utilities.cpp

来自「ncbi源码」· C++ 代码 · 共 1,229 行 · 第 1/4 页

    Associate( CSeqFeatData::eSubtype_unsure, CGbqualType::e_Usedin );

    // V_region
    Associate( CSeqFeatData::eSubtype_V_region, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_V_region, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_V_region, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_V_region, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_V_region, CGbqualType::e_Usedin );

    // V_segment
    Associate( CSeqFeatData::eSubtype_V_segment, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_V_segment, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_V_segment, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_V_segment, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_V_segment, CGbqualType::e_Usedin );

    // variation
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Allele );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Frequency );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Phenotype );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Replace );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_variation, CGbqualType::e_Usedin );

    // 3clip
    Associate( CSeqFeatData::eSubtype_3clip, CGbqualType::e_Allele );
    Associate( CSeqFeatData::eSubtype_3clip, CGbqualType::e_Function );
    Associate( CSeqFeatData::eSubtype_3clip, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_3clip, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_3clip, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_3clip, CGbqualType::e_Usedin );

    // 3UTR
    Associate( CSeqFeatData::eSubtype_3UTR, CGbqualType::e_Allele );
    Associate( CSeqFeatData::eSubtype_3UTR, CGbqualType::e_Function );
    Associate( CSeqFeatData::eSubtype_3UTR, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_3UTR, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_3UTR, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_3UTR, CGbqualType::e_Usedin );

    // 5clip
    Associate( CSeqFeatData::eSubtype_5clip, CGbqualType::e_Allele );
    Associate( CSeqFeatData::eSubtype_5clip, CGbqualType::e_Function );
    Associate( CSeqFeatData::eSubtype_5clip, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_5clip, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_5clip, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_5clip, CGbqualType::e_Usedin );

    // 5UTR
    Associate( CSeqFeatData::eSubtype_5UTR, CGbqualType::e_Allele );
    Associate( CSeqFeatData::eSubtype_5UTR, CGbqualType::e_Function );
    Associate( CSeqFeatData::eSubtype_5UTR, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_5UTR, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_5UTR, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_5UTR, CGbqualType::e_Usedin );

    // 10_signal
    Associate( CSeqFeatData::eSubtype_10_signal, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_10_signal, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_10_signal, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_10_signal, CGbqualType::e_Usedin );

    // 35_signal
    Associate( CSeqFeatData::eSubtype_35_signal, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_35_signal, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_35_signal, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_35_signal, CGbqualType::e_Usedin );

    // region
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Function );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Number );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Phenotype );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_region, CGbqualType::e_Usedin );

    // mat_peptide_aa
    Associate( CSeqFeatData::eSubtype_mat_peptide_aa, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_mat_peptide_aa, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_mat_peptide_aa, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_mat_peptide_aa, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_mat_peptide_aa, CGbqualType::e_Usedin );

    // sig_peptide_aa
    Associate( CSeqFeatData::eSubtype_sig_peptide_aa, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_sig_peptide_aa, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_sig_peptide_aa, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_sig_peptide_aa, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_sig_peptide_aa, CGbqualType::e_Usedin );

    // transit_peptide_aa
    Associate( CSeqFeatData::eSubtype_transit_peptide_aa, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_transit_peptide_aa, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_transit_peptide_aa, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_transit_peptide_aa, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_transit_peptide_aa, CGbqualType::e_Usedin );

    // snoRNA
    Associate( CSeqFeatData::eSubtype_snoRNA, CGbqualType::e_Function );
    Associate( CSeqFeatData::eSubtype_snoRNA, CGbqualType::e_Label );
    Associate( CSeqFeatData::eSubtype_snoRNA, CGbqualType::e_Map );
    Associate( CSeqFeatData::eSubtype_snoRNA, CGbqualType::e_Product );
    Associate( CSeqFeatData::eSubtype_snoRNA, CGbqualType::e_Standard_name );
    Associate( CSeqFeatData::eSubtype_snoRNA, CGbqualType::e_Usedin );
}


void CFeatQualAssoc::PopulateMandatoryGbquals(void)
{
    // gene feature requires gene gbqual
    m_MandatoryGbquals[CSeqFeatData::eSubtype_gene].push_back(CGbqualType::e_Gene);

    // misc_binding & protein_bind require bound_moiety
    m_MandatoryGbquals[CSeqFeatData::eSubtype_misc_binding].push_back(CGbqualType::e_Bound_moiety);
    m_MandatoryGbquals[CSeqFeatData::eSubtype_protein_bind].push_back(CGbqualType::e_Bound_moiety);

