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NCBI C++ ToolKit: src/app/cn3d/data_manager.hpp Source File

std::list < ncbi::CRef < ncbi::objects::CSeq_entry > >

;

std::list < ncbi::CRef < ncbi::objects::CBiostruc > >

;

std::list < ncbi::CRef < ncbi::objects::CSeq_annot > >

;

std::list < ncbi::CRef < ncbi::objects::CUpdate_align > >

;

ncbi::CRef < ncbi::objects::CNcbi_mime_asn1 >

;

ncbi::CRef < ncbi::objects::CCdd >

;

(ncbi::objects::CReject_id *reject);

(

)

;

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

list< CRef< objects::CSeq_annot > > SeqAnnotList

ncbi::objects::CBiostruc_annot_set * structureAlignments

bool HasDataChanged(void) const

bool GetCDDNotes(TextLines *lines) const

void SetUserAnnotations(ncbi::objects::CCn3d_user_annotations &annots)

bool SetCDDDescription(const std::string &descr)

const ncbi::objects::CBiostruc * GetMasterStructure(void) const

void ReplaceUpdates(UpdateAlignList &newUpdates)

SeqAnnotList * sequenceAlignments

std::list< ncbi::CRef< ncbi::objects::CBiostruc > > BiostrucList

ncbi::objects::EModel_type biostrucModelType

void SetStyleDictionary(ncbi::objects::CCn3d_style_dictionary &styles)

void SetDataUnchanged(void) const

bool SetCDDNotes(const TextLines &lines)

std::list< ncbi::CRef< ncbi::objects::CUpdate_align > > UpdateAlignList

const ncbi::objects::CCn3d_user_annotations * GetUserAnnotations(void) const

const UpdateAlignList * GetUpdates(void) const

unsigned int GetDataChanged(void) const

bool ConvertMimeDataToCDD(const std::string &cddName)

ncbi::objects::CAlign_annot_set * GetCDDAnnotSet(void)

std::list< const Sequence * > SequenceList

bool WriteDataToFile(const char *filename, bool isBinary, std::string *err, ncbi::EFixNonPrint fixNonPrint=ncbi::eFNP_Default) const

ncbi::CRef< ncbi::objects::CNcbi_mime_asn1 > mimeData

bool ConvertMimeToGeneral(void)

void SetStructureAlignments(ncbi::objects::CBiostruc_annot_set *structureAlignments)

ncbi::objects::EModel_type GetBiostrucModelType(void) const

SeqEntryList * seqEntryList

bool AddBiostrucToASN(ncbi::objects::CBiostruc *biostruc)

SeqAnnotList * GetSequenceAlignments(void) const

bool IsSingleStructure(void) const

ncbi::CRef< ncbi::objects::CCdd > cddData

const ncbi::objects::CSeq_id * GetCDDMaster3d(void) const

const ncbi::objects::CCn3d_style_dictionary * GetStyleDictionary(void) const

void RemoveUserAnnotations(void)

bool IsCDDInMime(void) const

bool SetCDDName(const std::string &name)

SeqAnnotList * bundleImports

BiostrucList * biostrucList

void SetDataChanged(unsigned int what) const

const std::string & GetCDDName(void) const

ASNDataManager(ncbi::objects::CNcbi_mime_asn1 *mime)

ncbi::objects::CCdd * GetInternalCDDData(void)

const std::string & GetCDDDescription(void) const

UpdateAlignList bundleImportsFaked

ncbi::objects::CBiostruc * masterBiostruc

std::vector< std::string > TextLines

void AddReject(ncbi::objects::CReject_id *reject)

ncbi::objects::CBiostruc_annot_set * GetStructureAlignments(void) const

const BiostrucList * GetStructureList(void) const

void RemoveStyleDictionary(void)

bool MonitorAlignments(void) const

ncbi::objects::CCdd_descr_set * GetCDDDescrSet(void)

const StructureSet::RejectList * GetRejects(void) const

std::list< ncbi::CRef< ncbi::objects::CSeq_annot > > SeqAnnotList

SeqEntryList * GetSequences(void) const

bool IsGeneralMime(void) const

UpdateAlignList * cddUpdates

void RemoveConsensusFromCDD(void)

void RemoveUnusedSequences(const AlignmentSet *alignmentSet, const SequenceList &updateSequences)

std::list< ncbi::CRef< ncbi::objects::CSeq_entry > > SeqEntryList

SeqAnnotList * GetOrCreateSequenceAlignments(void)

std::list< ncbi::CRef< ncbi::objects::CReject_id > > RejectList

ncbi::objects::CNcbi_mime_asn1 * CreateMimeFromBiostruc(const std::string &filename, ncbi::objects::EModel_type model)

EFixNonPrint

How to process non-printing character in the ASN VisibleString.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_SCOPE(ns)

Define a new scope.

EModel_type

Access to EModel_type's attributes (values, names) as defined in spec.

Portable reference counted smart and weak pointers using CWeakRef, CRef, CObject and CObjectEx.

The NCBI C++/STL use hints.

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