1 | // =============================================================== // |
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2 | // // |
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3 | // File : NT_main.cxx // |
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4 | // Purpose : // |
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5 | // // |
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6 | // Institute of Microbiology (Technical University Munich) // |
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7 | // http://www.arb-home.de/ // |
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8 | // // |
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9 | // =============================================================== // |
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10 | |
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11 | #include "nt_internal.h" |
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12 | #include "ntree.hxx" |
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13 | #include "nt_cb.hxx" |
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14 | |
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15 | #include <mg_merge.hxx> |
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16 | #include <awti_import.hxx> |
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17 | |
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18 | #include <awt.hxx> |
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19 | #include <awt_macro.hxx> |
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20 | |
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21 | #include <aw_advice.hxx> |
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22 | #include <aw_question.hxx> |
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23 | #include <aw_awars.hxx> |
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24 | #include <aw_edit.hxx> |
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25 | #include <aw_file.hxx> |
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26 | #include <aw_msg.hxx> |
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27 | #include <aw_root.hxx> |
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28 | |
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29 | #include <arbdbt.h> |
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30 | #include <adGene.h> |
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31 | |
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32 | #include <arb_version.h> |
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33 | #include <arb_progress.h> |
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34 | #include <arb_file.h> |
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35 | |
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36 | using namespace std; |
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37 | |
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38 | AW_HEADER_MAIN |
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39 | |
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40 | #define nt_assert(bed) arb_assert(bed) |
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41 | |
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42 | #define NT_SERVE_DB_TIMER 50 |
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43 | #define NT_CHECK_DB_TIMER 200 |
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44 | |
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45 | GBDATA *GLOBAL_gb_main; // global gb_main for arb_ntree |
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46 | NT_global GLOBAL_NT = { 0, 0, 0, false }; |
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47 | |
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48 | // NT_format_all_alignments may be called after any operation which causes |
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49 | // unformatted alignments (e.g importing sequences) |
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50 | // |
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51 | // It tests all alignments whether they need to be formatted |
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52 | // and asks the user if they should be formatted. |
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53 | |
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54 | GB_ERROR NT_format_all_alignments(GBDATA *gb_main) { |
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55 | GB_ERROR err = 0; |
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56 | GB_push_transaction(gb_main); |
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57 | GB_push_my_security(gb_main); |
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58 | |
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59 | int ali_count = GBT_count_alignments(gb_main); |
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60 | if (ali_count) { |
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61 | arb_progress progress("Formatting alignments", ali_count); |
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62 | err = GBT_check_data(gb_main, 0); |
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63 | |
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64 | AW_repeated_question question; |
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65 | GBDATA *gb_presets = GB_entry(gb_main, "presets"); |
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66 | |
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67 | question.add_help("prompt/format_alignments.hlp"); |
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68 | |
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69 | for (GBDATA *gb_ali = GB_entry(gb_presets, "alignment"); |
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70 | gb_ali && !err; |
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71 | gb_ali = GB_nextEntry(gb_ali)) |
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72 | { |
