Variation_.cpp

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/* $Id$
 * ===========================================================================
 *
 *                            PUBLIC DOMAIN NOTICE
 *               National Center for Biotechnology Information
 *
 *  This software/database is a "United States Government Work" under the
 *  terms of the United States Copyright Act.  It was written as part of
 *  the author's official duties as a United States Government employee and
 *  thus cannot be copyrighted.  This software/database is freely available
 *  to the public for use. The National Library of Medicine and the U.S.
 *  Government have not placed any restriction on its use or reproduction.
 *
 *  Although all reasonable efforts have been taken to ensure the accuracy
 *  and reliability of the software and data, the NLM and the U.S.
 *  Government do not and cannot warrant the performance or results that
 *  may be obtained by using this software or data. The NLM and the U.S.
 *  Government disclaim all warranties, express or implied, including
 *  warranties of performance, merchantability or fitness for any particular
 *  purpose.
 *
 *  Please cite the author in any work or product based on this material.
 *
 * ===========================================================================
 *
 * File Description:
 *   This code was generated by application DATATOOL
 *   using the following specifications:
 *   'variation.asn'.
 *
 * ATTENTION:
 *   Don't edit or commit this file into CVS as this file will
 *   be overridden (by DATATOOL) without warning!
 * ===========================================================================
 */
 
// standard includes
#include <ncbi_pch.hpp>
#include <serial/serialimpl.hpp>
 
// generated includes
#include <objects/variation/Variation.hpp>
#include <objects/general/Dbtag.hpp>
#include <objects/general/Object_id.hpp>
#include <objects/general/User_object.hpp>
#include <objects/pub/Pub_set.hpp>
#include <objects/seq/Bioseq.hpp>
#include <objects/seqfeat/Phenotype.hpp>
#include <objects/seqfeat/Population_data.hpp>
#include <objects/seqfeat/SubSource.hpp>
#include <objects/seqfeat/VariantProperties.hpp>
#include <objects/seqfeat/Variation_inst.hpp>
#include <objects/variation/VariantPlacement.hpp>
#include <objects/variation/VariationException.hpp>
#include <objects/variation/VariationMethod.hpp>
BEGIN_NCBI_SCOPE
 
BEGIN_objects_SCOPE // namespace ncbi::objects::
 
 
// generated classes
 
BEGIN_NAMED_ENUM_IN_INFO("", CVariation_Base::C_Data::C_Set::, EData_set_type, true)
{
    SET_ENUM_INTERNAL_NAME("Variation.data.set", "type");
    SET_ENUM_MODULE("NCBI-VariationPackage");
    ADD_ENUM_VALUE("unknown", eData_set_type_unknown);
    ADD_ENUM_VALUE("compound", eData_set_type_compound);
    ADD_ENUM_VALUE("products", eData_set_type_products);
    ADD_ENUM_VALUE("haplotype", eData_set_type_haplotype);
    ADD_ENUM_VALUE("genotype", eData_set_type_genotype);
    ADD_ENUM_VALUE("mosaic", eData_set_type_mosaic);
    ADD_ENUM_VALUE("individual", eData_set_type_individual);
    ADD_ENUM_VALUE("population", eData_set_type_population);
    ADD_ENUM_VALUE("alleles", eData_set_type_alleles);
    ADD_ENUM_VALUE("package", eData_set_type_package);
    ADD_ENUM_VALUE("chimeric", eData_set_type_chimeric);
    ADD_ENUM_VALUE("other", eData_set_type_other);
}
END_ENUM_INFO
 
void CVariation_Base::C_Data::C_Set::ResetVariations(void)
{
    m_Variations.clear();
    m_set_State[0] &= ~0xc;
}
 
void CVariation_Base::C_Data::C_Set::ResetName(void)
{
    m_Name.erase();
    m_set_State[0] &= ~0x30;
}
 
void CVariation_Base::C_Data::C_Set::Reset(void)
{
    ResetType();
    ResetVariations();
    ResetName();
}
 
BEGIN_NAMED_CLASS_INFO("", CVariation_Base::C_Data::C_Set)
{
    SET_INTERNAL_NAME("Variation.data", "set");
    SET_CLASS_MODULE("NCBI-VariationPackage");
    ADD_NAMED_ENUM_MEMBER("type", m_Type, EData_set_type)->SetSetFlag(MEMBER_PTR(m_set_State[0]));
    ADD_NAMED_MEMBER("variations", m_Variations, STL_list_set, (STL_CRef, (CLASS, (CVariation))))->SetSetFlag(MEMBER_PTR(m_set_State[0]));
    ADD_NAMED_STD_MEMBER("name", m_Name)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    info->RandomOrder();
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CLASS_INFO
 
