1 | #include <arbdbt.h> |
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2 | #include <AW_helix.hxx> |
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3 | |
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4 | #include <fast_aligner.hxx> |
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5 | #include <awt_map_key.hxx> |
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6 | |
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7 | #include "ed4_edit_string.hxx" |
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8 | #include "ed4_class.hxx" |
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9 | #include "ed4_awars.hxx" |
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10 | |
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11 | #include <aw_awar.hxx> |
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12 | #include <aw_msg.hxx> |
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13 | #include <aw_root.hxx> |
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14 | #include <aw_question.hxx> |
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15 | #include <aw_advice.hxx> |
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16 | #include <cctype> |
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17 | |
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18 | #define SAFE_EDITING // undef this to remove sequence test code |
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19 | |
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20 | int ED4_Edit_String::nrepeat = 0; // # of times command should be repeated |
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21 | int ED4_Edit_String::nrepeat_zero_requested = 0; // nrepeat should be set to zero |
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22 | int ED4_Edit_String::nrepeat_is_already_set = 0; // nrepeat was zero (and was set to 1) |
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23 | |
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24 | unsigned char *ED4_is_align_character = NULL; |
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25 | |
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26 | void ED4_init_is_align_character(GB_CSTR gap_chars) { |
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27 | static unsigned char array[256]; |
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28 | memset(array, 0, 256); |
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29 | for (int p = 0; gap_chars[p]; ++p) { |
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30 | array[(unsigned char)(gap_chars[p])] = 1; |
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31 | } |
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32 | ED4_is_align_character = array; |
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33 | } |
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34 | |
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35 | GB_ERROR ED4_Edit_String::insert(char *text, long position, int direction, int removeAtNextGap) { |
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36 | long i; |
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37 | int text_len = strlen(text); |
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38 | if (text_len == 0) return 0; |
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39 | |
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40 | int rest_len; |
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41 | |
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42 | if (direction>=0) { |
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43 | rest_len = seq_len-position; |
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44 | } |
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45 | else { |
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46 | rest_len = position; |
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47 | } |
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48 | |
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49 | if (rest_len<=0 || text_len>rest_len) { |
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50 | return GBS_global_string("You can't insert text after the end of the sequence!"); |
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51 | } |
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52 | |
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53 | if (removeAtNextGap) { |
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54 | int nextGap = get_next_gap(position, direction); |
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55 | if (nextGap==-1) { |
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56 | goto no_gaps; |
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57 | } |
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58 | |
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59 | int afterGap = nextGap+direction; |
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60 | |
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61 | if (afterGap>=0 && afterGap<seq_len) { // in sequence |
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62 | if (seq[afterGap]!=seq[nextGap]) { // gap type changed -> warn to avoid overwrite of '?' |
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63 | return GBS_global_string("Only one gap %s text => insert aborted", direction>=0 ? "after" : "before"); |
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64 | } |
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65 | } |
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66 | |
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67 | rest_len = (afterGap-position)*direction; |
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68 | } |
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69 | |
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70 | if (direction>=0) { |
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71 | if (text_len + position >= seq_len) { |
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72 | return GBS_global_string("You cannot insert that many characters after cursor!"); |
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73 | } |
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74 | |
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75 | for (i = rest_len-text_len; i<rest_len; i++) { |
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76 | if (!ADPP_IS_ALIGN_CHARACTER(seq[position+i])) { |
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77 | goto no_gaps; |
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78 | } |
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79 | } |
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80 | |
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81 | for (i = position+rest_len-text_len-1; i>=position; i--) { |
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82 | seq[i+text_len] = seq[i]; |
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83 | } |
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84 | |
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85 | for (i = 0; i<text_len; i++) { |
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86 | seq[position+i] = text[i]; |
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87 | } |
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88 | } |
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89 | else { |
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90 | if (position - text_len < 0) { |
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91 | return GBS_global_string("You cannot insert that many characters before cursor!"); |
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92 | } |
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93 | |
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94 | for (i = 0; i<text_len; i++) { |
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95 | if (i<0 || !ADPP_IS_ALIGN_CHARACTER(seq[i])) { |
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96 | goto no_gaps; |
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97 | } |
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98 | } |
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99 | for (i = 0; i<position-text_len; i++) { |