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73 | GBDATA *gb_aligned = GB_search(gb_ali, "aligned", GB_INT); |
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74 | |
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75 | if (GB_read_int(gb_aligned) == 0) { // sequences in alignment are not formatted |
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76 | enum FormatAction { |
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77 | FA_ASK_USER = 0, // ask user |
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78 | FA_FORMAT_ALL = 1, // format automatically w/o asking |
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79 | FA_SKIP_ALL = 2, // skip automatically w/o asking |
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80 | }; |
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81 | FormatAction format_action = FA_ASK_USER; |
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82 | GBDATA *gb_ali_name = GB_entry(gb_ali, "alignment_name"); |
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83 | const char *ali_name = GB_read_char_pntr(gb_ali_name); |
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84 | |
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85 | { |
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86 | bool is_ali_genom = strcmp(ali_name, GENOM_ALIGNMENT) == 0; |
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87 | GBDATA *gb_auto_format = GB_entry(gb_ali, "auto_format"); |
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88 | |
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89 | if (gb_auto_format) { |
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90 | format_action = FormatAction(GB_read_int(gb_auto_format)); |
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91 | if (is_ali_genom) { |
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92 | if (format_action != FA_SKIP_ALL) { |
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93 | format_action = FA_SKIP_ALL; // always skip ali_genom |
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94 | err = GB_write_int(gb_auto_format, FA_SKIP_ALL); |
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95 | } |
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96 | } |
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97 | } |
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98 | else if (is_ali_genom) { |
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99 | format_action = FA_SKIP_ALL; |
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100 | err = GBT_write_int(gb_ali, "auto_format", FA_SKIP_ALL); // always skip |
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101 | } |
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102 | } |
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103 | |
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104 | bool perform_format = false; |
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105 | if (!err) { |
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106 | switch (format_action) { |
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107 | case FA_FORMAT_ALL: perform_format = true; break; |
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108 | case FA_SKIP_ALL: perform_format = false; break; |
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109 | default: { |
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110 | char *qtext = GBS_global_string_copy("Alignment '%s' is not formatted. Format?", ali_name); |
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111 | int answer = question.get_answer("format_alignments", qtext, "Format,Skip,Always format,Always skip", "all", false); |
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112 | |
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113 | switch (answer) { |
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114 | case 2: |
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115 | err = GBT_write_int(gb_ali, "auto_format", FA_FORMAT_ALL); |
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116 | // fall-through |
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117 | case 0: |
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118 | perform_format = true; |
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119 | break; |
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120 | |
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121 | case 3: |
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122 | err = GBT_write_int(gb_ali, "auto_format", FA_SKIP_ALL); |
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123 | break; |
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124 | } |
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125 | |
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126 | free(qtext); |
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127 | break; |
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128 | } |
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129 | } |
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130 | } |
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131 | if (!err && perform_format) { |
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132 | GB_push_my_security(gb_main); |
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133 | err = GBT_format_alignment(gb_main, ali_name); |
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134 | GB_pop_my_security(gb_main); |
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135 | } |
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136 | } |
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137 | progress.inc_and_check_user_abort(err); |
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138 | } |
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139 | } |
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140 | |
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141 | GB_pop_my_security(gb_main); |