// constructor
CVariation_Base::C_Data::C_Set::C_Set(void)
    : m_Type((EData_set_type)(0))
{
    memset(m_set_State,0,sizeof(m_set_State));
}
 
// destructor
CVariation_Base::C_Data::C_Set::~C_Set(void)
{
}
 
 
void CVariation_Base::C_Data::Reset(void)
{
    if ( m_choice != e_not_set )
        ResetSelection();
}
 
void CVariation_Base::C_Data::ResetSelection(void)
{
    switch ( m_choice ) {
    case e_Note:
        m_string.Destruct();
        break;
    case e_Instance:
    case e_Set:
    case e_Seq:
        m_object->RemoveReference();
        break;
    default:
        break;
    }
    m_choice = e_not_set;
}
 
void CVariation_Base::C_Data::DoSelect(E_Choice index, NCBI_NS_NCBI::CObjectMemoryPool* pool)
{
    switch ( index ) {
    case e_Instance:
        (m_object = new(pool) ncbi::objects::CVariation_inst())->AddReference();
        break;
    case e_Set:
        (m_object = new(pool) C_Set())->AddReference();
        break;
    case e_Seq:
        (m_object = new(pool) ncbi::objects::CBioseq())->AddReference();
        break;
    case e_Note:
        m_string.Construct();
        break;
    default:
        break;
    }
    m_choice = index;
}
 
const char* const CVariation_Base::C_Data::sm_SelectionNames[] = {
    "not set",
    "unknown",
    "note",
    "uniparental-disomy",
    "instance",
    "set",
    "complex",
    "seq"
};
 
NCBI_NS_STD::string CVariation_Base::C_Data::SelectionName(E_Choice index)
{
    return NCBI_NS_NCBI::CInvalidChoiceSelection::GetName(index, sm_SelectionNames, sizeof(sm_SelectionNames)/sizeof(sm_SelectionNames[0]));
}
 
void CVariation_Base::C_Data::ThrowInvalidSelection(E_Choice index) const
{
    throw NCBI_NS_NCBI::CInvalidChoiceSelection(DIAG_COMPILE_INFO, this, m_choice, index, sm_SelectionNames, sizeof(sm_SelectionNames)/sizeof(sm_SelectionNames[0]));
}
 
void CVariation_Base::C_Data::SetNote(const CVariation_Base::C_Data::TNote& value)
{
    Select(e_Note, NCBI_NS_NCBI::eDoNotResetVariant);
    *m_string = value;
}
 
const CVariation_Base::C_Data::TInstance& CVariation_Base::C_Data::GetInstance(void) const
{
    CheckSelected(e_Instance);
    return *static_cast<const TInstance*>(m_object);
}
 
CVariation_Base::C_Data::TInstance& CVariation_Base::C_Data::SetInstance(void)
{
    Select(e_Instance, NCBI_NS_NCBI::eDoNotResetVariant);
    return *static_cast<TInstance*>(m_object);
}
 
void CVariation_Base::C_Data::SetInstance(CVariation_Base::C_Data::TInstance& value)
{
    TInstance* ptr = &value;
    if ( m_choice != e_Instance || m_object != ptr ) {
        ResetSelection();
        (m_object = ptr)->AddReference();
        m_choice = e_Instance;
    }
}
 
const CVariation_Base::C_Data::TSet& CVariation_Base::C_Data::GetSet(void) const
{
    CheckSelected(e_Set);
    return *static_cast<const TSet*>(m_object);
}
 
CVariation_Base::C_Data::TSet& CVariation_Base::C_Data::SetSet(void)
{
    Select(e_Set, NCBI_NS_NCBI::eDoNotResetVariant);
    return *static_cast<TSet*>(m_object);
}
 
void CVariation_Base::C_Data::SetSet(CVariation_Base::C_Data::TSet& value)
{
    TSet* ptr = &value;
    if ( m_choice != e_Set || m_object != ptr ) {
        ResetSelection();
        (m_object = ptr)->AddReference();
        m_choice = e_Set;
    }
}
 
const CVariation_Base::C_Data::TSeq& CVariation_Base::C_Data::GetSeq(void) const
{
    CheckSelected(e_Seq);
    return *static_cast<const TSeq*>(m_object);
}
 
