1 | #include <stdio.h> |
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2 | #include <stdlib.h> |
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3 | #include <string.h> |
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4 | #include <arbdb.h> |
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5 | #include <arbdbt.h> |
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6 | #include <aw_root.hxx> |
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7 | #include <aw_device.hxx> |
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8 | #include <aw_window.hxx> |
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9 | #include <aw_awars.hxx> |
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10 | |
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11 | #include "awt.hxx" |
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12 | #include "awtfilter.hxx" |
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13 | #include <awt_tree.hxx> |
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14 | #include <awt_sel_boxes.hxx> |
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15 | |
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16 | |
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17 | |
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18 | /** recalc filter */ |
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19 | void awt_create_select_filter_window_aw_cb(void *dummy, struct adfiltercbstruct *cbs) |
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20 | { // update the variables |
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21 | AW_root *aw_root = cbs->awr; |
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22 | AWUSE(dummy); |
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23 | char buffer[256]; |
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24 | GB_push_transaction(cbs->gb_main); |
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25 | char *target = aw_root->awar(cbs->def_subname)->read_string(); |
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26 | char *to_free_target = target; |
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27 | char *use = aw_root->awar(cbs->def_alignment)->read_string(); |
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28 | char *name = strchr(target,1); |
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29 | GBDATA *gbd = 0; |
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30 | if (name){ |
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31 | *(name++) = 0; |
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32 | target++; |
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33 | GBDATA *gb_species; |
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34 | if (target[-1] == '@'){ |
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35 | gb_species = GBT_find_species(cbs->gb_main,name); |
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36 | }else{ |
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37 | gb_species = GBT_find_SAI(cbs->gb_main,name); |
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38 | } |
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39 | if (gb_species){ |
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40 | GBDATA *gb_ali = GB_search(gb_species,use,GB_FIND); |
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41 | if (gb_ali) { |
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42 | gbd = GB_search(gb_ali,target,GB_FIND); |
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43 | } |
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44 | } |
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45 | } |
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46 | if (!gbd){ // nothing selected |
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47 | aw_root->awar(cbs->def_name)->write_string("none"); |
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48 | aw_root->awar(cbs->def_source)->write_string("No Filter Sequence ->All Columns Selected"); |
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49 | aw_root->awar(cbs->def_filter)->write_string(""); |
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50 | aw_root->awar(cbs->def_len) ->write_int(-1); // export filter |
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51 | }else{ |
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52 | GBDATA *gb_name = GB_get_father(gbd); // ali_xxxx |
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53 | gb_name = GB_brother(gb_name,"name"); |
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54 | char *name2 = GB_read_string(gb_name); |
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55 | aw_root->awar(cbs->def_name)->write_string(name2); |
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56 | free(name2); |
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57 | char *_2filter = aw_root->awar(cbs->def_2filter)->read_string(); |
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58 | long _2filter_len = strlen(_2filter); |
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59 | |
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60 | char *s,*str; |
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61 | long len = GBT_get_alignment_len(cbs->gb_main,use); |
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62 | GBS_strstruct *strstruct = GBS_stropen(5000); |
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63 | long i; for (i=0;i<len;i++) { // build position line |
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64 | if (i%10 == 0) { |
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65 | GBS_chrcat(strstruct,'#'); |
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66 | }else if (i%5==0) { |
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67 | GBS_chrcat(strstruct,'|'); |
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68 | }else{ |
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69 | GBS_chrcat(strstruct,'.'); |
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70 | } |
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71 | } |
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72 | GBS_chrcat(strstruct,'\n'); |
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73 | char *data = GBS_mempntr(strstruct); |
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74 | |
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75 | for (i=0;i<len-10;i++) { // place markers |
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76 | if (i%10 == 0) { |
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77 | sprintf(buffer,"%li",i+1); |
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78 | strncpy(data+i+1,buffer,strlen(buffer)); |
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79 | } |
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80 | } |
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81 | |
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82 | if (GB_read_type(gbd) == GB_STRING) { // read the filter |
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83 | str = GB_read_string(gbd); |
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84 | }else{ |
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85 | str = GB_read_bits(gbd,'-','+'); |
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86 | } |
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87 | GBS_strcat(strstruct,str); |
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88 | GBS_chrcat(strstruct,'\n'); |
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89 | char *canc = aw_root->awar(cbs->def_cancel)->read_string(); |
