("sec_imexport.fig"); |
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444 | |
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445 | aws->at("close"); |
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446 | aws->callback((AW_CB0)AW_POPDOWN); |
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447 | aws->create_button("CLOSE","CLOSE","C"); |
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448 | |
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449 | aws->at("help"); |
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450 | aws->callback( AW_POPUP_HELP, (AW_CL)"sec_imexport.hlp"); |
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451 | aws->create_button("HELP","HELP","H"); |
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452 | |
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453 | awt_create_selection_box((AW_window *)aws, AWAR_SECEDIT_SAVEDIR); |
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454 | |
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455 | aws->at("save"); |
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456 | if (export_to_file) { |
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457 | aws->callback(export_structure_to_file, (AW_CL)db); |
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458 | aws->create_button("EXPORT","EXPORT","E"); |
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459 | } |
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460 | else { |
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461 | aws->callback(import_structure_from_file, (AW_CL)db); |
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462 | aws->create_button("IMPORT","IMPORT","I"); |
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463 | } |
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464 | |
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465 | return aws; |
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466 | } |
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467 | |
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468 | static AW_window *SEC_import(AW_root *root, AW_CL cl_db) { return SEC_importExport(root, 0, (SEC_db_interface*)cl_db); } |
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469 | static AW_window *SEC_export(AW_root *root, AW_CL cl_db) { return SEC_importExport(root, 1, (SEC_db_interface*)cl_db); } |
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470 | |
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471 | static void SEC_rename_structure(AW_window *, AW_CL cl_db, AW_CL) { |
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472 | SEC_db_interface *db = (SEC_db_interface*)cl_db; |
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473 | SEC_structure_toggler *structure = db->structure(); |
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474 | |
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475 | char *new_name = aw_input("Rename structure", "New name", structure->name()); |
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476 | if (new_name) { |
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477 | structure->setName(new_name); |
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478 | free(new_name); |
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479 | db->canvas()->refresh(); |
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480 | } |
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481 | } |
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482 | |
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483 | static void SEC_new_structure(AW_window *, AW_CL cl_db, AW_CL) { |
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484 | SEC_db_interface *db = (SEC_db_interface*)cl_db; |
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485 | SEC_structure_toggler *structure = db->structure(); |
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486 | |
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487 | if (!structure) { |
