Search Toolkit Book for CGC_AssemblyDesc
#include <objects/genomecoll/GC_AssemblyDesc.hpp>
Inheritance diagram for CGC_AssemblyDesc:
Collaboration diagram for CGC_AssemblyDesc:
Public Member Functions | |
| CGC_AssemblyDesc (void) | |
| ~CGC_AssemblyDesc (void) | |
| Public Member Functions inherited from CGC_AssemblyDesc_Base | |
| CGC_AssemblyDesc_Base (void) | |
| virtual | ~CGC_AssemblyDesc_Base (void) |
| DECLARE_INTERNAL_TYPE_INFO () | |
| bool | IsSetProjects (void) const |
| project ID for this genome this is the ID for this asssembly and may reflect the submitter/source Check if a value has been assigned to Projects data member. More... | |
| bool | CanGetProjects (void) const |
| Check if it is safe to call GetProjects method. More... | |
| void | ResetProjects (void) |
| Reset Projects data member. More... | |
| const TProjects & | GetProjects (void) const |
| Get the Projects member data. More... | |
| TProjects & | SetProjects (void) |
| Assign a value to Projects data member. More... | |
| bool | IsSetName (void) const |
| Names of the assembly Check if a value has been assigned to Name data member. More... | |
| bool | CanGetName (void) const |
| Check if it is safe to call GetName method. More... | |
| void | ResetName (void) |
| Reset Name data member. More... | |
| const TName & | GetName (void) const |
| Get the Name member data. More... | |
| void | SetName (const TName &value) |
| Assign a value to Name data member. More... | |
| void | SetName (TName &&value) |
| TName & | SetName (void) |
| Assign a value to Name data member. More... | |
| bool | IsSetSubmitter_name (void) const |
| Check if a value has been assigned to Submitter_name data member. More... | |
| bool | CanGetSubmitter_name (void) const |
| Check if it is safe to call GetSubmitter_name method. More... | |
| void | ResetSubmitter_name (void) |
| Reset Submitter_name data member. More... | |
| const TSubmitter_name & | GetSubmitter_name (void) const |
| Get the Submitter_name member data. More... | |
| void | SetSubmitter_name (const TSubmitter_name &value) |
| Assign a value to Submitter_name data member. More... | |
| void | SetSubmitter_name (TSubmitter_name &&value) |
| TSubmitter_name & | SetSubmitter_name (void) |
| Assign a value to Submitter_name data member. More... | |
| bool | IsSetDisplay_name (void) const |
| Check if a value has been assigned to Display_name data member. More... | |
| bool | CanGetDisplay_name (void) const |
| Check if it is safe to call GetDisplay_name method. More... | |
| void | ResetDisplay_name (void) |
| Reset Display_name data member. More... | |
| const TDisplay_name & | GetDisplay_name (void) const |
| Get the Display_name member data. More... | |
| void | SetDisplay_name (const TDisplay_name &value) |
| Assign a value to Display_name data member. More... | |
| void | SetDisplay_name (TDisplay_name &&value) |
| TDisplay_name & | SetDisplay_name (void) |
| Assign a value to Display_name data member. More... | |
| bool | IsSetLong_name (void) const |
| Check if a value has been assigned to Long_name data member. More... | |
| bool | CanGetLong_name (void) const |
| Check if it is safe to call GetLong_name method. More... | |
| void | ResetLong_name (void) |
| Reset Long_name data member. More... | |
| const TLong_name & | GetLong_name (void) const |
| Get the Long_name member data. More... | |
| void | SetLong_name (const TLong_name &value) |
| Assign a value to Long_name data member. More... | |
| void | SetLong_name (TLong_name &&value) |
| TLong_name & | SetLong_name (void) |
| Assign a value to Long_name data member. More... | |
| bool | IsSetFilesafe_name (void) const |
| Check if a value has been assigned to Filesafe_name data member. More... | |
| bool | CanGetFilesafe_name (void) const |
| Check if it is safe to call GetFilesafe_name method. More... | |
| void | ResetFilesafe_name (void) |
| Reset Filesafe_name data member. More... | |
| const TFilesafe_name & | GetFilesafe_name (void) const |
| Get the Filesafe_name member data. More... | |
| void | SetFilesafe_name (const TFilesafe_name &value) |
| Assign a value to Filesafe_name data member. More... | |