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90 | long min = aw_root->awar(cbs->def_min)->read_int()-1; |
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91 | long max = aw_root->awar(cbs->def_max)->read_int()-1; |
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92 | long flen = 0; |
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93 | for (i=0,s=str; *s; ++s,++i){ // transform the filter |
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94 | if (strchr(canc,*s) || (i<min) || (max>0 && i > max) ) |
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95 | { |
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96 | *s = '0'; |
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97 | }else{ |
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98 | if (i > _2filter_len || _2filter[i] != '0') { |
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99 | *s = '1'; |
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100 | flen++; |
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101 | }else{ |
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102 | *s = '0'; |
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103 | } |
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104 | } |
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105 | } |
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106 | GBS_strcat(strstruct,str); |
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107 | GBS_chrcat(strstruct,'\n'); |
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108 | data = GBS_strclose(strstruct); |
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109 | aw_root->awar(cbs->def_len) ->write_int(flen); // export filter |
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110 | aw_root->awar(cbs->def_filter)->write_string(str); // export filter |
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111 | aw_root->awar(cbs->def_source)->write_string(data); // set display |
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112 | free(_2filter); |
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113 | free(str); |
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114 | free(canc); |
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115 | free(data); |
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116 | } |
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117 | free(to_free_target); |
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118 | free(use); |
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119 | GB_pop_transaction(cbs->gb_main); |
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120 | } |
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121 | |
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122 | static void awt_add_sequences_to_list(struct adfiltercbstruct *cbs, const char *use, GBDATA *gb_extended, const char *pre, char tpre) { |
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123 | GBDATA *gb_ali = GB_entry(gb_extended, use); |
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124 | |
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125 | if (gb_ali) { |
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126 | int count = 0; |
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127 | GBDATA *gb_type = GB_entry(gb_ali, "_TYPE"); |
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128 | const char *TYPE = gb_type ? GB_read_char_pntr(gb_type) : ""; |
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129 | const char *name = GBT_read_name(gb_extended); |
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130 | GBDATA *gb_data; |
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131 | |
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132 | for (gb_data = GB_child(gb_ali); gb_data; gb_data = GB_nextChild(gb_data)) { |
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133 | if (GB_read_key_pntr(gb_data)[0] != '_') { |
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134 | long type = GB_read_type(gb_data); |
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135 | |
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136 | if (type == GB_BITS || type == GB_STRING) { |
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137 | char *str; |
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138 | |
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139 | if (count) str = GBS_global_string_copy("%s%-20s SEQ_%i %s", pre, name, count + 1, TYPE); |
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140 | else str = GBS_global_string_copy("%s%-20s %s", pre, name, TYPE); |
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141 | |
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142 | const char *target = GBS_global_string("%c%s%c%s", tpre, GB_read_key_pntr(gb_data), 1, name); |
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143 | |
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144 | cbs->aw_filt->insert_selection(cbs->id, str, target); |
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145 | free(str); |
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146 | count++; |
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147 | } |
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148 | } |
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149 | } |
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150 | } |
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151 | } |
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152 | |
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153 | void awt_create_select_filter_window_gb_cb(void *, struct adfiltercbstruct *cbs) { |
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154 | // update list widget and variables |
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155 | GB_push_transaction(cbs->gb_main); |
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156 | GBDATA *gb_extended; |
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157 | |
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158 | if (cbs->id) { |
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159 | char *use = cbs->awr->awar(cbs->def_alignment)->read_string(); |
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160 | |
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161 | cbs->aw_filt->clear_selection_list(cbs->id); |
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162 | cbs->aw_filt->insert_default_selection( cbs->id, "none", "" ); |
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163 | |
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164 | const char *name = GBT_readOrCreate_char_pntr(cbs->gb_main, AWAR_SPECIES_NAME, ""); |
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165 | if (name[0]){ |
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166 | GBDATA *gb_species = GBT_find_species(cbs->gb_main,name); |
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167 | if (gb_species){ |
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168 | awt_add_sequences_to_list(cbs,use,gb_species,"SEL. SPECIES:",'@'); |
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169 | } |
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170 | } |
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171 | |
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172 | for (gb_extended = GBT_first_SAI(cbs->gb_main); |
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173 | gb_extended; |
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174 | gb_extended = GBT_next_SAI(gb_extended)) |
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175 | { |