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142 | |
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143 | return GB_end_transaction(gb_main, err); |
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144 | } |
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145 | |
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146 | |
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147 | // -------------------------------------------------------------------------------- |
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148 | |
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149 | static GB_ERROR nt_check_database_consistency() { |
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150 | // called once on ARB_NTREE startup |
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151 | arb_progress("Checking consistency"); |
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152 | |
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153 | GB_ERROR err = NT_format_all_alignments(GLOBAL_gb_main); |
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154 | if (!err) err = NT_repair_DB(GLOBAL_gb_main); |
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155 | |
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156 | return err; |
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157 | } |
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158 | |
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159 | |
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160 | static void serve_db_interrupt(AW_root *awr) { |
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161 | bool success = GBCMS_accept_calls(GLOBAL_gb_main, false); |
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162 | while (success) { |
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163 | awr->check_for_remote_command((AW_default)GLOBAL_gb_main, AWAR_NT_REMOTE_BASE); |
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164 | success = GBCMS_accept_calls(GLOBAL_gb_main, true); |
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165 | } |
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166 | |
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167 | awr->add_timed_callback(NT_SERVE_DB_TIMER, (AW_RCB)serve_db_interrupt, 0, 0); |
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168 | } |
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169 | |
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170 | static void check_db_interrupt(AW_root *awr) { |
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171 | awr->check_for_remote_command((AW_default)GLOBAL_gb_main, AWAR_NT_REMOTE_BASE); |
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172 | awr->add_timed_callback(NT_CHECK_DB_TIMER, (AW_RCB)check_db_interrupt, 0, 0); |
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173 | } |
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174 | |
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175 | static GB_ERROR startup_mainwindow_and_dbserver(AW_root *aw_root, bool install_client_callback, const char *autorun_macro) { |
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176 | GB_ERROR error = NULL; |
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177 | nt_create_main_window(aw_root); |
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178 | |
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179 | if (GB_read_clients(GLOBAL_gb_main) == 0) { // server |
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180 | error = GBCMS_open(":", 0, GLOBAL_gb_main); |
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181 | if (error) { |
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182 | error = GBS_global_string("THIS PROGRAM HAS PROBLEMS TO OPEN INTERCLIENT COMMUNICATION:\n" |
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183 | "Reason: %s\n" |
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184 | "(maybe there is already another server running)\n" |
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185 | "You cannot use any EDITOR or other external SOFTWARE from here.\n" |
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186 | "Advice: Close ARB again, open a console, type 'arb_clean' and restart arb.\n" |
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187 | "Caution: Any unsaved data in an eventually running ARB will be lost.\n", |
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188 | error); |
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189 | } |
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190 | else { |
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191 | aw_root->add_timed_callback(NT_SERVE_DB_TIMER, (AW_RCB)serve_db_interrupt, 0, 0); |
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192 | error = nt_check_database_consistency(); |
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193 | } |
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194 | } |
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195 | else { // client |
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196 | if (install_client_callback) { |
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197 | aw_root->add_timed_callback(NT_CHECK_DB_TIMER, (AW_RCB)check_db_interrupt, 0, 0); |
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198 | } |
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199 | } |
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200 | |
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201 | if (!error && autorun_macro) awt_execute_macro(aw_root, autorun_macro); |
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202 | return error; |
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203 | } |
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204 | |
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205 | static ARB_ERROR load_and_startup_main_window(AW_root *aw_root, const char *autorun_macro) { |