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488 | db->init_toggler(); |
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489 | structure = db->structure(); |
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490 | sec_assert(structure); |
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491 | } |
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492 | |
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493 | GB_ERROR error = 0; |
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494 | bool done = false; |
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495 | |
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496 | switch (aw_question("Create new structure?", "Default bone,Copy current,Abort")) { |
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497 | case 0: // default bone |
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498 | error = structure->copyTo("Default"); |
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499 | if (!error) { |
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500 | db->secroot()->create_default_bone(); |
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501 | db->graphic()->save(0, 0, 0, 0); |
---|
502 | done = true; |
---|
503 | } |
---|
504 | break; |
---|
505 | |
---|
506 | case 1: // copy current |
---|
507 | error = structure->copyTo(GBS_global_string("%s(copy)", structure->name())); |
---|
508 | done = !error; |
---|
509 | break; |
---|
510 | |
---|
511 | case 2: // abort |
---|
512 | break; |
---|
513 | } |
---|
514 | |
---|
515 | if (done) { |
---|
516 | db->graphic()->request_update(SEC_UPDATE_ZOOM_RESET); |
---|
517 | db->canvas()->refresh(); |
---|
518 | SEC_rename_structure(0, cl_db, 0); |
---|
519 | } |
---|
520 | } |
---|
521 | |
---|
522 | static void SEC_delete_structure(AW_window *, AW_CL cl_db, AW_CL) { |
---|
523 | SEC_db_interface *db = (SEC_db_interface*)cl_db; |
---|
524 | SEC_structure_toggler *structure = db->structure(); |
---|
525 | |
---|
526 | if (structure->getCount()>1) { |
---|
527 | if (aw_ask_sure(GBS_global_string("Are you sure to delete structure '%s'?", structure->name()))) { |
---|
528 | GB_ERROR error = structure->remove(); |
---|
529 | if (error) aw_message(error); |
---|
530 | db->canvas()->refresh(); |
---|
531 | } |
---|
532 | } |
---|
533 | else { |
---|
534 | aw_message("You cannot delete the last structure"); |
---|
535 | } |
---|
536 | } |
---|
537 | |
---|
538 | static void SEC_sync_colors(AW_window *aww, AW_CL cl_mode, AW_CL) { |
---|
539 | // overwrites color settings with those from EDIT4 |
---|
540 | |
---|
541 | int mode = (int)cl_mode; |
---|
542 | |
---|
543 | if (mode & 1) { // search string colors |
---|
544 | AW_copy_GCs(aww->get_root(), "ARB_EDIT4", "ARB_SECEDIT", false, |
---|
545 | "User1", "User2", "Probe", |
---|
546 | "Primerl", "Primerr", "Primerg", |
---|
547 | "Sigl", "Sigr", "Sigg", |
---|
548 | "MISMATCHES", |
---|
549 | NULL); |
---|
550 | } |
---|
551 | if (mode & 2) { // range colors |
---|
552 | AW_copy_GCs(aww->get_root(), "ARB_EDIT4", "ARB_SECEDIT", false, |
---|
553 | "RANGE_0", "RANGE_1", "RANGE_2", |
---|
554 | "RANGE_3", "RANGE_4", "RANGE_5", |
---|
555 | "RANGE_6", "RANGE_7", "RANGE_8", |
---|
556 | "RANGE_9", |
---|
557 | NULL); |
---|
558 | } |
---|
559 | if (mode & 4) { // other colors |
---|
560 | AW_copy_GCs(aww->get_root(), "ARB_EDIT4", "ARB_SECEDIT", false, |
---|
561 | "CURSOR", |
---|
562 | NULL); |
---|
563 | } |
---|
564 | } |
---|
565 | |
---|
566 | static AW_window *SEC_create_bonddef_window(AW_root *awr) { |
---|
567 | AW_window_simple *aws = new AW_window_simple; |
---|
568 | |
---|
569 | aws->init(awr, "SEC_BONDDEF", "Bond definitions"); |
---|
570 | aws->load_xfig("sec_bonddef.fig"); |
---|
571 | |
---|
572 | aws->callback((AW_CB0)AW_POPDOWN); |
---|
573 | aws->at("close"); |
---|
574 | aws->create_button("CLOSE", "CLOSE", "C"); |
---|
575 | |
---|
576 | aws->callback( AW_POPUP_HELP,(AW_CL)"sec_bonddef.hlp"); |