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100 | seq[i] = seq[i+text_len]; |
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101 | } |
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102 | |
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103 | for (i = 0; i<text_len; i++) { |
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104 | seq[position-i-1] = text[i]; |
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105 | } |
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106 | } |
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107 | |
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108 | return 0; |
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109 | |
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110 | no_gaps : |
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111 | return GBS_global_string("There are no/not enough gaps at %s of sequence => can't insert characters%s", |
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112 | direction >= 0 ? "end" : "start", |
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113 | direction >= 0 ? "\nMaybe your sequences are not formatted?" : ""); |
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114 | } |
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115 | |
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116 | GB_ERROR ED4_Edit_String::remove(int len, long position, int direction, int insertAtNextGap) { |
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117 | |
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118 | int rest_len; // bases between cursor-position and the directed sequence end |
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119 | |
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120 | if (direction>=0) { // forward |
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121 | if ((len + position) >= seq_len) len = (int)(seq_len-position); |
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122 | rest_len = seq_len-position; |
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123 | } |
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124 | else { // backward |
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125 | position--; |
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126 | if (len>position) len = position; |
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127 | rest_len = position; |
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128 | } |
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129 | |
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130 | if ((position >= seq_len) || (len == 0) || (seq_len - len < 0)) { |
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131 | return GBS_global_string("Illegal delete position/length"); |
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132 | } |
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133 | |
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134 | if (insertAtNextGap) { |
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135 | int nextGap = get_next_gap(position+len*direction, direction); |
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136 | |
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137 | if (nextGap!=-1) { |
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138 | rest_len = (nextGap-position)*direction; |
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139 | } |
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140 | } |
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141 | |
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142 | int new_len = rest_len-len; // no of bases that will be copied |
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143 | int i; |
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144 | |
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145 | if (direction>=0) { |
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146 | for (i=0; i<new_len; i++) { |
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147 | seq[position+i] = seq[position+len+i]; |
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148 | } |
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149 | for (; i<rest_len; i++) { |
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150 | seq[position+i] = '.'; |
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151 | } |
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152 | } |
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153 | else { |
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154 | for (i=0; i<new_len; i++) { |
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155 | seq[position-i] = seq[position-len-i]; |
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156 | } |
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157 | for (; i<rest_len; i++) { |
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158 | seq[position-i] = '.'; |
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159 | } |
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160 | } |
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161 | |
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162 | e4_assert(seq[seq_len]=='\0'); |
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163 | |
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164 | return 0; |
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165 | } |
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166 | |
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167 | GB_ERROR ED4_Edit_String::replace(char *text, long position, int direction) { |
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168 | int text_len = strlen(text); |
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169 | int i; |
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170 | if (direction>=0) { |
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171 | |
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172 | if ((position + text_len > seq_len) || (position > seq_len)) { |
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173 | return GBS_global_string("Replace after end of sequence !"); |
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174 | } |
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175 | for (i = 0; i < text_len; i ++) { |
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176 | seq[i+position] = text[i]; |
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177 | } |
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178 | } |
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179 | else { |
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180 | if ((position - text_len < 0) || (position > seq_len)) { |
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181 | return GBS_global_string("Replace before start of sequence !"); |
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182 | } |
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183 | for (i = 0; i < text_len; i ++) { |
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184 | seq[position - i - 1] = text[i]; |
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185 | } |
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186 | } |
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187 | return 0; |
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188 | } |
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189 | |
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190 | GB_ERROR ED4_Edit_String::swap_gaps(long position, char ch) { |
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191 | long i; |
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192 | for (i = position; i < seq_len; i++) { |
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193 | if (!ADPP_IS_ALIGN_CHARACTER(seq[i])) break; |
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194 | seq[i] = ch; |
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195 | } |
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196 | for (i = position; i >= 0; i--) { |
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197 | if (!ADPP_IS_ALIGN_CHARACTER(seq[i])) break; |
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198 | seq[i] = ch; |
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199 | } |