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206 | char *db_server = aw_root->awar(AWAR_DB_PATH)->read_string(); |
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207 | GLOBAL_gb_main = GBT_open(db_server, "rw"); |
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208 | |
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209 | ARB_ERROR error; |
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210 | if (!GLOBAL_gb_main) { |
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211 | error = GB_await_error(); |
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212 | } |
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213 | else { |
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214 | aw_root->awar(AWAR_DB_PATH)->write_string(db_server); |
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215 | |
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216 | #define MAXNAMELEN 35 |
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217 | int len = strlen(db_server); |
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218 | if (len>MAXNAMELEN) { |
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219 | char *nameOnly = strrchr(db_server, '/'); |
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220 | if (nameOnly) { |
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221 | nameOnly++; |
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222 | len -= (nameOnly-db_server); |
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223 | memmove(db_server, nameOnly, len+1); |
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224 | if (len>MAXNAMELEN) { |
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225 | strcpy(db_server+MAXNAMELEN-3, "..."); |
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226 | } |
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227 | } |
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228 | } |
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229 | #if defined(DEBUG) |
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230 | AWT_announce_db_to_browser(GLOBAL_gb_main, GBS_global_string("ARB database (%s)", db_server)); |
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231 | #endif // DEBUG |
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232 | |
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233 | GB_ERROR problem = startup_mainwindow_and_dbserver(aw_root, true, autorun_macro); |
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234 | aw_message_if(problem); // no need to terminate ARB |
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235 | } |
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236 | |
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237 | free(db_server); |
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238 | return error; |
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239 | } |
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240 | |
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241 | static void nt_delete_database(AW_window *aww) { |
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242 | AW_root *aw_root = aww->get_root(); |
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243 | char *db_server = aw_root->awar(AWAR_DB_PATH)->read_string(); |
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244 | |
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245 | if (strlen(db_server)) { |
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246 | if (aw_ask_sure(NULL, GBS_global_string("Are you sure to delete database %s\nNote: there is no way to undelete it afterwards", db_server))) { |
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247 | GB_ERROR error = 0; |
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248 | error = GB_delete_database(db_server); |
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249 | if (error) { |
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250 | aw_message(error); |
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251 | } |
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252 | else { |
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253 | aw_root->awar(AWAR_DB_FILTER)->touch(); |
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254 | } |
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255 | } |
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256 | } |
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257 | else { |
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258 | aw_message("No database selected"); |
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259 | } |
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260 | free(db_server); |
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261 | } |
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262 | |
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263 | static void start_main_window_after_import(AW_root *aw_root) { |
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264 | GLOBAL_NT.awr = aw_root; |
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265 | aw_message_if(startup_mainwindow_and_dbserver(aw_root, false, NULL)); |
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266 | } |
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267 | |
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268 | static void nt_intro_start_existing(AW_window *aw_intro) { |
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269 | aw_intro->hide(); |
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270 | ARB_ERROR error = load_and_startup_main_window(aw_intro->get_root(), NULL); |
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271 | if (error) { |
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272 | aw_intro->show(); |
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273 | aw_popup_ok(error.deliver()); |
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274 | } |
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275 | else { |
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276 | error.expect_no_error(); |