| void | SetFilesafe_name (TFilesafe_name &&value) |
| TFilesafe_name & | SetFilesafe_name (void) |
| Assign a value to Filesafe_name data member. More... | |
| bool | IsSetWgs_acc_prefix (void) const |
| Check if a value has been assigned to Wgs_acc_prefix data member. More... | |
| bool | CanGetWgs_acc_prefix (void) const |
| Check if it is safe to call GetWgs_acc_prefix method. More... | |
| void | ResetWgs_acc_prefix (void) |
| Reset Wgs_acc_prefix data member. More... | |
| const TWgs_acc_prefix & | GetWgs_acc_prefix (void) const |
| Get the Wgs_acc_prefix member data. More... | |
| void | SetWgs_acc_prefix (const TWgs_acc_prefix &value) |
| Assign a value to Wgs_acc_prefix data member. More... | |
| void | SetWgs_acc_prefix (TWgs_acc_prefix &&value) |
| TWgs_acc_prefix & | SetWgs_acc_prefix (void) |
| Assign a value to Wgs_acc_prefix data member. More... | |
| bool | IsSetWgs_acc_number (void) const |
| Check if a value has been assigned to Wgs_acc_number data member. More... | |
| bool | CanGetWgs_acc_number (void) const |
| Check if it is safe to call GetWgs_acc_number method. More... | |
| void | ResetWgs_acc_number (void) |
| Reset Wgs_acc_number data member. More... | |
| TWgs_acc_number | GetWgs_acc_number (void) const |
| Get the Wgs_acc_number member data. More... | |
| void | SetWgs_acc_number (TWgs_acc_number value) |
| Assign a value to Wgs_acc_number data member. More... | |
| TWgs_acc_number & | SetWgs_acc_number (void) |
| Assign a value to Wgs_acc_number data member. More... | |
| bool | IsSetRelease_type (void) const |
| Check if a value has been assigned to Release_type data member. More... | |
| bool | CanGetRelease_type (void) const |
| Check if it is safe to call GetRelease_type method. More... | |
| void | ResetRelease_type (void) |
| Reset Release_type data member. More... | |
| TRelease_type | GetRelease_type (void) const |
| Get the Release_type member data. More... | |
| void | SetRelease_type (TRelease_type value) |
| Assign a value to Release_type data member. More... | |
| TRelease_type & | SetRelease_type (void) |
| Assign a value to Release_type data member. More... | |
| bool | IsSetRelease_status (void) const |
| Check if a value has been assigned to Release_status data member. More... | |
| bool | CanGetRelease_status (void) const |
| Check if it is safe to call GetRelease_status method. More... | |
| void | ResetRelease_status (void) |
| Reset Release_status data member. More... | |
| TRelease_status | GetRelease_status (void) const |
| Get the Release_status member data. More... | |
| void | SetRelease_status (TRelease_status value) |
| Assign a value to Release_status data member. More... | |
| TRelease_status & | SetRelease_status (void) |
| Assign a value to Release_status data member. More... | |
| bool | IsSetAnnot (void) const |
| in alt-loci units - contain alignment of this sequence to the primary unit Check if a value has been assigned to Annot data member. More... | |
| bool | CanGetAnnot (void) const |
| Check if it is safe to call GetAnnot method. More... | |
| void | ResetAnnot (void) |
| Reset Annot data member. More... | |
| const TAnnot & | GetAnnot (void) const |
| Get the Annot member data. More... | |
| TAnnot & | SetAnnot (void) |
| Assign a value to Annot data member. More... | |
| bool | IsSetSynonyms (void) const |
| Synonyms: Other releases of same assembly Check if a value has been assigned to Synonyms data member. More... | |
| bool | CanGetSynonyms (void) const |
| Check if it is safe to call GetSynonyms method. More... | |
| void | ResetSynonyms (void) |
| Reset Synonyms data member. More... | |
| const TSynonyms & | GetSynonyms (void) const |
| Get the Synonyms member data. More... | |
| TSynonyms & | SetSynonyms (void) |
| Assign a value to Synonyms data member. More... | |
| bool | IsSetSubmitter_date (void) const |
| Submitter release date Check if a value has been assigned to Submitter_date data member. More... | |
| bool | CanGetSubmitter_date (void) const |
| Check if it is safe to call GetSubmitter_date method. More... | |
| void | ResetSubmitter_date (void) |
| Reset Submitter_date data member. More... | |