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200 | return 0; |
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201 | } |
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202 | |
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203 | |
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204 | GB_ERROR ED4_Edit_String::moveBase(long source_position, long dest_position, unsigned char gap_to_use) |
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205 | { |
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206 | e4_assert(source_position!=dest_position); |
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207 | #ifdef SAFE_EDITING |
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208 | if (!legal_seqpos(dest_position) || !legal_seqpos(source_position)) { |
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209 | return "Position out of sequence"; |
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210 | } |
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211 | #endif |
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212 | |
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213 | int direction = dest_position<source_position ? -1 : 1; |
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214 | int base = seq[source_position]; |
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215 | e4_assert(!ADPP_IS_ALIGN_CHARACTER(base)); |
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216 | seq[source_position] = gap_to_use; |
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217 | |
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218 | long p = source_position+direction; |
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219 | while (p!=dest_position) { |
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220 | #ifdef SAFE_EDITING |
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221 | if (!ADPP_IS_ALIGN_CHARACTER(seq[p])) { |
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222 | e4_assert(0); |
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223 | return "Internal error: Tried to change base order in moveBase()"; |
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224 | } |
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225 | #endif |
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226 | e4_assert(ADPP_IS_ALIGN_CHARACTER(seq[p])); |
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227 | seq[p] = gap_to_use; |
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228 | p += direction; |
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229 | } |
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230 | |
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231 | seq[dest_position] = base; |
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232 | return 0; |
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233 | } |
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234 | |
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235 | GB_ERROR ED4_Edit_String::shiftBases(long source_pos, long last_source, long dest_pos, int direction, long *last_dest, unsigned char gap_to_use) |
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236 | // shifts bases from source_pos-last_source to dest_pos |
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237 | // last_dest is set to the position after the last dest_pos (direction<0 ? pos. right of bases : pos. left of bases) |
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238 | { |
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239 | GB_ERROR err = 0; |
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240 | |
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241 | if (direction<0) { |
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242 | e4_assert(dest_pos<source_pos); |
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243 | e4_assert(source_pos<=last_source); |
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244 | while (1) { |
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245 | err = moveBase(source_pos, dest_pos, gap_to_use); |
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246 | if (err || source_pos>=last_source) break; |
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247 | source_pos++; |
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248 | dest_pos++; |
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249 | while (!ADPP_IS_ALIGN_CHARACTER(seq[dest_pos])) { |
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250 | dest_pos++; |
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251 | } |
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252 | } |
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253 | } |
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254 | else { |
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255 | e4_assert(source_pos<dest_pos); |
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256 | e4_assert(last_source<=source_pos); |
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257 | while (1) { |
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258 | err = moveBase(source_pos, dest_pos, gap_to_use); |
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259 | if (err || source_pos<=last_source) break; |
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260 | source_pos--; |
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261 | dest_pos--; |
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262 | while (!ADPP_IS_ALIGN_CHARACTER(seq[dest_pos])) { |
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263 | dest_pos--; |
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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 | if (last_dest) { |
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269 | *last_dest = dest_pos; |
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270 | } |
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271 | |
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272 | return err; |
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273 | } |
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274 | |
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275 | long ED4_Edit_String::get_next_base(long position, int direction) { |
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276 | long pos; |
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277 | if (direction < 0) position--; |
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278 | for (pos = position; pos>=0 && pos < seq_len; pos += direction) { |
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279 | if (!ADPP_IS_ALIGN_CHARACTER(seq[pos])) break; |
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280 | } |
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281 | |
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282 | return pos<0 || pos>=seq_len ? -1 : pos; |
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283 | } |
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284 | long ED4_Edit_String::get_next_gap(long position, int direction) { |
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285 | long pos; |
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286 | if (direction < 0) position--; |
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287 | for (pos = position; pos >= 0 && pos < seq_len; pos += direction) { |
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288 | if (ADPP_IS_ALIGN_CHARACTER(seq[pos])) break; |
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289 | } |
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290 | |
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291 | return pos<0 || pos>=seq_len ? -1 : pos; |
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292 | } |
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293 | long ED4_Edit_String::get_next_visible_base(long position, int direction) |
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294 | { |
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295 | long pos; |
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296 | if (direction < 0) position--; |
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297 | for (pos = position; pos>=0 && pos < seq_len; pos += direction) { |