CVariation_Base::C_Data::TSeq& CVariation_Base::C_Data::SetSeq(void)
{
    Select(e_Seq, NCBI_NS_NCBI::eDoNotResetVariant);
    return *static_cast<TSeq*>(m_object);
}
 
void CVariation_Base::C_Data::SetSeq(CVariation_Base::C_Data::TSeq& value)
{
    TSeq* ptr = &value;
    if ( m_choice != e_Seq || m_object != ptr ) {
        ResetSelection();
        (m_object = ptr)->AddReference();
        m_choice = e_Seq;
    }
}
 
// helper methods
 
// type info
BEGIN_NAMED_CHOICE_INFO("", CVariation_Base::C_Data)
{
    SET_INTERNAL_NAME("Variation", "data");
    SET_CHOICE_MODULE("NCBI-VariationPackage");
    ADD_NAMED_NULL_CHOICE_VARIANT("unknown", null, ());
    ADD_NAMED_BUF_CHOICE_VARIANT("note", m_string, STD, (string));
    ADD_NAMED_NULL_CHOICE_VARIANT("uniparental-disomy", null, ());
    ADD_NAMED_REF_CHOICE_VARIANT("instance", m_object, CVariation_inst);
    ADD_NAMED_REF_CHOICE_VARIANT("set", m_object, C_Set);
    ADD_NAMED_NULL_CHOICE_VARIANT("complex", null, ());
    ADD_NAMED_REF_CHOICE_VARIANT("seq", m_object, CBioseq);
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CHOICE_INFO
 
// constructor
CVariation_Base::C_Data::C_Data(void)
    : m_choice(e_not_set)
{
}
 
// destructor
CVariation_Base::C_Data::~C_Data(void)
{
    Reset();
}
 
 
void CVariation_Base::C_E_Consequence::C_Loss_of_heterozygosity::ResetReference(void)
{
    m_Reference.erase();
    m_set_State[0] &= ~0x3;
}
 
void CVariation_Base::C_E_Consequence::C_Loss_of_heterozygosity::ResetTest(void)
{
    m_Test.erase();
    m_set_State[0] &= ~0xc;
}
 
void CVariation_Base::C_E_Consequence::C_Loss_of_heterozygosity::Reset(void)
{
    ResetReference();
    ResetTest();
}
 
BEGIN_NAMED_CLASS_INFO("", CVariation_Base::C_E_Consequence::C_Loss_of_heterozygosity)
{
    SET_INTERNAL_NAME("Variation.consequence.E", "loss-of-heterozygosity");
    SET_CLASS_MODULE("NCBI-VariationPackage");
    ADD_NAMED_STD_MEMBER("reference", m_Reference)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_STD_MEMBER("test", m_Test)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    info->RandomOrder();
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CLASS_INFO
 
// constructor
CVariation_Base::C_E_Consequence::C_Loss_of_heterozygosity::C_Loss_of_heterozygosity(void)
{
    memset(m_set_State,0,sizeof(m_set_State));
}
 
// destructor
CVariation_Base::C_E_Consequence::C_Loss_of_heterozygosity::~C_Loss_of_heterozygosity(void)
{
}
 
 
void CVariation_Base::C_E_Consequence::Reset(void)
{
    if ( m_choice != e_not_set )
        ResetSelection();
}
 
void CVariation_Base::C_E_Consequence::ResetSelection(void)
{
    switch ( m_choice ) {
    case e_Note:
        m_string.Destruct();
        break;
    case e_Variation:
    case e_Loss_of_heterozygosity:
        m_object->RemoveReference();
        break;
    default:
        break;
    }
    m_choice = e_not_set;
}
 
void CVariation_Base::C_E_Consequence::DoSelect(E_Choice index, NCBI_NS_NCBI::CObjectMemoryPool* pool)
{
    switch ( index ) {
    case e_Variation:
        (m_object = new(pool) ncbi::objects::CVariation())->AddReference();
        break;
    case e_Loss_of_heterozygosity:
        (m_object = new(pool) C_Loss_of_heterozygosity())->AddReference();
        break;
    case e_Note:
        m_string.Construct();
        break;
    default:
        break;
    }
    m_choice = index;
}
 
const char* const CVariation_Base::C_E_Consequence::sm_SelectionNames[] = {
    "not set",
    "unknown",
    "splicing",
    "note",
    "variation",
    "loss-of-heterozygosity"
};
 