---|
577 | aws->at("help"); |
---|
578 | aws->create_button("HELP","HELP","H"); |
---|
579 | |
---|
580 | aws->at("label"); int x_label = aws->get_at_xposition(); |
---|
581 | aws->at("pairs"); int x_pairs = aws->get_at_xposition(); |
---|
582 | aws->at("chars"); int x_chars = aws->get_at_xposition(); |
---|
583 | |
---|
584 | aws->auto_space(0, 0); |
---|
585 | |
---|
586 | #define INSERT_PAIR_FIELDS(label, pairname) \ |
---|
587 | aws->at_x(x_label); \ |
---|
588 | aws->create_button("", label); \ |
---|
589 | aws->at_x(x_pairs); \ |
---|
590 | aws->create_input_field(AWAR_SECEDIT_##pairname##_PAIRS, 30); \ |
---|
591 | aws->at_x(x_chars); \ |
---|
592 | aws->create_input_field(AWAR_SECEDIT_##pairname##_PAIR_CHAR, 1); \ |
---|
593 | aws->at_newline(); |
---|
594 | |
---|
595 | INSERT_PAIR_FIELDS("Strong pairs", STRONG); |
---|
596 | INSERT_PAIR_FIELDS("Normal pairs", NORMAL); |
---|
597 | INSERT_PAIR_FIELDS("Weak pairs", WEAK); |
---|
598 | INSERT_PAIR_FIELDS("No pairs", NO); |
---|
599 | INSERT_PAIR_FIELDS("User pairs", USER); |
---|
600 | |
---|
601 | #undef INSERT_PAIR_FIELDS |
---|
602 | |
---|
603 | return aws; |
---|
604 | } |
---|
605 | |
---|
606 | static AW_window *SEC_create_display_window(AW_root *awr) { |
---|
607 | AW_window_simple *aws = new AW_window_simple; |
---|
608 | |
---|
609 | aws->init(awr, "SEC_DISPLAY_OPTS", "Display options"); |
---|
610 | aws->load_xfig("sec_display.fig"); |
---|
611 | |
---|
612 | aws->callback((AW_CB0)AW_POPDOWN); |
---|
613 | aws->at("close"); |
---|
614 | aws->create_button("CLOSE", "CLOSE", "C"); |
---|
615 | |
---|
616 | aws->callback( AW_POPUP_HELP,(AW_CL)"sec_display.hlp"); |
---|
617 | aws->at("help"); |
---|
618 | aws->create_button("HELP","HELP","H"); |
---|
619 | |
---|
620 | // ---------------------------------------- |
---|
621 | |
---|
622 | aws->at("bases"); |
---|
623 | aws->label("Display bases :"); |
---|
624 | aws->create_inverse_toggle(AWAR_SECEDIT_HIDE_BASES); |
---|
625 | |
---|
626 | aws->at("strand_dist"); |
---|
627 | aws->label("Distance between strands :"); |
---|
628 | aws->create_input_field(AWAR_SECEDIT_DIST_BETW_STRANDS); |
---|
629 | |
---|
630 | aws->at("bonds"); |
---|
631 | aws->label("Display bonds"); |
---|
632 | aws->create_option_menu(AWAR_SECEDIT_SHOW_BONDS); |
---|
633 | aws->insert_option("None", "n", SHOW_NO_BONDS); |
---|
634 | aws->insert_option("Helix", "h", SHOW_HELIX_BONDS); |
---|
635 | aws->insert_option("+Non-helix", "o", SHOW_NHELIX_BONDS); |
---|
636 | aws->update_option_menu(); |
---|
637 | |
---|
638 | aws->at("bonddef"); |
---|
639 | aws->callback(AW_POPUP, (AW_CL)SEC_create_bonddef_window, 0); |
---|
640 | aws->create_button("sec_bonddef", "Define", 0); |
---|
641 | |
---|
642 | aws->at("bondThickness"); |
---|
643 | aws->label("Bond thickness :"); |
---|
644 | aws->create_input_field(AWAR_SECEDIT_BOND_THICKNESS); |
---|
645 | |
---|
646 | // ---------------------------------------- |
---|
647 | |
---|
648 | aws->at("cursor"); |
---|
649 | aws->label("Annotate cursor :"); |
---|
650 | aws->create_option_menu(AWAR_SECEDIT_SHOW_CURPOS); |
---|
651 | aws->insert_option("None", "n", SHOW_NO_CURPOS); |
---|
652 | aws->insert_option("Absolute", "a", SHOW_ABS_CURPOS); |
---|
653 | aws->insert_option("Ecoli", "e", SHOW_ECOLI_CURPOS); |
---|
654 | aws->insert_option("Base", "b", SHOW_BASE_CURPOS); |
---|
655 | aws->update_option_menu(); |
---|
656 | |
---|
657 | aws->at("helixNrs"); |
---|
658 | aws->label("Annotate helices :"); |
---|
659 | aws->create_toggle(AWAR_SECEDIT_SHOW_HELIX_NRS); |
---|
660 | |
---|
661 | aws->at("ecoli"); |
---|
662 | aws->label("Annotate ecoli positions :"); |
---|
663 | aws->create_toggle(AWAR_SECEDIT_SHOW_ECOLI_POS); |
---|
664 | |
---|
665 | aws->at("search"); |
---|
666 | aws->label("Visualize search results :"); |
---|
667 | aws->create_toggle(AWAR_SECEDIT_DISPLAY_SEARCH); |
---|
668 | |
---|
669 | aws->at("sai"); |
---|
670 | aws->label("Visualize SAI :"); |
---|