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298 | if (!ADPP_IS_ALIGN_CHARACTER(seq[pos]) && remap->is_shown(pos)) { |
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299 | break; |
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300 | } |
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301 | } |
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302 | |
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303 | return pos<0 || pos>=seq_len ? -1 : pos; |
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304 | } |
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305 | long ED4_Edit_String::get_next_visible_gap(long position, int direction) { |
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306 | long pos; |
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307 | if (direction < 0) position--; |
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308 | for (pos = position; pos >= 0 && pos < seq_len; pos += direction) { |
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309 | if (ADPP_IS_ALIGN_CHARACTER(seq[pos]) && remap->is_shown(pos)) { |
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310 | break; |
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311 | } |
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312 | } |
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313 | |
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314 | return pos<0 || pos>=seq_len ? -1 : pos; |
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315 | } |
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316 | long ED4_Edit_String::get_next_visible_pos(long position, int direction) |
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317 | { |
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318 | long pos; |
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319 | if (direction < 0) position--; |
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320 | for (pos = position; pos >= 0 && pos < seq_len; pos += direction) { |
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321 | if (remap->is_shown(pos)) { |
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322 | break; |
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323 | } |
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324 | } |
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325 | return pos<0 || pos>=seq_len ? -1 : pos; |
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326 | } |
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327 | |
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328 | extern AlignDataAccess dataAccess_4_aligner; |
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329 | |
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330 | unsigned char ED4_Edit_String::get_gap_type(long pos, int direction) |
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331 | { |
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332 | pos += direction; |
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333 | if (!legal_seqpos(pos)) return '.'; |
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334 | char gap = seq[pos]; |
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335 | if (ADPP_IS_ALIGN_CHARACTER(gap)) return gap; |
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336 | return '-'; |
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337 | } |
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338 | |
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339 | static GB_ERROR toggle_cursor_group_folding() { |
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340 | GB_ERROR error = NULL; |
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341 | ED4_cursor& cursor = current_cursor(); |
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342 | if (cursor.owner_of_cursor) { |
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343 | ED4_terminal *cursor_term = cursor.owner_of_cursor; |
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344 | |
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345 | if (cursor_term->is_in_folded_group()) { |
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346 | // cursor not visible -> unfold group which hides cursor |
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347 | cursor_term->setCursorTo(&cursor, cursor.get_sequence_pos(), true, ED4_JUMP_KEEP_POSITION); |
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348 | } |
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349 | else { |
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350 | ED4_base *group = cursor.owner_of_cursor->get_parent(ED4_L_GROUP); |
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351 | if (group) { |
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352 | ED4_group_manager *group_man = group->to_group_manager(); |
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353 | ED4_bracket_terminal *bracket_term = group_man->get_defined_level(ED4_L_BRACKET)->to_bracket_terminal(); |
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354 | |
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355 | if (group_man->dynamic_prop & ED4_P_IS_FOLDED) { |
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356 | bracket_term->unfold(); |
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357 | } |
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358 | else { |
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359 | ED4_species_manager *consensus_man = group_man->get_multi_species_manager()->get_consensus_manager(); |
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360 | if (consensus_man) consensus_man->setCursorTo(&cursor, cursor.get_sequence_pos(), true, ED4_JUMP_KEEP_POSITION); |
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361 | |
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362 | bracket_term->fold(); |
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363 | } |
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364 | } |
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365 | } |
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366 | } |
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367 | return error; |
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368 | } |
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369 | |
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370 | static void toggle_mark_of_specData(GBDATA *gb_data) { |
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371 | // toggle mark of species owning data 'gb_data' |
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372 | GB_transaction ta(gb_data); |
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373 | GBDATA *gb_species = GB_get_grandfather(gb_data); |
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374 | if (gb_species) GB_write_flag(gb_species, !GB_read_flag(gb_species)); |
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375 | } |
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376 | |
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377 | GB_ERROR ED4_Edit_String::command(AW_key_mod keymod, AW_key_code keycode, char key, int direction, ED4_EDITMODI mode, bool is_consensus, |
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378 | long &seq_pos, bool &changed_flag, ED4_CursorJumpType& cursor_jump, bool &cannot_handle, bool &write_fault, GBDATA* gb_data, bool is_sequence) |
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379 | { |
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380 | changed_flag = 0; |
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381 | write_fault = 0; |
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382 | if (keymod+keycode+key==0) return 0; |
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383 | |
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384 | e4_assert(nrepeat>0); |
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385 | |
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386 | long old_seq_pos = seq_pos; |
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387 | int screen_len = remap->sequence_to_screen(seq_len); |
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388 | int cursorpos = remap->sequence_to_screen(seq_pos); |
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389 | |