| const TSubmitter_date & | GetSubmitter_date (void) const |
| Get the Submitter_date member data. More... | |
| void | SetSubmitter_date (TSubmitter_date &value) |
| Assign a value to Submitter_date data member. More... | |
| TSubmitter_date & | SetSubmitter_date (void) |
| Assign a value to Submitter_date data member. More... | |
| bool | IsSetDescr (void) const |
| Various attributes assigned at this level: biosrc, comments, publications... More... | |
| bool | CanGetDescr (void) const |
| Check if it is safe to call GetDescr method. More... | |
| void | ResetDescr (void) |
| Reset Descr data member. More... | |
| const TDescr & | GetDescr (void) const |
| Get the Descr member data. More... | |
| void | SetDescr (TDescr &value) |
| Assign a value to Descr data member. More... | |
| TDescr & | SetDescr (void) |
| Assign a value to Descr data member. More... | |
| bool | IsSetPartial (void) const |
| flag: is this assembly partial? **NOTE: not set = not known!! Check if a value has been assigned to Partial data member. More... | |
| bool | CanGetPartial (void) const |
| Check if it is safe to call GetPartial method. More... | |
| void | ResetPartial (void) |
| Reset Partial data member. More... | |
| TPartial | GetPartial (void) const |
| Get the Partial member data. More... | |
| void | SetPartial (TPartial value) |
| Assign a value to Partial data member. More... | |
| TPartial & | SetPartial (void) |
| Assign a value to Partial data member. More... | |
| bool | IsSetCoverage (void) const |
| level of coverage for this assembly **NOTE: not set = not known!! Check if a value has been assigned to Coverage data member. More... | |
| bool | CanGetCoverage (void) const |
| Check if it is safe to call GetCoverage method. More... | |
| void | ResetCoverage (void) |
| Reset Coverage data member. More... | |
| TCoverage | GetCoverage (void) const |
| Get the Coverage member data. More... | |
| void | SetCoverage (TCoverage value) |
| Assign a value to Coverage data member. More... | |
| TCoverage & | SetCoverage (void) |
| Assign a value to Coverage data member. More... | |
| bool | IsSetRelease_level (void) const |
| Check if a value has been assigned to Release_level data member. More... | |
| bool | CanGetRelease_level (void) const |
| Check if it is safe to call GetRelease_level method. More... | |
| void | ResetRelease_level (void) |
| Reset Release_level data member. More... | |
| void | SetDefaultRelease_level (void) |
| Assign default value to Release_level data member. More... | |
| TRelease_level | GetRelease_level (void) const |
| Get the Release_level member data. More... | |
| void | SetRelease_level (TRelease_level value) |
| Assign a value to Release_level data member. More... | |
| TRelease_level & | SetRelease_level (void) |
| Assign a value to Release_level data member. More... | |
| bool | IsSetSubmitter_organization (void) const |
| organization which submitted this assembly. More... | |
| bool | CanGetSubmitter_organization (void) const |
| Check if it is safe to call GetSubmitter_organization method. More... | |
| void | ResetSubmitter_organization (void) |
| Reset Submitter_organization data member. More... | |
| const TSubmitter_organization & | GetSubmitter_organization (void) const |
| Get the Submitter_organization member data. More... | |
| void | SetSubmitter_organization (const TSubmitter_organization &value) |
| Assign a value to Submitter_organization data member. More... | |
| void | SetSubmitter_organization (TSubmitter_organization &&value) |
| TSubmitter_organization & | SetSubmitter_organization (void) |
| Assign a value to Submitter_organization data member. More... | |
| virtual void | Reset (void) |
| Reset the whole object. More... | |
| Public Member Functions inherited from CSerialObject | |
| CSerialObject (void) | |
| virtual | ~CSerialObject (void) |
| virtual const CTypeInfo * | GetThisTypeInfo (void) const =0 |
| virtual void | Assign (const CSerialObject &source, ESerialRecursionMode how=eRecursive) |
| Set object to copy of another one. More... | |
| virtual bool | Equals (const CSerialObject &object, ESerialRecursionMode how=eRecursive) const |