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277 | } |
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278 | } |
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279 | |
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280 | static void nt_intro_start_merge(AW_window *aw_intro, AW_root *aw_root) { |
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281 | nt_assert(contradicted(aw_intro, aw_root)); // one of them is passed! |
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282 | if (aw_intro) aw_root = aw_intro->get_root(); |
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283 | create_MG_main_window(aw_root); |
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284 | if (aw_intro) aw_intro->hide(); |
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285 | } |
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286 | |
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287 | static void nt_intro_start_import(AW_window *aw_intro) { |
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288 | aw_intro->hide(); |
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289 | |
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290 | AW_root *aw_root = aw_intro->get_root(); |
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291 | aw_root->awar_string(AWAR_DB_PATH)->write_string("noname.arb"); |
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292 | aw_root->awar_int(AWAR_READ_GENOM_DB, IMP_PLAIN_SEQUENCE); // Default toggle in window "Create&import" is Non-Genom |
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293 | GLOBAL_gb_main = open_AWTC_import_window(aw_root, "", true, 0, (AW_RCB)start_main_window_after_import, 0, 0); |
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294 | } |
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295 | |
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296 | static AW_window *nt_create_intro_window(AW_root *awr) { |
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297 | AW_window_simple *aws = new AW_window_simple; |
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298 | aws->init(awr, "ARB_INTRO", "ARB INTRO"); |
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299 | aws->load_xfig("arb_intro.fig"); |
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300 | |
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301 | aws->callback((AW_CB0)exit); |
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302 | aws->at("close"); |
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303 | aws->create_button("CANCEL", "CANCEL", "C"); |
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304 | |
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305 | aws->at("help"); |
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306 | aws->callback(AW_POPUP_HELP, (AW_CL)"arb_intro.hlp"); |
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307 | aws->create_button("HELP", "HELP", "H"); |
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308 | |
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309 | AW_create_fileselection(aws, "tmp/nt/arbdb"); |
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310 | |
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311 | aws->button_length(0); |
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312 | |
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313 | aws->at("logo"); |
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314 | aws->create_button(0, "#logo.xpm"); |
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315 | |
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316 | aws->at("version"); |
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317 | aws->create_button(0, GBS_global_string("Version " ARB_VERSION), 0); // version |
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318 | |
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319 | aws->at("copyright"); |
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320 | aws->create_button(0, GBS_global_string("(C) 1993-" ARB_BUILD_YEAR), 0); |
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321 | |
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322 | aws->at("old"); |
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323 | aws->callback(nt_intro_start_existing); |
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324 | aws->create_autosize_button("OPEN_SELECTED", "OPEN SELECTED", "O"); |
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325 | |
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326 | aws->at("del"); |
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327 | aws->callback(nt_delete_database); |
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328 | aws->create_autosize_button("DELETE_SELECTED", "DELETE SELECTED"); |
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329 | |
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330 | aws->at("new_complex"); |
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331 | aws->callback(nt_intro_start_import); |
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332 | aws->create_autosize_button("CREATE_AND_IMPORT", "CREATE AND IMPORT", "I"); |
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333 | |
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334 | aws->at("merge"); |
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335 | aws->callback((AW_CB1)nt_intro_start_merge, 0); |
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336 | aws->create_autosize_button("MERGE_TWO_DATABASES", "MERGE TWO ARB DATABASES", "O"); |
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337 | |
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338 | aws->at("expert"); |
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339 | aws->create_toggle(AWAR_EXPERT); |
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340 | |
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341 | return aws; |