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390 | char str[2]; |
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391 | str[0] = key; |
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392 | str[1] = 0; |
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393 | |
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394 | direction = direction>0 ? 1 : -1; |
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395 | |
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396 | if ((cursorpos > screen_len) || (cursorpos < 0)) { |
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397 | if (cursorpos<MAXSEQUENCECHARACTERLENGTH && cursorpos>=0) { |
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398 | char *seq2 = new char[MAXSEQUENCECHARACTERLENGTH+1]; |
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399 | |
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400 | memcpy(seq2, seq, seq_len); |
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401 | memset(seq2+seq_len, '.', MAXSEQUENCECHARACTERLENGTH-seq_len); |
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402 | seq_len = MAXSEQUENCECHARACTERLENGTH; |
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403 | seq2[seq_len] = 0; |
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404 | |
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405 | delete seq; |
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406 | seq = seq2; |
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407 | |
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408 | changed_flag = 1; |
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409 | } |
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410 | else { |
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411 | return GBS_global_string("Cursor out of sequence at screen_pos #%i!", cursorpos); |
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412 | } |
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413 | } |
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414 | |
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415 | GB_ERROR ad_err = 0; |
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416 | long h; |
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417 | bool reinterpret_key = true; |
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418 | |
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419 | while (reinterpret_key) { |
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420 | reinterpret_key = false; |
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421 | |
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422 | switch (keycode) { |
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423 | case AW_KEY_HOME: { |
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424 | int new_seq_pos = get_next_visible_base(0, 1); |
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425 | if (new_seq_pos>=0) seq_pos = new_seq_pos==seq_pos ? 0 : new_seq_pos; |
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426 | else seq_pos = 0; |
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427 | break; |
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428 | } |
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429 | case AW_KEY_END: { |
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430 | int new_seq_pos = get_next_visible_base(seq_len, -1); |
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431 | if (new_seq_pos>=0) { |
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432 | int new_gap_pos = get_next_visible_gap(new_seq_pos, 1); |
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433 | if (new_gap_pos >= 0) { |
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434 | seq_pos = new_gap_pos==seq_pos ? seq_len : new_gap_pos; |
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435 | } |
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436 | else { |
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437 | seq_pos = seq_len; |
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438 | } |
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439 | } |
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440 | else { |
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441 | seq_pos = seq_len; |
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442 | } |
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443 | break; |
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444 | } |
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445 | case AW_KEY_LEFT: |
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446 | case AW_KEY_RIGHT: { |
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447 | direction = keycode==AW_KEY_RIGHT ? 1 : -1; |
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448 | |
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449 | // no key modifier -> just move cursor |
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450 | |
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451 | int n = nrepeat; |
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452 | |
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453 | if (keymod == AW_KEYMODE_NONE) { |
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454 | while (n--) { |
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455 | do { |
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456 | seq_pos += direction; |
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457 | } |
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458 | while (legal_curpos(seq_pos) && !remap->is_shown(seq_pos)); |
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459 | } |
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460 | break; |
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461 | } |
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462 | |
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463 | if (mode==AD_NOWRITE) { write_fault = 1; break; } |
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464 | |
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465 | int jump_or_fetch = 0; // 1=jump selected 2=fetch selected (for repeat only) |
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466 | int push_or_pull = 0; // 1=push selected 2=pull selected (for repeat only) |
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467 | |
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468 | // ------------------ |
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469 | // loop over nrepeat: |
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470 | |
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471 | while (!ad_err && n-->0 && legal_curpos(seq_pos)) { |
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472 | cursorpos = remap->sequence_to_screen(seq_pos); |
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473 | |
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474 | int adjacent_scr_pos = cursorpos - (direction<0); // screen position next to the cursor |
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475 | if (adjacent_scr_pos<0 || size_t(adjacent_scr_pos)>remap->get_max_screen_pos()) { |
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476 | ad_err = GBS_global_string("Action beyond end of screen!"); |
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477 | break; |
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478 | } |
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479 | |
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480 | int adjacent_seq_pos = remap->screen_to_sequence(adjacent_scr_pos); // _visible_ sequence position next to the cursor |
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481 | int real_adjacent_seq_pos = seq_pos - (direction<0); // sequence position next to cursor (not necessarily visible) |
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482 | |
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483 | if (adjacent_seq_pos<0 || adjacent_seq_pos>=seq_len) { |
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484 | ad_err = GBS_global_string("Action beyond end of sequence!"); |
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485 | break; |
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486 | } |