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176 | awt_add_sequences_to_list(cbs,use,gb_extended,"",' '); |
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177 | } |
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178 | |
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179 | cbs->aw_filt->update_selection_list( cbs->id ); |
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180 | free(use); |
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181 | } |
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182 | awt_create_select_filter_window_aw_cb(0,cbs); |
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183 | GB_pop_transaction(cbs->gb_main); |
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184 | } |
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185 | |
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186 | |
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187 | adfiltercbstruct *awt_create_select_filter(AW_root *aw_root, GBDATA *gb_main, const char *def_name) { |
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188 | // def_name = filter name awar (has to exist, name has to be "SOMETHING/name") |
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189 | // awars "SOMETHING/filter" (STRING) and "SOMETHING/alignment" (STRING) have to exist as well! |
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190 | struct adfiltercbstruct *acbs = new adfiltercbstruct ; |
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191 | acbs->gb_main = gb_main; |
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192 | GB_push_transaction(acbs->gb_main); |
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193 | AW_default aw_def = aw_root->get_default(def_name); |
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194 | |
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195 | #if defined(DEBUG) |
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196 | { |
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197 | int len = strlen(def_name); |
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198 | |
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199 | awt_assert(len >= 5); |
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200 | awt_assert(strcmp(def_name+len-5, "/name") == 0); // filter awar has to be "SOMETHING/name" |
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201 | } |
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202 | #endif // DEBUG |
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203 | |
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204 | acbs->def_name = GBS_string_eval(def_name,"/name=/name",0); |
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205 | acbs->def_filter = GBS_string_eval(def_name,"/name=/filter",0); |
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206 | acbs->def_alignment = GBS_string_eval(def_name,"/name=/alignment",0); |
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207 | |
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208 | acbs->def_min = GBS_string_eval(def_name,"*/name=tmp/*1/min:tmp/tmp=tmp",0); |
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209 | acbs->def_max = GBS_string_eval(def_name,"*/name=tmp/*1/max:tmp/tmp=tmp",0); |
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210 | aw_root->awar_int(acbs->def_min)->add_callback((AW_RCB1)awt_create_select_filter_window_aw_cb,(AW_CL)acbs); |
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211 | aw_root->awar_int(acbs->def_max)->add_callback((AW_RCB1)awt_create_select_filter_window_aw_cb,(AW_CL)acbs); |
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212 | |
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213 | acbs->def_len = GBS_string_eval(def_name,"*/name=tmp/*1/len:tmp/tmp=tmp",0); |
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214 | aw_root->awar_int(acbs->def_len); |
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215 | |
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216 | acbs->def_dest = GBS_string_eval(def_name,"*/name=tmp/*1/dest:tmp/tmp=tmp",0); |
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217 | aw_root->awar_string(acbs->def_dest,"",aw_def); |
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218 | |
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219 | acbs->def_cancel = GBS_string_eval(def_name,"*/name=*1/cancel",0); |
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220 | aw_root->awar_string(acbs->def_cancel,".0-=",aw_def); |
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221 | |
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222 | acbs->def_simplify = GBS_string_eval(def_name,"*/name=*1/simplify",0); |
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223 | aw_root->awar_int(acbs->def_simplify,0,aw_def); |
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224 | |
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225 | acbs->def_subname = GBS_string_eval(def_name,"*/name=tmp/*1/subname:tmp/tmp=tmp",0); |
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226 | aw_root->awar_string(acbs->def_subname); |
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227 | |
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228 | acbs->def_source = GBS_string_eval(def_name,"*/name=tmp/*/source:tmp/tmp=tmp",0); |
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229 | aw_root->awar_string(acbs->def_source); |
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230 | |
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231 | acbs->def_2name = GBS_string_eval(def_name,"*/name=tmp/*/2filter/name:tmp/tmp=tmp",0); |
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232 | acbs->def_2filter = GBS_string_eval(def_name,"*/name=tmp/*/2filter/filter:tmp/tmp=tmp",0); |
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233 | acbs->def_2alignment = GBS_string_eval(def_name,"*/name=tmp/*/2filter/alignment:tmp/tmp=tmp",0); |
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234 | |
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235 | aw_root->awar_string(acbs->def_2name)->write_string( "- none -" ); |
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236 | aw_root->awar_string(acbs->def_2filter); |
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237 | aw_root->awar_string(acbs->def_2alignment); |
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238 | |
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239 | acbs->id = 0; |
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240 | acbs->aw_filt = 0; |
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241 | acbs->awr = aw_root; |
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242 | { |
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243 | char *fname = aw_root->awar(acbs->def_name)->read_string(); |
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244 | const char *fsname = GBS_global_string(" data%c%s",1,fname); |
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245 | free(fname); |
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246 | aw_root->awar(acbs->def_subname)->write_string(fsname); // cause an callback |
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247 | } |
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248 | |
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249 | aw_root->awar(acbs->def_subname)->touch(); // cause an callback |
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250 | |
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251 | GBDATA *gb_sai_data = GBT_get_SAI_data(acbs->gb_main); |
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252 | GBDATA *gb_sel = GB_search(acbs->gb_main, AWAR_SPECIES_NAME, GB_STRING); |
