C++ (Cpp) CSeq_feat::GetPseudo示例

//  ----------------------------------------------------------------------------
bool CSoMap::xMapRna(
    const CSeq_feat& feature,
    string& so_type)
//  ----------------------------------------------------------------------------
{
    static const map<CSeqFeatData::ESubtype, string> mapSubtypeStraight = {
        {CSeqFeatData::eSubtype_misc_RNA, "transcript"},
        {CSeqFeatData::eSubtype_rRNA, "rRNA"},
        {CSeqFeatData::eSubtype_tRNA, "tRNA"},
    };
    static const map<CSeqFeatData::ESubtype, string> mapSubtypePseudo = {
        {CSeqFeatData::eSubtype_misc_RNA, "pseudogenic_transcript"},
        {CSeqFeatData::eSubtype_rRNA, "pseudogenic_rRNA"},
        {CSeqFeatData::eSubtype_tRNA, "pseudogenic_tRNA"},
    };

    auto subtype = feature.GetData().GetSubtype();
    if (feature.IsSetPseudo()  &&  feature.GetPseudo()) {
        auto cit = mapSubtypePseudo.find(subtype);
        if (cit == mapSubtypePseudo.end()) {
            return false;
        }
        so_type = cit->second;
        return true;
    }
    if (feature.IsSetPseudo()  &&  !feature.GetPseudo()) {
        auto cit = mapSubtypeStraight.find(subtype);
        if (cit == mapSubtypeStraight.end()) {
            return false;
        }
        so_type = cit->second;
        return true;
    }

    for (auto qual: feature.GetQual()) {
        if (qual->GetQual() == "pseudo"  ||  qual->GetQual() == "pseudogene") {
            auto cit = mapSubtypePseudo.find(subtype);
            if (cit == mapSubtypePseudo.end()) {
                return false;
            }
            so_type = cit->second;
            return true;
        }
    }
    auto cit = mapSubtypeStraight.find(subtype);
    if (cit == mapSubtypeStraight.end()) {
        return false;
    }
    so_type = cit->second;
    return true;
}

示例#2

显示文件

文件： so_map.cpp 项目： svn2github/ncbi_tk

//  ----------------------------------------------------------------------------
bool CSoMap::xMapGene(
    const CSeq_feat& feature,
    string& so_type)
//  ----------------------------------------------------------------------------
{
    if (feature.IsSetPseudo()  &&  feature.GetPseudo()) {
        so_type = "pseudogene";
        return true;
    }
    for (auto qual: feature.GetQual()) {
        if (qual->GetQual() == "pseudo"  ||  qual->GetQual() == "pseudogene") {
            so_type = "pseudogene";
            return true;
        }
    }
    so_type = "gene";
    return true;
}