671 | aws->create_toggle(AWAR_SECEDIT_DISPLAY_SAI); |
---|
672 | |
---|
673 | // ---------------------------------------- |
---|
674 | |
---|
675 | aws->at("binding"); |
---|
676 | aws->label("Binding helix positions :"); |
---|
677 | aws->create_toggle(AWAR_SECEDIT_DISPPOS_BINDING); |
---|
678 | |
---|
679 | aws->at("ecoli2"); |
---|
680 | aws->label("Ecoli base positions :"); |
---|
681 | aws->create_toggle(AWAR_SECEDIT_DISPPOS_ECOLI); |
---|
682 | |
---|
683 | // ---------------------------------------- |
---|
684 | |
---|
685 | aws->at("strSkeleton"); |
---|
686 | aws->label("Display structure skeleton :"); |
---|
687 | aws->create_toggle(AWAR_SECEDIT_SHOW_STR_SKELETON); |
---|
688 | |
---|
689 | aws->at("skelThickness"); |
---|
690 | aws->label("Skeleton thickness :"); |
---|
691 | aws->create_input_field(AWAR_SECEDIT_SKELETON_THICKNESS); |
---|
692 | |
---|
693 | #ifdef DEBUG |
---|
694 | aws->at("show_debug"); |
---|
695 | aws->label("Show debug info:"); |
---|
696 | aws->create_toggle(AWAR_SECEDIT_SHOW_DEBUG); |
---|
697 | #endif |
---|
698 | |
---|
699 | return aws; |
---|
700 | } |
---|
701 | |
---|
702 | static void SEC_exit(GBDATA *gb_main, void *cl_sec_root) { |
---|
703 | SEC_root *sec_root = static_cast<SEC_root*>(cl_sec_root); |
---|
704 | |
---|
705 | delete sec_root; |
---|
706 | } |
---|
707 | |
---|
708 | AW_window *SEC_create_main_window(AW_root *awr, GBDATA *gb_main) { |
---|
709 | SEC_graphic *gfx = new SEC_graphic(awr, gb_main); // never freed |
---|
710 | SEC_root *root = gfx->sec_root; |
---|
711 | |
---|
712 | AW_window_menu_modes *awm = new AW_window_menu_modes(); |
---|
713 | awm->init(awr,"ARB_SECEDIT", "ARB_SECEDIT: Secondary structure editor", 200,200); |
---|
714 | |
---|
715 | AW_gc_manager aw_gc_manager; |
---|
716 | AWT_canvas *ntw = new AWT_canvas(gb_main, awm, gfx, aw_gc_manager, AWAR_SPECIES_NAME); |
---|
717 | root->init(gfx, ntw); |
---|
718 | |
---|
719 | ntw->recalc_size(); |
---|
720 | ntw->set_mode(AWT_MODE_ZOOM); // Default-Mode |
---|
721 | |
---|
722 | const SEC_db_interface *db = root->get_db(); |
---|
723 | |
---|
724 | GB_atclose(gb_main, SEC_exit, root); |
---|
725 | |
---|
726 | awm->create_menu("File", "F", "secedit_file.hlp", AWM_ALL ); |
---|
727 | |
---|
728 | awm->insert_menu_topic("secedit_new", "New structure", "N", 0, AWM_ALL, SEC_new_structure, (AW_CL)db, 0); |
---|
729 | awm->insert_menu_topic("secedit_rename", "Rename structure", "R", 0, AWM_ALL, SEC_rename_structure, (AW_CL)db, 0); |
---|
730 | awm->insert_menu_topic("secedit_delete", "Delete structure", "D", 0, AWM_ALL, SEC_delete_structure, (AW_CL)db, 0); |
---|
731 | awm->insert_separator(); |
---|
732 | awm->insert_menu_topic("secedit_import", "Load structure", "L", "secedit_imexport.hlp", AWM_ALL, AW_POPUP, (AW_CL)SEC_import, (AW_CL)db); |
---|
733 | awm->insert_menu_topic("secedit_export", "Save structure", "S", "secedit_imexport.hlp", AWM_ALL, AW_POPUP, (AW_CL)SEC_export, (AW_CL)db); |
---|
734 | awm->insert_separator(); |
---|
735 | awm->insert_menu_topic("secStruct2xfig", "Export Structure to XFIG", "X", "sec_layout.hlp", AWM_ALL, AWT_popup_sec_export_window, (AW_CL)ntw, 0); |
---|
736 | awm->insert_menu_topic("print_secedit", "Print Structure", "P", "secedit2prt.hlp", AWM_ALL, AWT_popup_print_window, (AW_CL)ntw, 0); |
---|
737 | awm->insert_separator(); |
---|
738 | |
---|
739 | awm->insert_menu_topic( "close", "Close", "C","quit.hlp", AWM_ALL, (AW_CB)AW_POPDOWN, 0, 0); |
---|
740 | |
---|
741 | awm->create_menu("Properties","P","properties.hlp", AWM_ALL); |
---|
742 | awm->insert_menu_topic("sec_display", "Display options", "D", "sec_display.hlp", AWM_ALL, AW_POPUP, (AW_CL)SEC_create_display_window, 0); |
---|
743 | awm->insert_separator(); |
---|
744 | awm->insert_menu_topic("props_secedit", "Change Colors and Fonts","C","secedit_props_data.hlp",AWM_ALL, AW_POPUP, (AW_CL)AW_create_gc_window, (AW_CL)aw_gc_manager ); |
---|
745 | awm->insert_separator(); |
---|