NCBI_NS_STD::string CVariation_Base::C_E_Consequence::SelectionName(E_Choice index)
{
    return NCBI_NS_NCBI::CInvalidChoiceSelection::GetName(index, sm_SelectionNames, sizeof(sm_SelectionNames)/sizeof(sm_SelectionNames[0]));
}
 
void CVariation_Base::C_E_Consequence::ThrowInvalidSelection(E_Choice index) const
{
    throw NCBI_NS_NCBI::CInvalidChoiceSelection(DIAG_COMPILE_INFO, this, m_choice, index, sm_SelectionNames, sizeof(sm_SelectionNames)/sizeof(sm_SelectionNames[0]));
}
 
void CVariation_Base::C_E_Consequence::SetNote(const CVariation_Base::C_E_Consequence::TNote& value)
{
    Select(e_Note, NCBI_NS_NCBI::eDoNotResetVariant);
    *m_string = value;
}
 
const CVariation_Base::C_E_Consequence::TVariation& CVariation_Base::C_E_Consequence::GetVariation(void) const
{
    CheckSelected(e_Variation);
    return *static_cast<const TVariation*>(m_object);
}
 
CVariation_Base::C_E_Consequence::TVariation& CVariation_Base::C_E_Consequence::SetVariation(void)
{
    Select(e_Variation, NCBI_NS_NCBI::eDoNotResetVariant);
    return *static_cast<TVariation*>(m_object);
}
 
void CVariation_Base::C_E_Consequence::SetVariation(CVariation_Base::C_E_Consequence::TVariation& value)
{
    TVariation* ptr = &value;
    if ( m_choice != e_Variation || m_object != ptr ) {
        ResetSelection();
        (m_object = ptr)->AddReference();
        m_choice = e_Variation;
    }
}
 
const CVariation_Base::C_E_Consequence::TLoss_of_heterozygosity& CVariation_Base::C_E_Consequence::GetLoss_of_heterozygosity(void) const
{
    CheckSelected(e_Loss_of_heterozygosity);
    return *static_cast<const TLoss_of_heterozygosity*>(m_object);
}
 
CVariation_Base::C_E_Consequence::TLoss_of_heterozygosity& CVariation_Base::C_E_Consequence::SetLoss_of_heterozygosity(void)
{
    Select(e_Loss_of_heterozygosity, NCBI_NS_NCBI::eDoNotResetVariant);
    return *static_cast<TLoss_of_heterozygosity*>(m_object);
}
 
void CVariation_Base::C_E_Consequence::SetLoss_of_heterozygosity(CVariation_Base::C_E_Consequence::TLoss_of_heterozygosity& value)
{
    TLoss_of_heterozygosity* ptr = &value;
    if ( m_choice != e_Loss_of_heterozygosity || m_object != ptr ) {
        ResetSelection();
        (m_object = ptr)->AddReference();
        m_choice = e_Loss_of_heterozygosity;
    }
}
 
// helper methods
 
// type info
BEGIN_NAMED_CHOICE_INFO("", CVariation_Base::C_E_Consequence)
{
    SET_INTERNAL_NAME("Variation.consequence", "E");
    SET_CHOICE_MODULE("NCBI-VariationPackage");
    ADD_NAMED_NULL_CHOICE_VARIANT("unknown", null, ());
    ADD_NAMED_NULL_CHOICE_VARIANT("splicing", null, ());
    ADD_NAMED_BUF_CHOICE_VARIANT("note", m_string, STD, (string));
    ADD_NAMED_REF_CHOICE_VARIANT("variation", m_object, CVariation);
    ADD_NAMED_REF_CHOICE_VARIANT("loss-of-heterozygosity", m_object, C_Loss_of_heterozygosity);
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CHOICE_INFO
 
// constructor
CVariation_Base::C_E_Consequence::C_E_Consequence(void)
    : m_choice(e_not_set)
{
}
 
// destructor
CVariation_Base::C_E_Consequence::~C_E_Consequence(void)
{
    Reset();
}
 
 
void CVariation_Base::C_Frameshift::Reset(void)
{
    ResetPhase();
    ResetX_length();
}
 