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253 | |
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254 | GB_add_callback(gb_sai_data, GB_CB_CHANGED, (GB_CB)awt_create_select_filter_window_gb_cb, (int *)acbs); |
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255 | GB_add_callback(gb_sel, GB_CB_CHANGED, (GB_CB)awt_create_select_filter_window_gb_cb, (int *)acbs); |
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256 | |
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257 | aw_root->awar(acbs->def_alignment)->add_callback((AW_RCB1)awt_create_select_filter_window_gb_cb, (AW_CL)acbs); |
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258 | aw_root->awar(acbs->def_2filter) ->add_callback((AW_RCB1)awt_create_select_filter_window_aw_cb, (AW_CL)acbs); |
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259 | aw_root->awar(acbs->def_subname) ->add_callback((AW_RCB1)awt_create_select_filter_window_aw_cb, (AW_CL)acbs); |
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260 | |
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261 | awt_create_select_filter_window_gb_cb(0,acbs); |
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262 | |
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263 | GB_pop_transaction(acbs->gb_main); |
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264 | return acbs; |
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265 | } |
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266 | |
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267 | |
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268 | void awt_set_awar_to_valid_filter_good_for_tree_methods(GBDATA *gb_main, AW_root *awr, const char *awar_name){ |
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269 | GB_transaction transaction_var(gb_main); |
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270 | if (GBT_find_SAI(gb_main,"POS_VAR_BY_PARSIMONY")){ |
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271 | awr->awar(awar_name)->write_string("POS_VAR_BY_PARSIMONY"); |
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272 | return; |
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273 | } |
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274 | if (GBT_find_SAI(gb_main,"ECOLI")){ |
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275 | awr->awar(awar_name)->write_string("ECOLI"); |
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276 | return; |
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277 | } |
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278 | } |
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279 | |
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280 | static AW_window *awt_create_2_filter_window(AW_root *aw_root, adfiltercbstruct *acbs) { |
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281 | GB_push_transaction(acbs->gb_main); |
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282 | aw_root->awar(acbs->def_2alignment)->map( acbs->def_alignment); |
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283 | adfiltercbstruct *s2filter = awt_create_select_filter(aw_root, acbs->gb_main, acbs->def_2name); |
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284 | GB_pop_transaction(acbs->gb_main); |
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285 | return awt_create_select_filter_win(aw_root, (AW_CL)s2filter); |
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286 | } |
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287 | |
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288 | char *AWT_get_combined_filter_name(AW_root *aw_root, GB_CSTR prefix) { |
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289 | char *combined_name = aw_root->awar(GBS_global_string("%s/filter/name", prefix))->read_string(); // "gde/filter/name" |
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290 | const char *awar_prefix = AWAR_GDE_FILTER; |
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291 | const char *awar_repeated = "/2filter"; |
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292 | const char *awar_postfix = "/name"; |
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293 | int prefix_len = strlen(awar_prefix); |
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294 | int repeated_len = strlen(awar_repeated); |
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295 | int postfix_len = strlen(awar_postfix); |
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296 | int count; |
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297 | |
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298 | for (count = 1; ; ++count) { |
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299 | char *awar_name = new char[prefix_len + count*repeated_len + postfix_len + 1]; |
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300 | strcpy(awar_name, awar_prefix); |
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301 | int c; |
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302 | for (c=0; c<count; ++c) strcat(awar_name, awar_repeated); |
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303 | strcat(awar_name, awar_postfix); |
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304 | |
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305 | AW_awar *awar_found = aw_root->awar_no_error(awar_name); |
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306 | delete [] awar_name; |
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307 | |
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308 | if (!awar_found) break; // no more filters defined |
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309 | char *content = awar_found->read_string(); |
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310 | |
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311 | if (strstr(content, "none")==0) { // don't add filters named 'none' |
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312 | freeset(combined_name, GBS_global_string_copy("%s/%s", combined_name, content)); |
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313 | } |
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314 | } |
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315 | |
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316 | return combined_name; |
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317 | } |
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318 | |
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319 | AW_window *awt_create_select_filter_win(AW_root *aw_root, AW_CL res_of_create_select_filter) { |
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320 | struct adfiltercbstruct *acbs = (struct adfiltercbstruct *)res_of_create_select_filter; |
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321 | |
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322 | if (!acbs->aw_filt) { |
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323 | GB_push_transaction(acbs->gb_main); |
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324 | |
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325 | AW_window_simple *aws = new AW_window_simple; |
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326 | { |
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327 | int checksum = GBS_checksum(acbs->def_name, true, NULL); |
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328 | char *window_id = GBS_global_string_copy("FILTER_SELECT_%i", checksum); // make window id awar specific |
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329 | |
