semantic_actions.hpp File Reference

#include <corelib/ncbistd.hpp>
#include <objects/varrep/varrep__.hpp>

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Functions
void	AssignRefSeqIdentifier (const string &identifier, CRef< CVariantExpression > &result)
void	TagAsChimera (CRef< CSequenceVariant > seq_var)
void	TagAsMosaic (CRef< CSequenceVariant > seq_var)
void	AssignSequenceVariant (CRef< CSequenceVariant > variant, CRef< CVariantExpression > &result)
void	AssignMissense (CRef< CAaSite > initial, const CProteinSub::TFinal &final, CRef< CSimpleVariant > &result)
void	AssignSilent (CRef< CAaLocation > loc, CRef< CSimpleVariant > &result)
void	AssignNonsense (CRef< CAaSite > initial, CRef< CSimpleVariant > &result)
void	AssignUnknownSub (CRef< CAaSite > initial, CRef< CSimpleVariant > &result)
void	AssignAaDup (CRef< CAaLocation > aa_loc, CRef< CSimpleVariant > &result)
void	AssignAaDel (CRef< CAaLocation > aa_loc, CRef< CSimpleVariant > &result)
void	AssignNtermExtension (CRef< CAaSite > initial_start_site, CRef< CCount > new_start_site, CRef< CSimpleVariant > &result)
void	AssignNtermExtension (CRef< CAaSite > initial_start_site, const string &new_aa, CRef< CCount > new_start_site, CRef< CSimpleVariant > &result)
void	AssignCtermExtension (const string &initial_stop_site, const string &aa, CRef< CCount > new_stop_site, CRef< CSimpleVariant > &result)
void	AssignAaIntervalLocation (CRef< CAaInterval > aa_interval, CRef< CAaLocation > &result)
void	AssignAaSiteLocation (CRef< CAaSite > aa_site, CRef< CAaLocation > &result)
void	AssignAaInterval (CRef< CAaSite > start, CRef< CAaSite > &stop, CRef< CAaInterval > &result)
void	AssignAaSite (const string &aa, const string &pos, CRef< CAaSite > &result)
void	AssignCount (const string &count, CRef< CCount > &result)
void	AssignFuzzyCount (const string &count, CRef< CCount > &result)
void	AssignCountRange (const string &start, const string &stop, CRef< CCount > &result)
void	AssignMinCount (const string &min_count, CRef< CCount > &result)
void	AssignMaxCount (const string &max_count, CRef< CCount > &result)
void	AssignAaSSR (CRef< CAaLocation > aa_loc, CRef< CCount > count, CRef< CSimpleVariant > &result)
void	AssignAaInsertion (CRef< CAaInterval > aa_interval, const CInsertion::TSeqinfo::TRaw_seq &raw_seq, CRef< CSimpleVariant > &result)
void	AssignAaInsertionSize (CRef< CAaInterval > aa_interval, CRef< CCount > seq_size, CRef< CSimpleVariant > &result)
void	AssignFrameshift (CRef< CAaSite > aa_site, CRef< CSimpleVariant > &result)
void	AssignAaDelins (CRef< CAaLocation > aa_loc, const string &raw_seq, CRef< CSimpleVariant > &result)
void	AssignAaDelinsSize (CRef< CAaLocation > aa_loc, CRef< CCount > seq_size, CRef< CSimpleVariant > &result)
void	AssignFuzzyLocalVariation (CRef< CSimpleVariant > input, CRef< CSimpleVariant > &result)
void	AssignSimpleVariant (CRef< CSimpleVariant > simple_variant, CRef< CVariant > &result)
void	AssignSpecialVariant (ESpecialVariant special_variant, CRef< CVariant > &result)