BEGIN_NAMED_CLASS_INFO("", CVariation_Base::C_Frameshift)
{
    SET_INTERNAL_NAME("Variation", "frameshift");
    SET_CLASS_MODULE("NCBI-VariationPackage");
    ADD_NAMED_STD_MEMBER("phase", m_Phase)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_STD_MEMBER("x-length", m_X_length)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    info->RandomOrder();
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CLASS_INFO
 
// constructor
CVariation_Base::C_Frameshift::C_Frameshift(void)
    : m_Phase(0), m_X_length(0)
{
    memset(m_set_State,0,sizeof(m_set_State));
}
 
// destructor
CVariation_Base::C_Frameshift::~C_Frameshift(void)
{
}
 
 
void CVariation_Base::C_E_Somatic_origin::C_Condition::ResetDescription(void)
{
    m_Description.erase();
    m_set_State[0] &= ~0x3;
}
 
void CVariation_Base::C_E_Somatic_origin::C_Condition::ResetObject_id(void)
{
    m_Object_id.clear();
    m_set_State[0] &= ~0xc;
}
 
void CVariation_Base::C_E_Somatic_origin::C_Condition::Reset(void)
{
    ResetDescription();
    ResetObject_id();
}
 
BEGIN_NAMED_CLASS_INFO("", CVariation_Base::C_E_Somatic_origin::C_Condition)
{
    SET_INTERNAL_NAME("Variation.somatic-origin.E", "condition");
    SET_CLASS_MODULE("NCBI-VariationPackage");
    ADD_NAMED_STD_MEMBER("description", m_Description)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("object-id", m_Object_id, STL_list_set, (STL_CRef, (CLASS, (CDbtag))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    info->RandomOrder();
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CLASS_INFO
 
// constructor
CVariation_Base::C_E_Somatic_origin::C_Condition::C_Condition(void)
{
    memset(m_set_State,0,sizeof(m_set_State));
}
 
// destructor
CVariation_Base::C_E_Somatic_origin::C_Condition::~C_Condition(void)
{
}
 
 
void CVariation_Base::C_E_Somatic_origin::ResetSource(void)
{
    m_Source.Reset();
}
 
void CVariation_Base::C_E_Somatic_origin::SetSource(CVariation_Base::C_E_Somatic_origin::TSource& value)
{
    m_Source.Reset(&value);
}
 
CVariation_Base::C_E_Somatic_origin::TSource& CVariation_Base::C_E_Somatic_origin::SetSource(void)
{
    if ( !m_Source )
        m_Source.Reset(new TSource());
    return (*m_Source);
}
 
void CVariation_Base::C_E_Somatic_origin::ResetCondition(void)
{
    m_Condition.Reset();
}
 
void CVariation_Base::C_E_Somatic_origin::SetCondition(CVariation_Base::C_E_Somatic_origin::TCondition& value)
{
    m_Condition.Reset(&value);
}
 
CVariation_Base::C_E_Somatic_origin::TCondition& CVariation_Base::C_E_Somatic_origin::SetCondition(void)
{
    if ( !m_Condition )
        m_Condition.Reset(new TCondition());
    return (*m_Condition);
}
 
void CVariation_Base::C_E_Somatic_origin::Reset(void)
{
    ResetSource();
    ResetCondition();
}
 
BEGIN_NAMED_CLASS_INFO("", CVariation_Base::C_E_Somatic_origin)
{
    SET_INTERNAL_NAME("Variation.somatic-origin", "E");
    SET_CLASS_MODULE("NCBI-VariationPackage");
    ADD_NAMED_REF_MEMBER("source", m_Source, CSubSource)->SetOptional();
    ADD_NAMED_REF_MEMBER("condition", m_Condition, C_Condition)->SetOptional();
    info->RandomOrder();
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CLASS_INFO
 
// constructor
CVariation_Base::C_E_Somatic_origin::C_E_Somatic_origin(void)
{
    memset(m_set_State,0,sizeof(m_set_State));
}
 
// destructor
CVariation_Base::C_E_Somatic_origin::~C_E_Somatic_origin(void)
{
}
 
 
void CVariation_Base::ResetId(void)
{
    m_Id.Reset();
}
 
void CVariation_Base::SetId(CVariation_Base::TId& value)
{
    m_Id.Reset(&value);
}
 