746 | awm->insert_menu_topic("sync_search_colors", "Sync search colors with EDIT4", "s", "sync_colors.hlp", AWM_ALL, SEC_sync_colors, (AW_CL)1, 0); |
---|
747 | awm->insert_menu_topic("sync_range_colors", "Sync range colors with EDIT4", "r", "sync_colors.hlp", AWM_ALL, SEC_sync_colors, (AW_CL)2, 0); |
---|
748 | awm->insert_menu_topic("sync_other_colors", "Sync other colors with EDIT4", "o", "sync_colors.hlp", AWM_ALL, SEC_sync_colors, (AW_CL)4, 0); |
---|
749 | awm->insert_menu_topic("sync_all_colors", "Sync all colors with EDIT4", "a", "sync_colors.hlp", AWM_ALL, SEC_sync_colors, (AW_CL)(1|2|4), 0); |
---|
750 | awm->insert_separator(); |
---|
751 | awm->insert_menu_topic("sec_save_props", "How to save properties", "p","savedef.hlp", AWM_ALL, (AW_CB) AW_POPUP_HELP, (AW_CL)"sec_props.hlp", 0 ); |
---|
752 | |
---|
753 | awm->create_mode("pzoom.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_ZOOM); |
---|
754 | awm->create_mode("sec_modify.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_MOVE); |
---|
755 | awm->create_mode("setroot.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_SETROOT); |
---|
756 | awm->create_mode("rot.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_ROT); |
---|
757 | awm->create_mode("stretch.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_STRETCH); |
---|
758 | awm->create_mode("info.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_MOD); |
---|
759 | awm->create_mode("sec_setcurs.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_LINE); |
---|
760 | awm->create_mode("probeInfo.bitmap", "sec_mode.hlp", AWM_ALL, sec_mode_event, (AW_CL)root, (AW_CL)AWT_MODE_PROINFO); |
---|
761 | |
---|
762 | awm->set_info_area_height( 250 ); |
---|
763 | awm->at(5,2); |
---|
764 | // awm->auto_space(5,-2); |
---|
765 | awm->auto_space(0,-2); |
---|
766 | |
---|
767 | awm->button_length(0); |
---|
768 | awm->help_text("quit.hlp"); |
---|
769 | awm->callback((AW_CB0)AW_POPDOWN); |
---|
770 | awm->create_button("Close", "#quit.xpm"); // use quit button, cause users regard secedit as separate program |
---|
771 | |
---|
772 | // awm->callback(AW_POPUP_HELP,(AW_CL)"arb_secedit.hlp"); |
---|
773 | // awm->button_length(0); |
---|
774 | // awm->help_text("help.hlp"); |
---|
775 | // awm->create_button("HELP", "HELP","H"); |
---|
776 | |
---|
777 | awm->callback(AW_help_entry_pressed); |
---|
778 | awm->help_text("arb_secedit.hlp"); |
---|
779 | // awm->create_button(0,"?"); |
---|
780 | awm->create_button("HELP","#help.xpm"); |
---|
781 | |
---|
782 | awm->callback(SEC_undo_cb,(AW_CL)db,(AW_CL)GB_UNDO_UNDO); |
---|
783 | awm->help_text("undo.hlp"); |
---|
784 | awm->create_button("Undo", "#undo.bitmap"); |
---|
785 | |
---|
786 | awm->callback(SEC_undo_cb,(AW_CL)db,(AW_CL)GB_UNDO_REDO); |
---|
787 | awm->help_text("undo.hlp"); |
---|
788 | awm->create_button("Redo", "#redo.bitmap"); |
---|
789 | |
---|
790 | awm->callback(SEC_toggle_cb, (AW_CL)root, 0); |
---|
791 | awm->help_text("sec_main.hlp"); |
---|
792 | awm->create_button("Toggle", "Toggle"); |
---|
793 | |
---|
794 | awm->callback(SEC_center_cb, (AW_CL)root, 0); |
---|
795 | awm->help_text("sec_main.hlp"); |
---|
796 | awm->create_button("Center", "Center"); |
---|
797 | |
---|
798 | awm->callback((AW_CB)SEC_fit_window_cb,(AW_CL)root, 0); |
---|
799 | awm->help_text("sec_main.hlp"); |
---|
800 | awm->create_button("fitWindow", "Fit"); |
---|
801 | |
---|
802 | awm->at_newline(); |
---|
803 | |
---|
804 | { |
---|
805 | AW_at_maxsize maxSize; // store size (so AWAR_FOOTER does not affect min. window size) |
---|
806 | maxSize.store(awm->_at); |
---|
807 | awm->button_length(AWAR_FOOTER_MAX_LEN); |
---|
808 | awm->create_button(0,AWAR_FOOTER); |
---|
809 | awm->at_newline(); |
---|
810 | maxSize.restore(awm->_at); |
---|
811 | } |
---|
812 | |
---|
813 | // awm->set_info_area_height(awm->get_at_yposition()+6); |
---|
814 | awm->set_info_area_height(awm->get_at_yposition()); |
---|
815 | |
---|
816 | return awm; |
---|
817 | } |
---|
818 | |
---|