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342 | } |
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343 | |
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344 | static void AWAR_DB_PATH_changed_cb(AW_root *awr) { |
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345 | static bool avoid_recursion = false; |
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346 | |
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347 | if (!avoid_recursion) { |
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348 | LocallyModify<bool> flag(avoid_recursion, true); |
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349 | |
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350 | char *value = awr->awar(AWAR_DB_PATH)->read_string(); |
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351 | char *lslash = strrchr(value, '/'); |
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352 | |
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353 | char *name = lslash ? lslash+1 : value; |
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354 | #if defined(DEBUG) |
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355 | printf("writing '%s' to AWAR_DB_NAME\n", name); |
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356 | #endif // DEBUG |
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357 | awr->awar(AWAR_DB_NAME)->write_string(name); |
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358 | |
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359 | if (lslash) { // update value of directory |
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360 | lslash[0] = 0; |
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361 | awr->awar(AWAR_DB"directory")->write_string(value); |
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362 | lslash[0] = '/'; |
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363 | } |
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364 | |
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365 | free(value); |
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366 | } |
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367 | } |
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368 | |
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369 | class NtreeCommandLine : virtual Noncopyable { |
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370 | int arg_count; |
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371 | char const*const* args; |
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372 | |
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373 | bool help_requested; |
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374 | bool do_import; |
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375 | bool do_export; |
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376 | |
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377 | const char *macro_name; |
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378 | |
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379 | public: |
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380 | NtreeCommandLine(int argc_, char const*const* argv_) |
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381 | : arg_count(argc_-1), |
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382 | args(argv_+1), |
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383 | help_requested(false), |
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384 | do_import(false), |
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385 | do_export(false), |
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386 | macro_name(NULL) |
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387 | {} |
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388 | |
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389 | void shift() { ++args; --arg_count; } |
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390 | |
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391 | int free_args() const { return arg_count; } |
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392 | const char *get_arg(int num) const { return num<arg_count ? args[num] : NULL; } |
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393 | |
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394 | bool wants_help() const { return help_requested; } |
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395 | bool wants_export() const { return do_export; } |
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396 | bool wants_import() const { return do_import; } |
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397 | bool wants_merge() const { return arg_count == 2; } |
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398 | |
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399 | const char *autorun_macro() const { return macro_name; } |
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400 | |
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401 | void print_help(FILE *out) const { |
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402 | fprintf(out, |
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403 | "\n" |
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404 | "arb_ntree version " ARB_VERSION "\n" |
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405 | "(C) 1993-" ARB_BUILD_YEAR " Lehrstuhl fuer Mikrobiologie - TU Muenchen\n" |
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406 | "http://www.arb-home.de/\n" |
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407 | #if defined(SHOW_WHERE_BUILD) |
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408 | "(version build by: " ARB_BUILD_USER "@" ARB_BUILD_HOST ")\n" |
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409 | #endif // SHOW_WHERE_BUILD |
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410 | "\n" |
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411 | "Known command line arguments:\n" |
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412 | "\n" |