CVariation_Base::TId& CVariation_Base::SetId(void)
{
    if ( !m_Id )
        m_Id.Reset(new TId());
    return (*m_Id);
}
 
void CVariation_Base::ResetParent_id(void)
{
    m_Parent_id.Reset();
}
 
void CVariation_Base::SetParent_id(CVariation_Base::TParent_id& value)
{
    m_Parent_id.Reset(&value);
}
 
CVariation_Base::TParent_id& CVariation_Base::SetParent_id(void)
{
    if ( !m_Parent_id )
        m_Parent_id.Reset(new TParent_id());
    return (*m_Parent_id);
}
 
void CVariation_Base::ResetSample_id(void)
{
    m_Sample_id.clear();
    m_set_State[0] &= ~0x30;
}
 
void CVariation_Base::ResetOther_ids(void)
{
    m_Other_ids.clear();
    m_set_State[0] &= ~0xc0;
}
 
void CVariation_Base::ResetName(void)
{
    m_Name.erase();
    m_set_State[0] &= ~0x300;
}
 
void CVariation_Base::ResetSynonyms(void)
{
    m_Synonyms.clear();
    m_set_State[0] &= ~0xc00;
}
 
void CVariation_Base::ResetDescription(void)
{
    m_Description.erase();
    m_set_State[0] &= ~0x3000;
}
 
void CVariation_Base::ResetPlacements(void)
{
    m_Placements.clear();
    m_set_State[0] &= ~0xc000;
}
 
void CVariation_Base::ResetPhenotype(void)
{
    m_Phenotype.clear();
    m_set_State[0] &= ~0x30000;
}
 
void CVariation_Base::ResetMethod(void)
{
    m_Method.Reset();
}
 
void CVariation_Base::SetMethod(CVariation_Base::TMethod& value)
{
    m_Method.Reset(&value);
}
 
CVariation_Base::TMethod& CVariation_Base::SetMethod(void)
{
    if ( !m_Method )
        m_Method.Reset(new TMethod());
    return (*m_Method);
}
 
void CVariation_Base::ResetPopulation_data(void)
{
    m_Population_data.clear();
    m_set_State[0] &= ~0x300000;
}
 
void CVariation_Base::ResetVariant_prop(void)
{
    m_Variant_prop.Reset();
}
 
void CVariation_Base::SetVariant_prop(CVariation_Base::TVariant_prop& value)
{
    m_Variant_prop.Reset(&value);
}
 
CVariation_Base::TVariant_prop& CVariation_Base::SetVariant_prop(void)
{
    if ( !m_Variant_prop )
        m_Variant_prop.Reset(new TVariant_prop());
    return (*m_Variant_prop);
}
 
void CVariation_Base::ResetPub(void)
{
    m_Pub.Reset();
}
 
void CVariation_Base::SetPub(CVariation_Base::TPub& value)
{
    m_Pub.Reset(&value);
}
 
CVariation_Base::TPub& CVariation_Base::SetPub(void)
{
    if ( !m_Pub )
        m_Pub.Reset(new TPub());
    return (*m_Pub);
}
 
void CVariation_Base::ResetClinical_test(void)
{
    m_Clinical_test.Reset();
}
 
void CVariation_Base::SetClinical_test(CVariation_Base::TClinical_test& value)
{
    m_Clinical_test.Reset(&value);
}
 
CVariation_Base::TClinical_test& CVariation_Base::SetClinical_test(void)
{
    if ( !m_Clinical_test )
        m_Clinical_test.Reset(new TClinical_test());
    return (*m_Clinical_test);
}
 
void CVariation_Base::ResetData(void)
{
    if ( !m_Data ) {
        m_Data.Reset(new TData());
        return;
    }
    (*m_Data).Reset();
}
 
void CVariation_Base::SetData(CVariation_Base::TData& value)
{
    m_Data.Reset(&value);
}
 
void CVariation_Base::ResetConsequence(void)
{
    m_Consequence.clear();
    m_set_State[0] &= ~0xc0000000;
}
 
void CVariation_Base::ResetFrameshift(void)
{
    m_Frameshift.Reset();
}
 
void CVariation_Base::SetFrameshift(CVariation_Base::TFrameshift& value)
{
    m_Frameshift.Reset(&value);
}
 