| Check if both objects contain the same values. More... | |
| virtual void | DebugDump (CDebugDumpContext ddc, unsigned int depth) const |
| Define method for dumping debug information. More... | |
| void | ThrowUnassigned (TMemberIndex index) const |
| void | ThrowUnassigned (TMemberIndex index, const char *file_name, int file_line) const |
| bool | HasNamespaceName (void) const |
| Check if object data type has namespace name. More... | |
| const string & | GetNamespaceName (void) const |
| Get namespace name. More... | |
| bool | HasNamespacePrefix (void) const |
| Check if data type has namespace prefix. More... | |
| const string & | GetNamespacePrefix (void) const |
| Get namespace prefix. More... | |
| Public Member Functions inherited from CObject | |
| CObject (void) | |
| Constructor. More... | |
| CObject (const CObject &src) | |
| Copy constructor. More... | |
| virtual | ~CObject (void) |
| Destructor. More... | |
| CObject & | operator= (const CObject &src) THROWS_NONE |
| Assignment operator. More... | |
| bool | CanBeDeleted (void) const THROWS_NONE |
| Check if object can be deleted. More... | |
| bool | IsAllocatedInPool (void) const THROWS_NONE |
| Check if object is allocated in memory pool (not system heap) More... | |
| bool | Referenced (void) const THROWS_NONE |
| Check if object is referenced. More... | |
| bool | ReferencedOnlyOnce (void) const THROWS_NONE |
| Check if object is referenced only once. More... | |
| void | AddReference (void) const |
| Add reference to object. More... | |
| void | RemoveReference (void) const |
| Remove reference to object. More... | |
| void | ReleaseReference (void) const |
| Remove reference without deleting object. More... | |
| virtual void | DoNotDeleteThisObject (void) |
| Mark this object as not allocated in heap – do not delete this object. More... | |
| virtual void | DoDeleteThisObject (void) |
| Mark this object as allocated in heap – object can be deleted. More... | |
| void * | operator new (size_t size) |
| Define new operator for memory allocation. More... | |
| void * | operator new[] (size_t size) |
| Define new[] operator for 'array' memory allocation. More... | |
| void | operator delete (void *ptr) |
| Define delete operator for memory deallocation. More... | |
| void | operator delete[] (void *ptr) |
| Define delete[] operator for memory deallocation. More... | |
| void * | operator new (size_t size, void *place) |
| Define new operator. More... | |
| void | operator delete (void *ptr, void *place) |
| Define delete operator. More... | |
| void * | operator new (size_t size, CObjectMemoryPool *place) |
| Define new operator using memory pool. More... | |
| void | operator delete (void *ptr, CObjectMemoryPool *place) |
| Define delete operator. More... | |
| Public Member Functions inherited from CDebugDumpable | |
| CDebugDumpable (void) | |
| virtual | ~CDebugDumpable (void) |
| void | DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const |
| void | DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const |
| void | DumpToConsole (void) const |
Private Types | |
| typedef CGC_AssemblyDesc_Base | Tparent |
Private Member Functions | |
| CGC_AssemblyDesc (const CGC_AssemblyDesc &value) | |
| CGC_AssemblyDesc & | operator= (const CGC_AssemblyDesc &value) |
Additional Inherited Members | |
| Public Types inherited from CGC_AssemblyDesc_Base | |
| enum | ERelease_type { eRelease_type_genbank = 1 , eRelease_type_refseq = 2 } |
| release type: RefSeq / GenBank. More... | |
| enum | ERelease_status { eRelease_status_new = 0 , eRelease_status_gpipe = 5 , eRelease_status_public = 10 , eRelease_status_suppressed = 15 , eRelease_status_hup = 100 , eRelease_status_withdrawn = 105 } |
| release status (numeric values have gaps for possible additional states More... | |
| enum | ERelease_level { eRelease_level_major = 0 , eRelease_level_patch = 1 , eRelease_level_minor = 2 , eRelease_level_other = 255 } |
| release level: Most of releases are major More... | |