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413 | "db.arb => start ARB_NTREE with database db.arb\n" |
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414 | ": => start ARB_NTREE and connect to existing db_server\n" |
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415 | "db1.arb db2.arb => merge databases db1.arb and db2.arb\n" |
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416 | "w/o arguments => start database browser in current directory\n" |
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417 | "directory => start database browser in 'directory'\n" |
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418 | "-export => connect to existing ARB server and export database to noname.arb\n" |
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419 | "-import file => import 'file' into new database\n" |
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420 | "\n" |
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421 | ); |
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422 | } |
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423 | |
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424 | ARB_ERROR parse() { |
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425 | ARB_ERROR error; |
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426 | |
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427 | while (!error && arg_count>0 && args[0][0] == '-') { |
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428 | const char *opt = args[0]+1; |
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429 | if (opt[0] == '-') ++opt; // accept '-' or '--' |
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430 | if (strcmp(opt, "help") == 0 || strcmp(opt, "h") == 0) { help_requested = true; } |
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431 | else if (strcmp(opt, "export") == 0) { do_export = true; } |
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432 | else if (strcmp(opt, "import") == 0) { do_import = true; } |
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433 | else if (strcmp(opt, "execute") == 0) { shift(); macro_name = *args; } |
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434 | else { |
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435 | error = GBS_global_string("Unknown switch '%s'", args[0]); |
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436 | } |
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437 | shift(); |
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438 | } |
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439 | // non-switch arguments remain in arg_count/args |
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440 | if (!error) { |
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441 | if (do_import && do_export) error = "--import can't be used together with --export"; |
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442 | else if (do_export && arg_count != 0) error = "superfluous argument behind --export"; |
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443 | else if (do_import && arg_count != 1) error = "expected file-name or -mask name behind --import"; |
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444 | else if (arg_count>2) error = "expected to see up to 2 arguments on command line"; |
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445 | } |
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446 | return error; |
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447 | } |
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448 | }; |
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449 | |
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450 | enum RunMode { NORMAL, IMPORT, EXPORT, MERGE, BROWSE }; |
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451 | |
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452 | static ARB_ERROR check_argument_for_mode(const char *database, char *&browser_startdir, RunMode& mode) { |
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453 | // Check whether 'database' is a |
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454 | // - ARB database |
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455 | // - directory name |
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456 | // - file to import |
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457 | // |
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458 | // Modify 'mode' occordingly. |
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459 | // Set 'browser_startdir' |
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460 | |
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461 | ARB_ERROR error; |
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462 | if (mode != IMPORT) { |
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463 | if (!database) mode = BROWSE; |
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464 | else { |
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465 | GB_ERROR load_file_err = GBT_check_arb_file(database); |
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466 | if (load_file_err) { |
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467 | char *full_path = AW_unfold_path("PWD", database); |
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468 | |
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469 | enum Action { LOAD_DB, CONVERT_DB, BROWSE_DB, EXIT, NOIDEA }; |
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470 | Action action = NOIDEA; |
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471 | if (GB_is_directory(full_path)) { |
---|
472 | action = BROWSE_DB; |
---|
473 | } |
---|
474 | else { |
---|
475 | if (!GB_is_regularfile(full_path)) { |
---|
476 | const char *msg = GBS_global_string("'%s' is neither a known option nor a legal file- or directory-name.\n(Error: %s)", |
---|
477 | full_path, load_file_err); |
---|
478 | |
---|
479 | int ans = aw_question(NULL, msg, "Browser,Exit"); |