    // modified_base requires mod_base
    m_MandatoryGbquals[CSeqFeatData::eSubtype_modified_base].push_back(CGbqualType::e_Mod_base);
}


// =============================================================================
//                                 Country Names
// =============================================================================


// legal country names
const string CCountries::sm_Countries[] = {
  "Afghanistan",
  "Albania",
  "Algeria",
  "American Samoa",
  "Andorra",
  "Angola",
  "Anguilla",
  "Antarctica",
  "Antigua and Barbuda",
  "Argentina",
  "Armenia",
  "Aruba",
  "Ashmore and Cartier Islands",
  "Australia",
  "Austria",
  "Azerbaijan",
  "Bahamas",
  "Bahrain",
  "Baker Island",
  "Bangladesh",
  "Barbados",
  "Bassas da India",
  "Belarus",
  "Belgium",
  "Belize",
  "Benin",
  "Bermuda",
  "Bhutan",
  "Bolivia",
  "Bosnia and Herzegovina",
  "Botswana",
  "Bouvet Island",
  "Brazil",
  "British Virgin Islands",
  "Brunei",
  "Bulgaria",
  "Burkina Faso",
  "Burundi",
  "Cambodia",
  "Cameroon",
  "Canada",
  "Cape Verde",
  "Cayman Islands",
  "Central African Republic",
  "Chad",
  "Chile",
  "China",
  "Christmas Island",
  "Clipperton Island",
  "Cocos Islands",
  "Colombia",
  "Comoros",
  "Cook Islands",
  "Coral Sea Islands",
  "Costa Rica",
  "Cote d'Ivoire",
  "Croatia",
  "Cuba",
  "Cyprus",
  "Czech Republic",
  "Democratic Republic of the Congo",
  "Denmark",
  "Djibouti",
  "Dominica",
  "Dominican Republic",
  "East Timor",
  "Ecuador",
  "Egypt",
  "El Salvador",
  "Equatorial Guinea",
  "Eritrea",
  "Estonia",
  "Ethiopia",
  "Europa Island",
  "Falkland Islands (Islas Malvinas)",
  "Faroe Islands",
  "Fiji",
  "Finland",
  "France",
  "French Guiana",
  "French Polynesia",
  "French Southern and Antarctic Lands",
  "Gabon",
  "Gambia",
  "Gaza Strip",
  "Georgia",
  "Germany",
  "Ghana",
  "Gibraltar",
  "Glorioso Islands",
  "Greece",
  "Greenland",
  "Grenada",
  "Guadeloupe",
  "Guam",
  "Guatemala",
  "Guernsey",
  "Guinea",
  "Guinea-Bissau",
  "Guyana",
  "Haiti",
  "Heard Island and McDonald Islands",
  "Honduras",
  "Hong Kong",
  "Howland Island",
  "Hungary",
  "Iceland",
  "India",
  "Indonesia",
  "Iran",
  "Iraq",
  "Ireland",
  "Isle of Man",
  "Israel",
  "Italy",
  "Jamaica",
  "Jan Mayen",
  "Japan",
  "Jarvis Island",
  "Jersey",
  "Johnston Atoll",
  "Jordan",
  "Juan de Nova Island",
  "Kazakhstan",
  "Kenya",
  "Kerguelen Archipelago",
  "Kingman Reef",
  "Kiribati",
  "Kuwait",
  "Kyrgyzstan",
  "Laos",
  "Latvia",
  "Lebanon",
  "Lesotho",
  "Liberia",
  "Libya",
  "Liechtenstein",
  "Lithuania",
  "Luxembourg",
  "Macau",
  "Macedonia",
  "Madagascar",
  "Malawi",
  "Malaysia",
  "Maldives",
  "Mali",
  "Malta",
  "Marshall Islands",
  "Martinique",
  "Mauritania",
  "Mauritius",
  "Mayotte",
  "Mexico",
  "Micronesia",
  "Midway Islands",
  "Moldova",
  "Monaco",
  "Mongolia",
  "Montserrat",
  "Morocco",
  "Mozambique",
  "Myanmar",
  "Namibia",
  "Nauru",
  "Navassa Island",
  "Nepal",
  "Netherlands",
  "Netherlands Antilles",
  "New Caledonia",
  "New Zealand",
  "Nicaragua",
  "Niger",
  "Nigeria",
  "Niue",
  "Norfolk Island",