void	AssignSingleVariation (CRef< CVariant > variant, CRef< CSequenceVariant > &result)
void	AssignSequenceType (CRef< CSequenceVariant > &result)
void	AssignFuzzyNtSite (CRef< CNtSite > center_site, CRef< CNtSite > &result)
void	AssignFuzzySimpleNtSite (const string &site_index, CRef< CNtSite > &result)
void	AssignSimpleNtSite (const string &site_index, CRef< CNtSite > &result)
void	Assign3primeUTRSite (CRef< CNtSite > nt_site, CRef< CNtSite > &result)
void	Assign5primeUTRSite (CRef< CNtSite > nt_site, CRef< CNtSite > &result)
void	AssignIntronSite (const string &base, const string &offset, CRef< CNtSite > &result)
void	AssignNtSiteRange (CRef< CNtSite > start, CRef< CNtSite > stop, CRef< CNtLocation > &result)
void	AssignNtSite (CRef< CNtSite > local_site, CRef< CNtLocation > &result)
void	AssignNtInterval (CRef< CNtLocation > start, CRef< CNtLocation > stop, CRef< CNtLocation > &result)
void	AssignNtRemoteLocation (const string &seq_id, const string &seq_type, CRef< CNtLocation > &nt_loc, CRef< CNtLocation > &result)
void	AssignNtSSR (CRef< CNtLocation > nt_loc, const CRepeat::TRaw_seq &raw_seq, CRef< CCount > count, CRef< CSimpleVariant > &result)
void	AssignNtSSR (CRef< CNtLocation > nt_loc, CRef< CCount > count, CRef< CSimpleVariant > &result)
void	AssignNtInv (CRef< CNtLocation > nt_int, CRef< CSimpleVariant > &result)
void	AssignNtInv (CRef< CNtLocation > nt_int, const CInversion::TRaw_seq &raw_seq, CRef< CSimpleVariant > &result)
void	AssignNtInvSize (CRef< CNtLocation > nt_int, string size, CRef< CSimpleVariant > &result)
void	AssignNtConversion (CRef< CNtLocation > src_int, CRef< CNtLocation > dest_int, CRef< CSimpleVariant > &result)
void	AssignNtInsertion (CRef< CNtLocation > nt_int, const CInsertion::TSeqinfo::TRaw_seq &raw_seq, CRef< CSimpleVariant > &result)
void	AssignNtDeletion (CRef< CNtLocation > nt_loc, CRef< CSimpleVariant > &result)
void	AssignNtDeletion (CRef< CNtLocation > nt_loc, const CDeletion::TRaw_seq &raw_seq, CRef< CSimpleVariant > &result)
void	AssignNtDelins (CRef< CNtLocation > nt_loc, const CInsertion::TSeqinfo::TRaw_seq &inserted_seq, CRef< CSimpleVariant > &result)
void	AssignNtDelins (CRef< CNtLocation > nt_loc, const CDeletion::TRaw_seq &deleted_seq, const CInsertion::TSeqinfo::TRaw_seq &inserted_seq, CRef< CSimpleVariant > &result)
void	AssignNtDup (CRef< CNtLocation > nt_loc, CRef< CSimpleVariant > &result)
void	AssignNtDup (CRef< CNtLocation > nt_loc, const CDuplication::TRaw_seq &raw_seq, CRef< CSimpleVariant > &result)
void	AssignNtSub (CRef< CNtLocation > nt_loc, const CNaSub::TInitial &initial_nt, const CNaSub::TFinal &final_nt, CRef< CSimpleVariant > &result)
void	AssignNtIdentity (CRef< CNtLocation > nt_loc, const CNaIdentity::TNucleotide &nucleotide, CRef< CSimpleVariant > &result)
void	AssignNtIdentity (CRef< CNtLocation > nt_loc, CRef< CSimpleVariant > &result)
void	AssignSequenceType (const string &type, CRef< CSequenceVariant > &result)