---|
480 | action = ans ? EXIT : BROWSE_DB; |
---|
481 | } |
---|
482 | else { |
---|
483 | const char *msg = GBS_global_string("Your file is not an original arb file\n(%s)", load_file_err); |
---|
484 | action = (Action)aw_question(NULL, msg, "Continue (dangerous),Start Converter,Browser,Exit"); |
---|
485 | } |
---|
486 | } |
---|
487 | |
---|
488 | switch (action) { |
---|
489 | case CONVERT_DB: mode = IMPORT; break; |
---|
490 | case LOAD_DB: break; |
---|
491 | case NOIDEA: nt_assert(0); |
---|
492 | case EXIT: error = "User abort"; break; |
---|
493 | case BROWSE_DB: { |
---|
494 | char *dir = nulldup(full_path); |
---|
495 | while (dir && !GB_is_directory(dir)) freeset(dir, AW_extract_directory(dir)); |
---|
496 | |
---|
497 | if (dir) { |
---|
498 | nt_assert(GB_is_directory(dir)); |
---|
499 | reassign(browser_startdir, dir); |
---|
500 | mode = BROWSE; |
---|
501 | } |
---|
502 | free(dir); |
---|
503 | break; |
---|
504 | } |
---|
505 | |
---|
506 | } |
---|
507 | free(full_path); |
---|
508 | } |
---|
509 | } |
---|
510 | } |
---|
511 | |
---|
512 | return error; |
---|
513 | } |
---|
514 | |
---|
515 | int ARB_main(int argc, const char *argv[]) { |
---|
516 | aw_initstatus(); |
---|
517 | GB_set_verbose(); |
---|
518 | |
---|
519 | GB_shell shell; |
---|
520 | AW_root *aw_root = AWT_create_root("ntree.arb", "ARB_NT"); |
---|
521 | |
---|
522 | GLOBAL_NT.awr = aw_root; |
---|
523 | |
---|
524 | { |
---|
525 | char *message = strdup(GB_path_in_ARBLIB("message")); |
---|
526 | char *stamp = strdup(GB_path_in_arbprop("msgtime")); |
---|
527 | if (GB_time_of_file(message)>GB_time_of_file(stamp)) { |
---|
528 | AW_edit(message); |
---|
529 | system(GBS_global_string("touch %s", stamp)); |
---|
530 | } |
---|
531 | free(stamp); |
---|
532 | free(message); |
---|
533 | } |
---|
534 | |
---|
535 | // create some early awars |
---|
536 | // Note: normally you don't like to add your awar-init-function here, but into nt_create_all_awars() |
---|
537 | |
---|
538 | AW_create_fileselection_awars(aw_root, AWAR_DB, "", ".arb", "noname.arb"); |
---|
539 | aw_root->awar_string(AWAR_DB_TYPE, "b"); |
---|
540 | aw_root->awar_string(AWAR_DB_NAME, "noname.arb"); |
---|
541 | aw_root->awar(AWAR_DB_PATH)->add_callback(AWAR_DB_PATH_changed_cb); |
---|
542 | |
---|
543 | aw_root->awar_int(AWAR_EXPERT, 0); |
---|
544 | |
---|
545 | init_Advisor(aw_root); |
---|
546 | AWT_install_cb_guards(); |
---|
547 | |
---|
548 | NtreeCommandLine cl(argc, argv); |
---|
549 | ARB_ERROR error = cl.parse(); |
---|
550 | |
---|
551 | ARB_declare_global_awars(aw_root, AW_ROOT_DEFAULT); |
---|
552 | |
---|
553 | if (!error) { |
---|
554 | if (cl.wants_help()) { |
---|
555 | cl.print_help(stderr); |
---|
556 | } |
---|
557 | else { |
---|
558 | RunMode mode = NORMAL; |
---|
559 | |
---|
560 | if (cl.wants_export()) mode = EXPORT; |
---|
561 | else if (cl.wants_import()) mode = IMPORT; |
---|
562 | else if (cl.wants_merge()) mode = MERGE; |
---|
563 | |
---|
564 | if (mode == EXPORT) { |
---|
565 | MG_create_all_awars(aw_root, AW_ROOT_DEFAULT, ":", "noname.arb"); |
---|
566 | GLOBAL_gb_merge = GBT_open(":", "rw"); |
---|
567 | if (!GLOBAL_gb_merge) { |
---|
568 | error = GB_await_error(); |
---|
569 | } |
---|
570 | else { |
---|
571 | #if defined(DEBUG) |
---|
572 | AWT_announce_db_to_browser(GLOBAL_gb_merge, "Current database (:)"); |
---|
573 | #endif // DEBUG |
---|
574 | |
---|
575 | GLOBAL_gb_dest = GBT_open("noname.arb", "cw"); |
---|
576 | #if defined(DEBUG) |
---|
577 | AWT_announce_db_to_browser(GLOBAL_gb_dest, "New database (noname.arb)"); |
---|
578 | #endif // DEBUG |
---|
579 | |
---|
580 | MG_start_cb2(NULL, aw_root, true, true); |
---|
581 | aw_root->main_loop(); |
---|
582 | } |
---|
583 | } |
---|
584 | else if (mode == MERGE) { |
---|
585 | MG_create_all_awars(aw_root, AW_ROOT_DEFAULT, cl.get_arg(0), cl.get_arg(1)); |
---|
586 | nt_intro_start_merge(0, aw_root); |
---|
587 | aw_root->main_loop(); |
---|
588 | nt_assert(0); |
---|
589 | } |
---|
590 | else { |
---|
591 | const char *database = NULL; |
---|
592 | char *browser_startdir = strdup("."); |
---|
593 | |
---|
594 | if (cl.free_args() > 0) database = cl.get_arg(0); |
---|
595 | |
---|
596 | error = check_argument_for_mode(database, browser_startdir, mode); |
---|
597 | if (!error) { |
---|
598 | if (mode == IMPORT) { |
---|
599 | aw_root->awar_int(AWAR_READ_GENOM_DB, IMP_PLAIN_SEQUENCE); |
---|
600 | GLOBAL_gb_main = open_AWTC_import_window(aw_root, database, true, 0, (AW_RCB)start_main_window_after_import, 0, 0); |
---|
601 | aw_root->main_loop(); |
---|
602 | } |
---|
603 | else if (mode == NORMAL) { |
---|
604 | aw_root->awar(AWAR_DB_PATH)->write_string(database); |
---|
605 | error = load_and_startup_main_window(aw_root, cl.autorun_macro()); |
---|
606 | if (!error) aw_root->main_loop(); |
---|
607 | } |
---|
608 | else if (mode == BROWSE) { |
---|
609 | aw_root->awar(AWAR_DB"directory")->write_string(browser_startdir); |
---|
610 | char *latest = GB_find_latest_file(browser_startdir, "/\\.(arb|a[0-9]{2})$/"); |
---|
611 | if (latest) { |
---|
612 | int l = strlen(latest); |
---|
613 | strcpy(latest+l-3, "arb"); |
---|
614 | aw_root->awar(AWAR_DB_PATH)->write_string(latest); |
---|
615 | free(latest); |
---|
616 | } |
---|
617 | AW_window *iws; |
---|
618 | if (GLOBAL_NT.window_creator) { |
---|
619 | iws = GLOBAL_NT.window_creator(aw_root, 0); |
---|
620 | } |
---|
621 | else { |
---|
622 | iws = nt_create_intro_window(aw_root); |
---|
623 | } |
---|
624 | iws->show(); |
---|
625 | aw_root->main_loop(); |
---|
626 | } |
---|
627 | } |
---|
628 | free(browser_startdir); |
---|
629 | } |
---|
630 | } |
---|
631 | } |
---|
632 | |
---|
633 | int exitcode = error ? EXIT_FAILURE : EXIT_SUCCESS; |
---|
634 | |
---|
635 | if (error) aw_popup_ok(error.deliver()); |
---|
636 | else error.expect_no_error(); |
---|
637 | |
---|
638 | delete aw_root; |
---|
639 | |
---|
640 | return exitcode; |
---|
641 | } |
---|
642 | |
---|