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330 | aws->init( aw_root, window_id, "Select Filter"); |
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331 | free(window_id); |
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332 | } |
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333 | aws->load_xfig("awt/filter.fig"); |
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334 | aws->button_length( 10 ); |
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335 | |
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336 | aws->at("close");aws->callback((AW_CB0)AW_POPDOWN); |
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337 | aws->create_button("CLOSE", "CLOSE","C"); |
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338 | |
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339 | aws->at("help");aws->callback(AW_POPUP_HELP,(AW_CL)"sel_fil.hlp"); |
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340 | aws->create_button("HELP", "HELP","H"); |
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341 | |
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342 | acbs->aw_filt = aws; // store the filter selection window in 'acbs' |
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343 | |
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344 | aws->at("filter"); |
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345 | acbs->id = aws->create_selection_list(acbs->def_subname,0,"",20,3); |
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346 | |
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347 | aws->at("2filter"); |
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348 | aws->callback(AW_POPUP,(AW_CL)awt_create_2_filter_window,(AW_CL)acbs); |
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349 | aws->create_button(acbs->def_2name,acbs->def_2name); |
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350 | |
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351 | aws->at("zero"); |
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352 | aws->callback((AW_CB1)awt_create_select_filter_window_aw_cb,(AW_CL)acbs); |
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353 | aws->create_input_field(acbs->def_cancel,10); |
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354 | |
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355 | aws->at("sequence"); |
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356 | aws->create_text_field(acbs->def_source,1,1); |
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357 | |
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358 | aws->at("min"); |
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359 | aws->create_input_field(acbs->def_min,4); |
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360 | |
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361 | aws->at("max"); |
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362 | aws->create_input_field(acbs->def_max,4); |
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363 | |
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364 | aws->at("simplify"); |
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365 | aws->create_option_menu(acbs->def_simplify); |
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366 | aws->insert_option("ORIGINAL DATA","O",0); |
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367 | aws->sens_mask(AWM_EXP); |
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368 | aws->insert_option("TRANSVERSIONS ONLY","T",1); |
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369 | aws->insert_option("SIMPLIFIED AA","A",2); |
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370 | aws->sens_mask(AWM_ALL); |
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371 | aws->update_option_menu(); |
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372 | |
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373 | awt_create_select_filter_window_gb_cb(0,acbs); |
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374 | |
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375 | aws->button_length( 7 ); |
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376 | aws->at("len"); aws->create_button(0,acbs->def_len); |
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377 | |
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378 | GB_pop_transaction(acbs->gb_main); |
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379 | } |
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380 | |
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381 | return acbs->aw_filt; |
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382 | } |
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383 | |
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384 | AP_filter *awt_get_filter(AW_root *aw_root, adfiltercbstruct *acbs) { |
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385 | AP_filter *filter = new AP_filter; |
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386 | bool initialized = false; |
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387 | |
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388 | if (acbs) { |
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389 | GB_push_transaction(acbs->gb_main); |
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390 | |
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391 | char *filter_string = aw_root->awar(acbs->def_filter)->read_string(); |
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392 | long len = 0; |
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393 | |
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394 | { |
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395 | char *use = aw_root->awar(acbs->def_alignment)->read_string(); |
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396 | |
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397 | len = GBT_get_alignment_len(acbs->gb_main,use); |
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398 | free(use); |
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399 | } |
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400 | |
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401 | if (len != -1) { // have alignment |
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402 | filter->init(filter_string,"0",len); |
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403 | initialized = true; |
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404 | |
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405 | int sim = aw_root->awar(acbs->def_simplify)->read_int(); |
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406 | filter->enable_simplify((AWT_FILTER_SIMPLIFY)sim); |
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407 | free(filter_string); |
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408 | } |
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409 | |
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410 | GB_pop_transaction(acbs->gb_main); |
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411 | } |
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412 | |
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413 | if (!initialized) { |
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414 | filter->init("","0",10); |
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415 | } |
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416 | |
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417 | return filter; |
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418 | } |
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419 | |
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