Function Documentation

Assign3primeUTRSite()

void Assign3primeUTRSite	(	CRef< CNtSite >	nt_site,
		CRef< CNtSite > &	result
	)

Definition at line 382 of file semantic_actions.cpp.

References CRef< C, Locker >::GetPointer(), Ref(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

Assign5primeUTRSite()

void Assign5primeUTRSite	(	CRef< CNtSite >	nt_site,
		CRef< CNtSite > &	result
	)

Definition at line 375 of file semantic_actions.cpp.

References CRef< C, Locker >::GetPointer(), Ref(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignAaDel()

void AssignAaDel	(	CRef< CAaLocation >	aa_loc,
		CRef< CSimpleVariant > &	result
	)

Definition at line 89 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaDelins()

void AssignAaDelins	(	CRef< CAaLocation >	aa_loc,
		const string &	raw_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 239 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaDelinsSize()

void AssignAaDelinsSize	(	CRef< CAaLocation >	aa_loc,
		CRef< CCount >	seq_size,
		CRef< CSimpleVariant > &	result
	)

Definition at line 252 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaDup()

void AssignAaDup	(	CRef< CAaLocation >	aa_loc,
		CRef< CSimpleVariant > &	result
	)

Definition at line 82 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaInsertion()

void AssignAaInsertion	(	CRef< CAaInterval >	aa_interval,
		const CInsertion::TSeqinfo::TRaw_seq &	raw_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 211 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaInsertionSize()

void AssignAaInsertionSize	(	CRef< CAaInterval >	aa_interval,
		CRef< CCount >	seq_size,
		CRef< CSimpleVariant > &	result
	)

Definition at line 221 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaInterval()

void AssignAaInterval	(	CRef< CAaSite >	start,
		CRef< CAaSite > &	stop,
		CRef< CAaInterval > &	result
	)

Definition at line 137 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaIntervalLocation()

void AssignAaIntervalLocation	(	CRef< CAaInterval >	aa_interval,
		CRef< CAaLocation > &	result
	)

Definition at line 123 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaSite()

void AssignAaSite	(	const string &	aa,
		const string &	pos,
		CRef< CAaSite > &	result
	)

Definition at line 145 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaSiteLocation()

void AssignAaSiteLocation	(	CRef< CAaSite >	aa_site,
		CRef< CAaLocation > &	result
	)

Definition at line 130 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignAaSSR()

void AssignAaSSR	(	CRef< CAaLocation >	aa_loc,
		CRef< CCount >	count,
		CRef< CSimpleVariant > &	result
	)

Definition at line 200 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignCount()

void AssignCount	(	const string &	count,
		CRef< CCount > &	result
	)

Definition at line 156 of file semantic_actions.cpp.

References CreateResultIfNull(), result, and val.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar(), and SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignCountRange()

void AssignCountRange	(	const string &	start,
		const string &	stop,
		CRef< CCount > &	result
	)

Definition at line 179 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar(), and SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignCtermExtension()

void AssignCtermExtension	(	const string &	initial_stop_site,
		const string &	aa,
		CRef< CCount >	new_stop_site,
		CRef< CSimpleVariant > &	result
	)

Definition at line 110 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignFrameshift()

void AssignFrameshift	(	CRef< CAaSite >	aa_site,
		CRef< CSimpleVariant > &	result
	)

Definition at line 232 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignFuzzyCount()

void AssignFuzzyCount	(	const string &	count,
		CRef< CCount > &	result
	)

Definition at line 170 of file semantic_actions.cpp.

References CreateResultIfNull(), len, and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar(), and SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignFuzzyLocalVariation()

void AssignFuzzyLocalVariation	(	CRef< CSimpleVariant >	input,
		CRef< CSimpleVariant > &	result
	)

Definition at line 270 of file semantic_actions.cpp.

References AssignFuzzy(), input(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar(), and SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignFuzzyNtSite()

void AssignFuzzyNtSite	(	CRef< CNtSite >	center_site,
		CRef< CNtSite > &	result
	)

Definition at line 317 of file semantic_actions.cpp.

References result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignFuzzySimpleNtSite()

void AssignFuzzySimpleNtSite	(	const string &	site_index,
		CRef< CNtSite > &	result
	)

Definition at line 324 of file semantic_actions.cpp.

References AssignSimpleNtSite(), NStr::ReplaceInPlace(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignIntronSite()

void AssignIntronSite	(	const string &	base,
		const string &	offset,
		CRef< CNtSite > &	result
	)

Definition at line 336 of file semantic_actions.cpp.

References CreateResultIfNull(), offset, NStr::ReplaceInPlace(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignMaxCount()

void AssignMaxCount	(	const string &	max_count,
		CRef< CCount > &	result
	)

AssignMinCount()

void AssignMinCount	(	const string &	min_count,
		CRef< CCount > &	result
	)

AssignMissense()

void AssignMissense	(	CRef< CAaSite >	initial,
		const CProteinSub::TFinal &	final,
		CRef< CSimpleVariant > &	result
	)

Definition at line 43 of file semantic_actions.cpp.

References CreateResultIfNull(), CProteinSub_Base::eType_missense, and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignNonsense()

void AssignNonsense	(	CRef< CAaSite >	initial,
		CRef< CSimpleVariant > &	result
	)

Definition at line 64 of file semantic_actions.cpp.

References CreateResultIfNull(), CProteinSub_Base::eType_nonsense, and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignNtConversion()

void AssignNtConversion	(	CRef< CNtLocation >	src_int,
		CRef< CNtLocation >	dest_int,
		CRef< CSimpleVariant > &	result
	)

Definition at line 548 of file semantic_actions.cpp.