| enum class | E_memberIndex { e__allMandatory = 0 , e_projects , e_name , e_submitter_name , e_display_name , e_long_name , e_filesafe_name , e_wgs_acc_prefix , e_wgs_acc_number , e_release_type , e_release_status , e_annot , e_synonyms , e_submitter_date , e_descr , e_partial , e_coverage , e_release_level , e_submitter_organization } |
| typedef list< CRef< CGC_Project > > | TProjects |
| typedef string | TName |
| typedef string | TSubmitter_name |
| typedef string | TDisplay_name |
| typedef CStringUTF8 | TLong_name |
| typedef string | TFilesafe_name |
| typedef string | TWgs_acc_prefix |
| typedef int | TWgs_acc_number |
| typedef int | TRelease_type |
| typedef int | TRelease_status |
| typedef list< CRef< CSeq_annot > > | TAnnot |
| typedef list< CRef< CGC_DbTagAlias > > | TSynonyms |
| typedef CDate | TSubmitter_date |
| typedef CSeq_descr | TDescr |
| typedef bool | TPartial |
| typedef double | TCoverage |
| typedef int | TRelease_level |
| typedef CStringUTF8 | TSubmitter_organization |
| typedef Tparent::CMemberIndex< E_memberIndex, 19 > | TmemberIndex |
| Public Types inherited from CObject | |
| enum | EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern } |
| Control filling of newly allocated memory. More... | |
| typedef CObjectCounterLocker | TLockerType |
| Default locker type for CRef. More... | |
| typedef atomic< Uint8 > | TCounter |
| Counter type is CAtomiCounter. More... | |
| typedef Uint8 | TCount |
| Alias for value type of counter. More... | |
| Static Public Member Functions inherited from CGC_AssemblyDesc_Base | |
| static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() | ERelease_type (void) |
| Access to ERelease_type's attributes (values, names) as defined in spec. More... | |
| static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() | ERelease_status (void) |
| Access to ERelease_status's attributes (values, names) as defined in spec. More... | |
| static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() | ERelease_level (void) |
| Access to ERelease_level's attributes (values, names) as defined in spec. More... | |
| Static Public Member Functions inherited from CSerialObject | |
| static void | SetVerifyDataThread (ESerialVerifyData verify) |
| static void | SetVerifyDataGlobal (ESerialVerifyData verify) |
| static string | UnassignedString (void) |
| static CStringUTF8 | UnassignedStringUTF8 (void) |
| static char | UnassignedByte (void) |
| Static Public Member Functions inherited from CObject | |
| static NCBI_XNCBI_EXPORT void | ThrowNullPointerException (void) |
| Define method to throw null pointer exception. More... | |
| static NCBI_XNCBI_EXPORT void | ThrowNullPointerException (const type_info &type) |
| static EAllocFillMode | GetAllocFillMode (void) |
| static void | SetAllocFillMode (EAllocFillMode mode) |
| static void | SetAllocFillMode (const string &value) |
| Set mode from configuration parameter value. More... | |
| Static Public Member Functions inherited from CDebugDumpable | |
| static void | EnableDebugDump (bool on) |
| Static Public Attributes inherited from CSerialObject | |
| static const char * | ms_UnassignedStr = "<*unassigned*>" |
| static const char | ms_UnassignedByte = char(0xcd) |
| Static Public Attributes inherited from CObject | |
| static const TCount | eCounterBitsCanBeDeleted = 1 << 0 |
| Define possible object states. More... | |
| static const TCount | eCounterBitsInPlainHeap = 1 << 1 |
| Heap signature was found. More... | |
| static const TCount | eCounterBitsPlaceMask |
| Mask for 'in heap' state flags. More... | |
| static const int | eCounterStep = 1 << 2 |
| Skip over the "in heap" bits. More... | |
| static const TCount | eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2) |
| Minimal value for valid objects (reference counter is zero) Must be a single bit value. More... | |
| static const TCount | eCounterStateMask |
| Valid object, and object in heap. More... | |
| Protected Member Functions inherited from CObject | |
| virtual void | DeleteThis (void) |
| Virtual method "deleting" this object. More... | |
Detailed Description
Definition at line 65 of file GC_AssemblyDesc.hpp.
The documentation for this class was generated from the following files:
- include/objects/genomecoll/GC_AssemblyDesc.hpp
- src/objects/genomecoll/GC_AssemblyDesc.cpp