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487 | |
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488 | // Ctrl+Cursor = move cursor to next end of word (or to end of next word) |
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489 | |
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490 | if (keymod & AW_KEYMODE_CONTROL) { |
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491 | if (adjacent_scr_pos>=0) { |
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492 | long pos = adjacent_seq_pos; |
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493 | |
---|
494 | if (ED4_ROOT->aw_root->awar(ED4_AWAR_FAST_CURSOR_JUMP)->read_int()) { // should cursor jump over next group? |
---|
495 | if (ADPP_IS_ALIGN_CHARACTER(seq[pos])) { |
---|
496 | pos = get_next_visible_base(pos, direction); |
---|
497 | if (pos>=0) pos = get_next_visible_gap(pos, direction); |
---|
498 | } |
---|
499 | else { |
---|
500 | pos = get_next_visible_gap(pos, direction); |
---|
501 | } |
---|
502 | |
---|
503 | seq_pos = (pos>=0 |
---|
504 | ? (direction<0 ? pos+1 : pos) |
---|
505 | : (direction<0 ? 0 : seq_len-1)); |
---|
506 | } |
---|
507 | else { |
---|
508 | if (ADPP_IS_ALIGN_CHARACTER(seq[pos])) { seq_pos = get_next_visible_base(pos, direction); } |
---|
509 | else { seq_pos = get_next_visible_gap(pos, direction); } |
---|
510 | |
---|
511 | if (direction<0) { seq_pos = seq_pos==-1 ? 0 : seq_pos+1; } |
---|
512 | else { seq_pos = seq_pos==-1 ? seq_len : seq_pos; } |
---|
513 | } |
---|
514 | } |
---|
515 | continue; |
---|
516 | } |
---|
517 | |
---|
518 | // ALT/META+Cursor = jump & fetch |
---|
519 | |
---|
520 | if (keymod & (AW_KEYMODE_ALT)) { |
---|
521 | if (is_consensus) { cannot_handle = 1; return 0; } |
---|
522 | |
---|
523 | if (ADPP_IS_ALIGN_CHARACTER(seq[adjacent_seq_pos])) { // there's a _gap_ next to the cursor -> let's fetch |
---|
524 | if (jump_or_fetch!=1) { |
---|
525 | jump_or_fetch = 2; |
---|
526 | long source_pos = get_next_base(adjacent_seq_pos, direction); // position of base to fetch |
---|
527 | if (source_pos==-1) { // there is nothing to fetch |
---|
528 | n = 0; |
---|
529 | } |
---|
530 | else { |
---|
531 | ad_err = moveBase(source_pos, adjacent_seq_pos, get_gap_type(source_pos, direction)); |
---|
532 | seq_pos = adjacent_seq_pos + (direction>0); |
---|
533 | } |
---|
534 | } |
---|
535 | else { |
---|
536 | n = 0; |
---|
537 | } |
---|
538 | } |
---|
539 | else { // there's a _base_ next to the cursor -> let it jump |
---|
540 | if (jump_or_fetch!=2) { |
---|
541 | jump_or_fetch = 1; |
---|
542 | int next_gap = adjacent_seq_pos - direction; |
---|
543 | |
---|
544 | if (ADPP_IS_ALIGN_CHARACTER(seq[next_gap])) { |
---|
545 | int dest_pos = get_next_base(next_gap, -direction); |
---|
546 | |
---|
547 | if (dest_pos<0) { |
---|
548 | dest_pos = direction>0 ? 0 : seq_len-1; |
---|
549 | } |
---|
550 | else { |
---|
551 | dest_pos += direction; |
---|
552 | } |
---|
553 | |
---|
554 | if (ADPP_IS_ALIGN_CHARACTER(seq[dest_pos])) { |
---|
555 | ad_err = moveBase(adjacent_seq_pos, dest_pos, get_gap_type(adjacent_seq_pos, direction)); |
---|
556 | if (!ad_err) { |
---|
557 | seq_pos = get_next_base(seq_pos, direction)+(direction<0); |
---|
558 | if (seq_pos==-1) { |
---|
559 | seq_pos = direction<0 ? 0 : seq_len; |
---|
560 | } |
---|
561 | } |
---|
562 | } |
---|
563 | else { |
---|
564 | e4_assert(0); |
---|
565 | } |
---|
566 | } |
---|
567 | else { |
---|
568 | ad_err = GBS_global_string("You can only jump single bases."); |
---|
569 | } |
---|
570 | } |
---|
571 | else { |
---|
572 | n = 0; |
---|
573 | } |
---|
574 | } |
---|
575 | |
---|
576 | if (!ad_err) { |
---|
577 | changed_flag = 1; |
---|
578 | } |
---|
579 | |
---|
580 | continue; |
---|
581 | } |
---|
582 | |
---|
583 | // Shift+Cursor = push/pull character |
---|
584 | |
---|
585 | if (is_consensus) { cannot_handle = 1; return 0; }; |
---|
586 | |
---|
587 | if (ADPP_IS_ALIGN_CHARACTER(seq[real_adjacent_seq_pos])) { // pull |
---|
588 | long dest_pos = real_adjacent_seq_pos; |
---|
589 | long source_pos = real_adjacent_seq_pos-direction; |
---|
590 | |
---|
591 | if (!ADPP_IS_ALIGN_CHARACTER(seq[source_pos]) && push_or_pull!=1) { |
---|
592 | push_or_pull = 2; |
---|
593 | |
---|
594 | long next_gap = get_next_gap(source_pos, -direction); |
---|
595 | long last_source = next_gap>=0 ? next_gap : (direction>0 ? 0 : seq_len-1); |
---|
596 | |
---|
597 | if (ADPP_IS_ALIGN_CHARACTER(seq[last_source])) { |
---|
598 | last_source = get_next_base(last_source, direction); |
---|
599 | } |
---|
600 | |
---|
601 | ad_err = shiftBases(source_pos, last_source, dest_pos, direction, 0, |
---|
602 | is_sequence ? get_gap_type(last_source, -direction) : '.'); |
---|
603 | |
---|
604 | if (!ad_err) { |
---|
605 | seq_pos = dest_pos + (direction>0); |
---|
606 | changed_flag = 1; |
---|
607 | } |
---|
608 | } |
---|
609 | else { |
---|
610 | n = 0; |
---|
611 | } |
---|
612 | } |
---|
613 | else { // push |
---|
614 | long next_gap = get_next_gap(adjacent_seq_pos, direction); |
---|
615 | |
---|
616 | if (next_gap>=0 && push_or_pull!=2) { |
---|
617 | push_or_pull = 1; |
---|
618 | long dest_pos = next_gap; |
---|
619 | long source_pos = get_next_base(next_gap, -direction); |
---|
620 | long last_source = adjacent_seq_pos; |
---|
621 | |
---|
622 | e4_assert(source_pos>=0); |
---|
623 | ad_err = shiftBases(source_pos, last_source, dest_pos, direction, &dest_pos, |
---|
624 | is_sequence ? get_gap_type(last_source, -direction) : '.'); |
---|
625 | |
---|
626 | if (!ad_err) { |
---|
627 | seq_pos = dest_pos + (direction<0); |
---|
628 | changed_flag = 1; |
---|
629 | } |
---|
630 | } |
---|
631 | else { |
---|
632 | n = 0; |
---|
633 | } |
---|
634 | } |
---|
635 | } |
---|
636 | break; |
---|
637 | } |
---|
638 | |
---|
639 | case AW_KEY_BACKSPACE: |
---|
640 | h = seq_pos; |
---|
641 | |
---|
642 | if (direction>0) { |
---|
643 | seq_pos -= nrepeat; |
---|
644 | } |
---|
645 | else { |
---|
646 | seq_pos += nrepeat; |
---|
647 | } |
---|
648 | if (seq_pos <0 || seq_pos >= seq_len) { |
---|
649 | seq_pos = h; |
---|
650 | break; |
---|
651 | } |
---|
652 | // fall-through |
---|
653 | |
---|
654 | case AW_KEY_DELETE: |
---|
655 | h = seq_pos; |
---|
656 | |
---|
657 | if (is_consensus) { cannot_handle = 1; return 0; }; |
---|
658 | if (keymod) { return 0; } |
---|
659 | |
---|
660 | if (mode==AD_NOWRITE) { write_fault = 1; break; } |
---|
661 | |
---|
662 | switch (mode) { |
---|
663 | case AD_ALIGN: |
---|
664 | { |
---|
665 | int len; |
---|
666 | int offset; |
---|
667 | |
---|
668 | ad_err = 0; |
---|
669 | if (direction>=0) offset = 0; |
---|
670 | else offset = -nrepeat; |
---|
671 | |
---|
672 | for (len = nrepeat-1; len>=0; len--) { |
---|
673 | if (!ADPP_IS_ALIGN_CHARACTER(seq[h+offset+len])) { |
---|
674 | ad_err = GBS_global_string("You cannot remove bases in align mode"); |
---|
675 | break; |
---|
676 | } |
---|
677 | } |
---|
678 | if (ad_err) break; |
---|
679 | } |
---|
680 | case AD_REPLACE: |
---|
681 | case AD_INSERT: |
---|
682 | ad_err = remove(nrepeat, h, direction, !is_sequence); |
---|
683 | if (!ad_err) { |
---|
684 | changed_flag = 1; |
---|
685 | } |
---|
686 | break; |
---|
687 | default: |
---|
688 | break; |
---|
689 | } |
---|
690 | |
---|
691 | break; |
---|
692 | |
---|
693 | case AW_KEY_RETURN: |
---|
694 | ad_err = toggle_cursor_group_folding(); |
---|
695 | break; |
---|
696 | |
---|
697 | case AW_KEY_ASCII: { |
---|
698 | |
---|
699 | // keyboard layout: |
---|
700 | // |
---|
701 | // - CTRL-A Align ok |
---|
702 | // - CTRL-E Toggle edit/align ok |
---|
703 | // - CTRL-I Toggle insert/replace ok |
---|
704 | // - CTRL-J Jump opposite helix position ok |
---|
705 | // - CTRL-L Refresh ok |
---|
706 | // - CTRL-M Invert mark ok |
---|
707 | // - CTRL-R set aligner reference species ok |
---|
708 | // - CTRL-S Repeat last search ok |
---|
709 | // - CTRL-U Undo @@@ crashes!!! |
---|
710 | |
---|
711 | |
---|
712 | if (key >0 && key<=26) { // CTRL-Keys |
---|
713 | switch (key+'A'-1) { |
---|
714 | case 'R': { // CTRL-R = set aligner reference species |
---|
715 | if (is_consensus) { cannot_handle = 1; return 0; }; |
---|
716 | |
---|