References CreateResultIfNull(), CRef< C, Locker >::GetNCObject(), origin, and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtDeletion() [1/2]

void AssignNtDeletion	(	CRef< CNtLocation >	nt_loc,
		const CDeletion::TRaw_seq &	raw_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 576 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

AssignNtDeletion() [2/2]

void AssignNtDeletion	(	CRef< CNtLocation >	nt_loc,
		CRef< CSimpleVariant > &	result
	)

Definition at line 569 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtDelins() [1/2]

void AssignNtDelins	(	CRef< CNtLocation >	nt_loc,
		const CDeletion::TRaw_seq &	deleted_seq,
		const CInsertion::TSeqinfo::TRaw_seq &	inserted_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 598 of file semantic_actions.cpp.

References AssignNtDelins(), and result.

AssignNtDelins() [2/2]

void AssignNtDelins	(	CRef< CNtLocation >	nt_loc,
		const CInsertion::TSeqinfo::TRaw_seq &	inserted_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 587 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by AssignNtDelins(), and SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtDup() [1/2]

void AssignNtDup	(	CRef< CNtLocation >	nt_loc,
		const CDuplication::TRaw_seq &	raw_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 619 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

AssignNtDup() [2/2]

void AssignNtDup	(	CRef< CNtLocation >	nt_loc,
		CRef< CSimpleVariant > &	result
	)

Definition at line 612 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtermExtension() [1/2]

void AssignNtermExtension	(	CRef< CAaSite >	initial_start_site,
		const string &	new_aa,
		CRef< CCount >	new_start_site,
		CRef< CSimpleVariant > &	result
	)

Definition at line 103 of file semantic_actions.cpp.

References AssignNtermExtension(), and result.

AssignNtermExtension() [2/2]

void AssignNtermExtension	(	CRef< CAaSite >	initial_start_site,
		CRef< CCount >	new_start_site,
		CRef< CSimpleVariant > &	result
	)

Definition at line 96 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by AssignNtermExtension(), and SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignNtIdentity() [1/2]

void AssignNtIdentity	(	CRef< CNtLocation >	nt_loc,
		const CNaIdentity::TNucleotide &	nucleotide,
		CRef< CSimpleVariant > &	result
	)

Definition at line 642 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtIdentity() [2/2]

void AssignNtIdentity	(	CRef< CNtLocation >	nt_loc,
		CRef< CSimpleVariant > &	result
	)

Definition at line 652 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

AssignNtInsertion()

void AssignNtInsertion	(	CRef< CNtLocation >	nt_int,
		const CInsertion::TSeqinfo::TRaw_seq &	raw_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 557 of file semantic_actions.cpp.

References CreateResultIfNull(), result, and CNtLocation_Base::SetInt().

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtInterval()

void AssignNtInterval	(	CRef< CNtLocation >	start,
		CRef< CNtLocation >	stop,
		CRef< CNtLocation > &	result
	)

Definition at line 402 of file semantic_actions.cpp.

References CreateResultIfNull(), CNtLocation_Base::IsRange(), CNtLocation_Base::IsSite(), result, CNtLocation_Base::SetRange(), and CNtLocation_Base::SetSite().

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtInv() [1/2]

void AssignNtInv	(	CRef< CNtLocation >	nt_int,
		const CInversion::TRaw_seq &	raw_seq,
		CRef< CSimpleVariant > &	result
	)

Definition at line 522 of file semantic_actions.cpp.

References CreateResultIfNull(), result, and CNtLocation_Base::SetInt().

Referenced by AssignNtInvSize().

AssignNtInv() [2/2]

void AssignNtInv	(	CRef< CNtLocation >	nt_int,
		CRef< CSimpleVariant > &	result
	)

Definition at line 534 of file semantic_actions.cpp.

References CreateResultIfNull(), result, and CNtLocation_Base::SetInt().

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtInvSize()

void AssignNtInvSize	(	CRef< CNtLocation >	nt_int,
		string	size,
		CRef< CSimpleVariant > &	result
	)

Definition at line 541 of file semantic_actions.cpp.

References AssignNtInv(), result, and ncbi::grid::netcache::search::fields::size.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtRemoteLocation()

void AssignNtRemoteLocation	(	const string &	seq_id,
		const string &	seq_type,
		CRef< CNtLocation > &	nt_loc,
		CRef< CNtLocation > &	result
	)

Definition at line 492 of file semantic_actions.cpp.