CVariation_Base::TFrameshift& CVariation_Base::SetFrameshift(void)
{
    if ( !m_Frameshift )
        m_Frameshift.Reset(new TFrameshift());
    return (*m_Frameshift);
}
 
void CVariation_Base::ResetExt(void)
{
    m_Ext.clear();
    m_set_State[1] &= ~0xc;
}
 
void CVariation_Base::ResetSomatic_origin(void)
{
    m_Somatic_origin.clear();
    m_set_State[1] &= ~0x30;
}
 
void CVariation_Base::ResetExceptions(void)
{
    m_Exceptions.clear();
    m_set_State[1] &= ~0xc0;
}
 
void CVariation_Base::ResetSo_terms(void)
{
    m_So_terms.clear();
    m_set_State[1] &= ~0x300;
}
 
void CVariation_Base::Reset(void)
{
    ResetId();
    ResetParent_id();
    ResetSample_id();
    ResetOther_ids();
    ResetName();
    ResetSynonyms();
    ResetDescription();
    ResetPlacements();
    ResetPhenotype();
    ResetMethod();
    ResetPopulation_data();
    ResetVariant_prop();
    ResetPub();
    ResetClinical_test();
    ResetData();
    ResetConsequence();
    ResetFrameshift();
    ResetExt();
    ResetSomatic_origin();
    ResetExceptions();
    ResetSo_terms();
}
 
BEGIN_NAMED_BASE_CLASS_INFO("Variation", CVariation)
{
    SET_CLASS_MODULE("NCBI-VariationPackage");
    ADD_NAMED_REF_MEMBER("id", m_Id, CDbtag)->SetOptional();
    ADD_NAMED_REF_MEMBER("parent-id", m_Parent_id, CDbtag)->SetOptional();
    ADD_NAMED_MEMBER("sample-id", m_Sample_id, STL_list_set, (STL_CRef, (CLASS, (CObject_id))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("other-ids", m_Other_ids, STL_list_set, (STL_CRef, (CLASS, (CDbtag))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_STD_MEMBER("name", m_Name)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("synonyms", m_Synonyms, STL_list_set, (STD, (string)))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_STD_MEMBER("description", m_Description)->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("placements", m_Placements, STL_list, (STL_CRef, (CLASS, (CVariantPlacement))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("phenotype", m_Phenotype, STL_list_set, (STL_CRef, (CLASS, (CPhenotype))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_REF_MEMBER("method", m_Method, CVariationMethod)->SetOptional();
    ADD_NAMED_MEMBER("population-data", m_Population_data, STL_list_set, (STL_CRef, (CLASS, (CPopulation_data))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_REF_MEMBER("variant-prop", m_Variant_prop, CVariantProperties)->SetOptional();
    ADD_NAMED_REF_MEMBER("pub", m_Pub, CPub_set)->SetOptional();
    ADD_NAMED_REF_MEMBER("clinical-test", m_Clinical_test, CDbtag)->SetOptional();
    ADD_NAMED_REF_MEMBER("data", m_Data, C_Data);
    ADD_NAMED_MEMBER("consequence", m_Consequence, STL_list_set, (STL_CRef, (CLASS, (C_E_Consequence))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_REF_MEMBER("frameshift", m_Frameshift, C_Frameshift)->SetOptional();
    ADD_NAMED_MEMBER("ext", m_Ext, STL_list_set, (STL_CRef, (CLASS, (CUser_object))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("somatic-origin", m_Somatic_origin, STL_list_set, (STL_CRef, (CLASS, (C_E_Somatic_origin))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("exceptions", m_Exceptions, STL_list_set, (STL_CRef, (CLASS, (CVariationException))))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    ADD_NAMED_MEMBER("so-terms", m_So_terms, STL_list_set, (STD, (int)))->SetSetFlag(MEMBER_PTR(m_set_State[0]))->SetOptional();
    info->RandomOrder();
    info->CodeVersion(22301);
    info->DataSpec(ncbi::EDataSpec::eASN);
}
END_CLASS_INFO
 
// constructor
CVariation_Base::CVariation_Base(void)
{
    memset(m_set_State,0,sizeof(m_set_State));
    if ( !IsAllocatedInPool() ) {
        ResetData();
    }
}
 
// destructor
CVariation_Base::~CVariation_Base(void)
{
}
 
 
 
END_objects_SCOPE // namespace ncbi::objects::
 
END_NCBI_SCOPE