717 | FastAligner_set_reference_species(0, (AW_CL)ED4_ROOT->aw_root); |
---|
718 | break; |
---|
719 | } |
---|
720 | case 'A': { // CTRL-A = Start Fast-Aligner |
---|
721 | AW_window *aw_tmp = current_aww(); |
---|
722 | if (is_consensus) { cannot_handle = 1; return 0; }; |
---|
723 | if (mode==AD_NOWRITE) { write_fault = 1; return 0; } |
---|
724 | |
---|
725 | int old_refresh = dataAccess_4_aligner.do_refresh; |
---|
726 | dataAccess_4_aligner.do_refresh = 0; |
---|
727 | |
---|
728 | ED4_init_aligner_data_access(&dataAccess_4_aligner); |
---|
729 | |
---|
730 | FastAligner_set_align_current(ED4_ROOT->aw_root, ED4_ROOT->props_db); |
---|
731 | AW_clock_cursor(ED4_ROOT->aw_root); |
---|
732 | GB_commit_transaction(dataAccess_4_aligner.gb_main); |
---|
733 | |
---|
734 | FastAligner_start(aw_tmp, (AW_CL)&dataAccess_4_aligner); |
---|
735 | |
---|
736 | GB_begin_transaction(dataAccess_4_aligner.gb_main); |
---|
737 | AW_normal_cursor(ED4_ROOT->aw_root); |
---|
738 | dataAccess_4_aligner.do_refresh = old_refresh; |
---|
739 | |
---|
740 | int basesLeftOf = 0; |
---|
741 | int pos; |
---|
742 | |
---|
743 | for (pos=0; pos < seq_pos && pos<seq_len; pos++) { // count # of bases left of cursorpos |
---|
744 | if (!ADPP_IS_ALIGN_CHARACTER(seq[pos])) { |
---|
745 | basesLeftOf++; |
---|
746 | } |
---|
747 | } |
---|
748 | |
---|
749 | char *aligned_seq = GB_read_string(gb_data); // read new sequence |
---|
750 | ad_err = GB_write_string(gb_data, seq); // restore old sequence |
---|
751 | |
---|
752 | freeset(seq, aligned_seq); // set new sequence |
---|
753 | changed_flag = 1; // and mark changed |
---|
754 | |
---|
755 | { |
---|
756 | int basesLeftOf2 = 0; |
---|
757 | int lastCorrectPos = -1; |
---|
758 | for (pos=0; pos<seq_pos && pos<seq_len; pos++) { // count # of bases left of cursorpos |
---|
759 | if (!ADPP_IS_ALIGN_CHARACTER(seq[pos])) { |
---|
760 | basesLeftOf2++; |
---|
761 | if (basesLeftOf2 == basesLeftOf) lastCorrectPos = pos; |
---|
762 | } |
---|
763 | } |
---|
764 | |
---|
765 | if (basesLeftOf != basesLeftOf2) { // old cursor-position has different basepos |
---|
766 | if (lastCorrectPos != -1) { // already seen position with same basepos |
---|
767 | seq_len = lastCorrectPos+1; |
---|
768 | } |
---|
769 | else { |
---|
770 | for (; pos<seq_len; pos++) { |
---|
771 | if (!ADPP_IS_ALIGN_CHARACTER(seq[pos])) { |
---|
772 | basesLeftOf2++; |
---|
773 | if (basesLeftOf2 == basesLeftOf) { |
---|
774 | seq_pos = pos+1; |
---|
775 | break; // stop after first matching position |
---|
776 | } |
---|
777 | } |
---|
778 | } |
---|
779 | } |
---|
780 | } |
---|
781 | } |
---|
782 | break; |
---|
783 | } |
---|
784 | case 'E': { // CTRL-E = Toggle Edit/Align-Mode |
---|
785 | ED4_ROOT->aw_root->awar(AWAR_EDIT_MODE)->toggle_toggle(); |
---|
786 | break; |
---|
787 | } |
---|
788 | case 'I': { // CTRL-I = Toggle Insert/Replace-Mode |
---|
789 | ED4_ROOT->aw_root->awar(AWAR_INSERT_MODE)->toggle_toggle(); |
---|
790 | break; |
---|
791 | } |
---|
792 | case 'J': { // CTRL-J = Jump to opposite helix position |
---|
793 | AW_helix *helix = ED4_ROOT->helix; |
---|
794 | |
---|
795 | if (!helix->has_entries()) ad_err = strdup("Got no helix information"); |
---|
796 | else if (helix->pairtype(seq_pos) != HELIX_NONE) { |
---|
797 | seq_pos = helix->opposite_position(seq_pos); |
---|
798 | cursor_jump = ED4_JUMP_KEEP_POSITION; |
---|
799 | } |
---|
800 | else ad_err = strdup("Not at helix position"); |
---|
801 | break; |
---|
802 | } |
---|
803 | case 'K': { // Ctrl-K = Compression on/off |
---|
804 | static int last_mode; |
---|
805 | int current_mode = (ED4_remap_mode)ED4_ROOT->aw_root->awar(ED4_AWAR_COMPRESS_SEQUENCE_GAPS)->read_int(); |
---|
806 | int next_mode = last_mode; |
---|
807 | |
---|
808 | if (current_mode==0) { // if not compressed |
---|
809 | if (last_mode==0) next_mode = 2; // force compress |
---|
810 | } |
---|
811 | else { // if compressed |
---|
812 | next_mode = 0; // force uncompressed |
---|
813 | } |
---|
814 | |
---|
815 | ED4_ROOT->aw_root->awar(ED4_AWAR_COMPRESS_SEQUENCE_GAPS)->write_int(next_mode); |
---|
816 | |
---|
817 | last_mode = current_mode; |
---|
818 | break; |
---|
819 | } |
---|
820 | case 'L': { // CTRL-L = Refresh |
---|
821 | ED4_request_full_refresh(); |
---|
822 | ED4_request_relayout(); |
---|
823 | cursor_jump = ED4_JUMP_CENTERED; |
---|
824 | break; |
---|
825 | } |
---|
826 | case 'M': // CTRL-M = Invert mark(s) |
---|
827 | if (is_consensus) { cannot_handle = 1; return 0; } |
---|
828 | toggle_mark_of_specData(gb_data); |
---|
829 | break; |
---|
830 | |
---|
831 | case 'S': { // CTRL-S = Repeat last search |
---|
832 | ad_err = ED4_repeat_last_search(current_ed4w()); |
---|
833 | seq_pos = current_cursor().get_sequence_pos(); |
---|
834 | cursor_jump = ED4_JUMP_KEEP_POSITION; |
---|
835 | break; |
---|
836 | } |
---|
837 | case 'U': { |
---|
838 | // ad_err = GB_undo(gb_main, GB_UNDO_UNDO); // @@@ stuerzt ab - wahrscheinlich weil Transaktion offen ist |
---|
839 | break; |
---|
840 | } |
---|
841 | case 'O': { // for ALT-left |
---|
842 | keycode = AW_KEY_LEFT; |
---|
843 | keymod = AW_KEYMODE_ALT; |
---|
844 | reinterpret_key = true; |
---|
845 | break; |
---|
846 | } |
---|
847 | case 'P': { // for ALT-right |
---|
848 | keycode = AW_KEY_RIGHT; |
---|
849 | keymod = AW_KEYMODE_ALT; |
---|
850 | reinterpret_key = true; |
---|
851 | break; |
---|
852 | } |
---|
853 | } |
---|
854 | } |
---|
855 | else { // normal characters |
---|
856 | if (is_consensus) { cannot_handle = 1; return 0; } |
---|
857 | if (mode==AD_NOWRITE) { write_fault = 1; break; } |
---|
858 | |
---|
859 | if (key == ' ') { |
---|
860 | if (is_sequence) { |
---|
861 | long left = seq_pos>0 ? seq_pos-1 : 0; |
---|
862 | int l = seq[left]; |
---|
863 | int r = seq[seq_pos]; |
---|
864 | |
---|
865 | char gapchar_at_pos = ADPP_IS_ALIGN_CHARACTER(l) ? l : (ADPP_IS_ALIGN_CHARACTER(r) ? r : 0); |
---|
866 | |
---|
867 | switch (keymod) { |
---|
868 | case AW_KEYMODE_NONE: |
---|
869 | key = gapchar_at_pos ? gapchar_at_pos : '-'; // insert (same) gap |
---|
870 | break; |
---|
871 | |
---|
872 | case AW_KEYMODE_CONTROL: |
---|
873 | if (gapchar_at_pos) key = gapchar_at_pos == '-' ? '.' : '-'; // toggle gaptype |
---|
874 | break; |
---|
875 | |
---|
876 | default: break; |
---|
877 | } |
---|
878 | } |
---|
879 | str[0] = key; |
---|
880 | } |
---|
881 | |
---|
882 | if (ADPP_IS_ALIGN_CHARACTER(key) && keymod == AW_KEYMODE_CONTROL) { // gap-type change works in all modes |
---|
883 | // gap type functions ('.' <-> '-') |
---|
884 | |
---|
885 | long left = seq_pos>0 ? seq_pos-1 : 0; |
---|
886 | int l = seq[left]; |
---|
887 | int r = seq[seq_pos]; |
---|
888 | |
---|
889 | if (ADPP_IS_ALIGN_CHARACTER(l) && l!=key) { ad_err = swap_gaps(left, key); changed_flag = 1; } |
---|
890 | else if (ADPP_IS_ALIGN_CHARACTER(r) && r!=key) { ad_err = swap_gaps(seq_pos, key); changed_flag = 1; } |
---|
891 | } |
---|
892 | else { |
---|
893 | switch (mode) { |
---|
894 | case AD_ALIGN: { |
---|
895 | if (ADPP_IS_ALIGN_CHARACTER(key)) { |
---|
896 | if (keymod == AW_KEYMODE_NONE) { |
---|
897 | if (!ad_err) { |
---|
898 | char *nstr = (char *)GB_calloc(1, nrepeat+1); |
---|
899 | int i; |
---|
900 | |
---|
901 | for (i = 0; i< nrepeat; i++) nstr[i] = key; |
---|
902 | ad_err = insert(nstr, seq_pos, direction, 0); |
---|
903 | if (!ad_err) seq_pos = get_next_visible_pos(seq_pos+(direction>=0 ? nrepeat : 0), direction); |
---|
904 | delete nstr; |
---|
905 | } |
---|
906 | changed_flag = 1; |
---|
907 | } |
---|
908 | } |
---|
909 | else { // check typed bases against sequence |
---|
910 | while (nrepeat && !ad_err) { |
---|
911 | nrepeat--; |
---|
912 | seq_pos = get_next_visible_base(seq_pos, direction); |
---|
913 | if (seq_pos<0 || seq_pos>=seq_len) { |
---|
914 | ad_err = GBS_global_string("End of sequence reached"); |
---|
915 | } |
---|
916 | else if (seq[seq_pos]!=key) { |
---|
917 | ad_err = GBS_global_string("Base '%c' at %li does not match '%c'", seq[seq_pos], seq_pos, key); |
---|
918 | } |
---|
919 | else { |
---|
920 | seq_pos = get_next_visible_pos(seq_pos, direction)+1; |
---|
921 | ad_err = 0; |
---|
922 | } |
---|
923 | if (ad_err) { |
---|
924 | ed4_beep(); |
---|
925 | } |
---|
926 | } |
---|
927 | } |
---|
928 | break; |
---|