References CRef< C, Locker >::GetPointer(), Ref(), result, s_GetSeqType(), s_SetSequenceInfo(), and xslt::type_string.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtSite()

void AssignNtSite	(	CRef< CNtSite >	local_site,
		CRef< CNtLocation > &	result
	)

Definition at line 396 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtSiteRange()

void AssignNtSiteRange	(	CRef< CNtSite >	start,
		CRef< CNtSite >	stop,
		CRef< CNtLocation > &	result
	)

Definition at line 389 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtSSR() [1/2]

void AssignNtSSR	(	CRef< CNtLocation >	nt_loc,
		const CRepeat::TRaw_seq &	raw_seq,
		CRef< CCount >	count,
		CRef< CSimpleVariant > &	result
	)

Definition at line 510 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignNtSSR() [2/2]

void AssignNtSSR	(	CRef< CNtLocation >	nt_loc,
		CRef< CCount >	count,
		CRef< CSimpleVariant > &	result
	)

Definition at line 502 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

AssignNtSub()

void AssignNtSub	(	CRef< CNtLocation >	nt_loc,
		const CNaSub::TInitial &	initial_nt,
		const CNaSub::TFinal &	final_nt,
		CRef< CSimpleVariant > &	result
	)

Definition at line 630 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignRefSeqIdentifier()

void AssignRefSeqIdentifier	(	const string &	identifier,
		CRef< CVariantExpression > &	result
	)

Definition at line 29 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

AssignSequenceType() [1/2]

void AssignSequenceType	(	const string &	type,
		CRef< CSequenceVariant > &	result
	)

Definition at line 660 of file semantic_actions.cpp.

References CreateResultIfNull(), result, s_GetSeqType(), and xslt::type_string.

AssignSequenceType() [2/2]

void AssignSequenceType

(

CRef< CSequenceVariant > &

result

)

Definition at line 297 of file semantic_actions.cpp.

References CreateResultIfNull(), eVariantSeqType_p, and result.

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

AssignSequenceVariant()

void AssignSequenceVariant	(	CRef< CSequenceVariant >	variant,
		CRef< CVariantExpression > &	result
	)

Definition at line 36 of file semantic_actions.cpp.

References CreateResultIfNull(), CRef< C, Locker >::GetNCObject(), and result.

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

AssignSilent()

void AssignSilent	(	CRef< CAaLocation >	loc,
		CRef< CSimpleVariant > &	result
	)

Definition at line 56 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

AssignSimpleNtSite()

void AssignSimpleNtSite	(	const string &	site_index,
		CRef< CNtSite > &	result
	)

Definition at line 305 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by AssignFuzzySimpleNtSite(), and SHgvsNucleicAcidGrammar::SHgvsNucleicAcidGrammar().

AssignSimpleVariant()

void AssignSimpleVariant	(	CRef< CSimpleVariant >	simple_variant,
		CRef< CVariant > &	result
	)

Definition at line 276 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

AssignSingleVariation()

void AssignSingleVariation	(	CRef< CVariant >	variant,
		CRef< CSequenceVariant > &	result
	)

Definition at line 290 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

AssignSpecialVariant()

void AssignSpecialVariant	(	ESpecialVariant	special_variant,
		CRef< CVariant > &	result
	)

Definition at line 283 of file semantic_actions.cpp.

References CreateResultIfNull(), and result.

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

AssignUnknownSub()

void AssignUnknownSub	(	CRef< CAaSite >	initial,
		CRef< CSimpleVariant > &	result
	)

Definition at line 73 of file semantic_actions.cpp.

References CreateResultIfNull(), CProteinSub_Base::eType_unknown, and result.

Referenced by SHgvsProteinGrammar::SHgvsProteinGrammar().

TagAsChimera()

void TagAsChimera

(

CRef< CSequenceVariant >

seq_var

)

Definition at line 19 of file semantic_actions.cpp.

References CSequenceVariant_Base::eComplex_chimera, and CSequenceVariant_Base::SetComplex().

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().

TagAsMosaic()

void TagAsMosaic

(

CRef< CSequenceVariant >

seq_var

)

Definition at line 24 of file semantic_actions.cpp.

References CSequenceVariant_Base::eComplex_mosaic, and CSequenceVariant_Base::SetComplex().

Referenced by SHgvsVariantGrammar::SHgvsVariantGrammar().