929 | } |
---|
930 | case AD_REPLACE: { |
---|
931 | while (nrepeat && !ad_err) { |
---|
932 | nrepeat--; |
---|
933 | if (direction>0) { |
---|
934 | ad_err = replace(str, seq_pos, 1); |
---|
935 | |
---|
936 | if (!ad_err) { |
---|
937 | seq_pos++; |
---|
938 | changed_flag = 1; |
---|
939 | } |
---|
940 | } |
---|
941 | else { |
---|
942 | int left_pos = get_next_visible_pos(seq_pos, -1); |
---|
943 | |
---|
944 | if (left_pos>=0) ad_err = replace(str, left_pos+1, -1); |
---|
945 | else ad_err = "End of sequence"; |
---|
946 | |
---|
947 | if (!ad_err) { |
---|
948 | seq_pos = left_pos; |
---|
949 | changed_flag = 1; |
---|
950 | } |
---|
951 | } |
---|
952 | } |
---|
953 | break; |
---|
954 | } |
---|
955 | case AD_INSERT: { |
---|
956 | while (nrepeat && !ad_err) { |
---|
957 | nrepeat--; |
---|
958 | if (direction>0) { |
---|
959 | ad_err = insert(str, seq_pos, 1, !is_sequence); |
---|
960 | |
---|
961 | if (!ad_err) { |
---|
962 | seq_pos++; |
---|
963 | changed_flag = 1; |
---|
964 | } |
---|
965 | } |
---|
966 | else { |
---|
967 | int left_pos = get_next_visible_pos(seq_pos, -1); |
---|
968 | |
---|
969 | if (left_pos>=0) { |
---|
970 | ad_err = insert(str, left_pos+1, -1, !is_sequence); |
---|
971 | } |
---|
972 | else { |
---|
973 | ad_err = "End of sequence"; |
---|
974 | } |
---|
975 | |
---|
976 | if (!ad_err) { |
---|
977 | seq_pos = left_pos; |
---|
978 | changed_flag = 1; |
---|
979 | } |
---|
980 | } |
---|
981 | } |
---|
982 | break; |
---|
983 | } |
---|
984 | default: { |
---|
985 | break; |
---|
986 | } |
---|
987 | } |
---|
988 | } |
---|
989 | |
---|
990 | } |
---|
991 | break; |
---|
992 | } |
---|
993 | default: { |
---|
994 | break; |
---|
995 | } |
---|
996 | |
---|
997 | } |
---|
998 | } |
---|
999 | |
---|
1000 | if (ad_err) seq_pos = old_seq_pos; |
---|
1001 | seq_pos = seq_pos<0 ? 0 : (seq_pos>seq_len ? seq_len : seq_pos); // ensure legal position |
---|
1002 | |
---|
1003 | return ad_err; |
---|
1004 | } |
---|
1005 | |
---|
1006 | ED4_Edit_String::ED4_Edit_String() |
---|
1007 | { |
---|
1008 | memset((char *)this, 0, sizeof(*this)); |
---|
1009 | remap = ED4_ROOT->root_group_man->remap(); |
---|
1010 | } |
---|
1011 | |
---|
1012 | ED4_Edit_String::~ED4_Edit_String() |
---|
1013 | { |
---|
1014 | free(old_seq); |
---|
1015 | } |
---|
1016 | |
---|
1017 | GB_ERROR ED4_Edit_String::edit(ED4_work_info *info) { |
---|
1018 | e4_assert(info->working_terminal != 0); |
---|
1019 | |
---|
1020 | if (!info->rightward) { // 5'<-3' |
---|
1021 | info->char_position++; |
---|
1022 | } |
---|
1023 | |
---|
1024 | info->out_seq_position = remap->screen_to_sequence(info->char_position); |
---|
1025 | info->refresh_needed = false; |
---|
1026 | info->cursor_jump = ED4_JUMP_KEEP_VISIBLE; |
---|
1027 | info->cannot_handle = false; |
---|
1028 | old_seq = 0; |
---|
1029 | |
---|
1030 | if (info->string) { |
---|
1031 | seq = info->string; |
---|
1032 | seq_len = strlen(seq); |
---|
1033 | } |
---|
1034 | else { |
---|
1035 | e4_assert(info->gb_data); |
---|
1036 | int seq_len_int; |
---|
1037 | seq = info->working_terminal->resolve_pointer_to_string_copy(&seq_len_int); |
---|
1038 | seq_len = seq_len_int; |
---|
1039 | } |
---|
1040 | |
---|
1041 | int map_key; |
---|
1042 | if (info->event.keymodifier == AW_KEYMODE_NONE) { |
---|
1043 | map_key = ED4_ROOT->edk->map_key(info->event.character); |
---|
1044 | if (map_key != info->event.character) { // remapped |
---|
1045 | if (info->event.character == ' ') { // space |
---|
1046 | AW_advice("You have keymapped the space-key!\n" |
---|
1047 | "The new functionality assigned to space-key is not available when\n" |
---|
1048 | "key-mapping is enabled.\n", |
---|
1049 | AW_ADVICE_TOGGLE_AND_HELP, "Obsolete default keymapping", "nekey_map.hlp"); |
---|
1050 | } |
---|
1051 | } |
---|
1052 | } |
---|
1053 | else { |
---|
1054 | map_key = info->event.character; |
---|
1055 | } |
---|
1056 | GB_ERROR err = 0; |
---|
1057 | |
---|
1058 | nrepeat_zero_requested = 1; |
---|
1059 | if (!nrepeat) { |
---|
1060 | nrepeat_is_already_set = 1; |
---|
1061 | nrepeat = 1; |
---|
1062 | } |
---|
1063 | |
---|
1064 | if (info->event.keycode==AW_KEY_ASCII && |
---|
1065 | isdigit(map_key) && |
---|
1066 | ED4_ROOT->aw_root->awar(ED4_AWAR_DIGITS_AS_REPEAT)->read_int()) { // handle digits for repeated commands |
---|
1067 | |
---|
1068 | if (nrepeat_is_already_set) { nrepeat = 0; } |
---|
1069 | nrepeat_zero_requested = 0; |
---|
1070 | |
---|
1071 | for (int r=0; r<info->repeat_count; r++) { |
---|
1072 | nrepeat = nrepeat * 10 + (map_key - '0'); |
---|
1073 | if (nrepeat>10000) { |
---|
1074 | nrepeat = 10000; |
---|
1075 | } |
---|
1076 | else if (nrepeat<0) { |
---|
1077 | nrepeat = 0; |
---|
1078 | } |
---|
1079 | } |
---|
1080 | #ifdef DEBUG |
---|
1081 | if (nrepeat>1) { |
---|
1082 | printf("nrepeat=%i\n", nrepeat); |
---|
1083 | } |
---|
1084 | #endif |
---|
1085 | } |
---|
1086 | else if (info->event.keymodifier==AW_KEYMODE_NONE && info->event.keycode==AW_KEY_NONE) { |
---|
1087 | nrepeat_zero_requested = 0; |
---|
1088 | } |
---|
1089 | else { |
---|
1090 | nrepeat += info->repeat_count-1; |
---|
1091 | |
---|
1092 | #ifdef DEBUG |
---|
1093 | if (nrepeat>1) { |
---|
1094 | printf("nrepeat is %i\n", nrepeat); |
---|
1095 | } |
---|
1096 | #endif |
---|
1097 | |
---|
1098 | int is_remapped_sequence = !info->is_sequence && ED4_ROOT->aw_root->awar(ED4_AWAR_COMPRESS_SEQUENCE_TYPE)->read_int()!=ED4_RM_NONE; |
---|
1099 | if (info->mode==AD_NOWRITE_IF_COMPRESSED) { |
---|
1100 | if (is_remapped_sequence) { |
---|
1101 | info->mode = AD_NOWRITE; |
---|
1102 | } |
---|
1103 | else { |
---|
1104 | info->mode = AD_INSERT; |
---|
1105 | } |
---|
1106 | } |
---|
1107 | |
---|
1108 | bool write_fault = 0; |
---|
1109 | |
---|
1110 | err = command(info->event.keymodifier, |
---|
1111 | info->event.keycode, |
---|
1112 | map_key, |
---|
1113 | info->rightward, |
---|
1114 | info->mode, |
---|
1115 | (int)(info->string!=0), |
---|
1116 | info->out_seq_position, |
---|
1117 | info->refresh_needed, |
---|
1118 | info->cursor_jump, |
---|
1119 | info->cannot_handle, |
---|
1120 | write_fault, |
---|
1121 | info->gb_data, |
---|
1122 | info->is_sequence); |
---|
1123 | |
---|
1124 | e4_assert(!(err && info->cannot_handle)); |
---|
1125 | |
---|
1126 | if (write_fault) { |
---|
1127 | e4_assert(info->mode==AD_NOWRITE); |
---|
1128 | aw_message(is_remapped_sequence |
---|
1129 | ? "Check 'Show all gaps' when editing remarks" |
---|
1130 | : "This terminal is write-protected!"); |
---|
1131 | } |
---|
1132 | } |
---|
1133 | |
---|
1134 | if (!err) { |
---|
1135 | if (info->gb_data) { |
---|
1136 | if (info->refresh_needed) { |
---|
1137 | e4_assert(info->working_terminal->get_species_pointer() == info->gb_data); |
---|
1138 | |
---|
1139 | int old_seq_len_int; |
---|
1140 | old_seq = info->working_terminal->resolve_pointer_to_string_copy(&old_seq_len_int); |
---|
1141 | old_seq_len = old_seq_len_int; |
---|
1142 | |
---|
1143 | err = info->working_terminal->write_sequence(seq, seq_len); |
---|
1144 | if (err) { |
---|
1145 | info->out_seq_position = remap->screen_to_sequence(info->char_position); // correct cursor_pos if protection error occurred |
---|
1146 | } |
---|
1147 | } |
---|
1148 | freenull(seq); |
---|
1149 | } |
---|
1150 | } |
---|
1151 | |
---|
1152 | if (!info->rightward) { |
---|
1153 | info->char_position = remap->sequence_to_screen_PLAIN(info->out_seq_position); |
---|
1154 | e4_assert(info->char_position >= 0); |
---|
1155 | info->char_position--; |
---|
1156 | info->out_seq_position = remap->screen_to_sequence(info->char_position); |
---|
1157 | } |
---|
1158 | |
---|
1159 | return err; |
---|
1160 | } |
---|
1161 | |
---|
1162 | void ED4_Edit_String::finish_edit() |
---|
1163 | { |
---|
1164 | nrepeat_is_already_set = 0; |
---|
1165 | if (nrepeat_zero_requested) { |
---|
1166 | nrepeat_zero_requested = 0; |
---|
1167 | nrepeat = 0; |
---|
1168 | } |
---|
1169 | } |
---|
1170 | |
---|
1171 | void ED4_Edit_String::init_edit() { |
---|
1172 | freenull(old_seq); |
---|
1173 | seq_len = 0; |
---|
1174 | seq = 0; |
---|
1175 | gbd = 0; |
---|
1176 | old_seq_len = 0; |
---|
1177 | remap = ED4_ROOT->root_group_man->remap(); |
---|
1178 | } |
---|
1179 | |
---|