cuUtils.hpp File Reference

#include <corelib/ncbiargs.hpp>
#include <corelib/ncbienv.hpp>
#include <corelib/ncbistre.hpp>
#include <algo/structure/cd_utils/cuCdCore.hpp>

Include dependency graph for cuUtils.hpp:

This graph shows which files directly or indirectly include this file:

Go to the source code of this file.

Go to the SVN repository for this file.

Functions
	USING_SCOPE (objects)
string	GetSeqIDStr (const CRef< CSeq_id > &SeqID)
string	Make_SeqID_String (const CRef< CSeq_id > SeqID, bool Pad, int Len)
void	Make_GI_or_PDB_String_CN3D (const CRef< CSeq_id > SeqID, std::string &Str)
string	CddIdString (const CCdd &cdd)
string	CddIdString (const CCdd_id &id)
bool	SameCDAccession (const CCdd_id &id1, const CCdd_id &id2)
bool	Prosite2Regex (const std::string &prosite, std::string *regex, std::string *errString)

Variables
const int	CDTreeColorCycle []
const int	kNumColorsInCDTreeColorCycle

Function Documentation

CddIdString() [1/2]

string CddIdString

(

const CCdd &

cdd

)

Definition at line 152 of file cuUtils.cpp.

References CCdd_id_set_Base::Get(), CCdd_Base::GetId(), and i.

CddIdString() [2/2]

string CddIdString

(

const CCdd_id &

id

)

Definition at line 168 of file cuUtils.cpp.

References CCdd_id_Base::e_Gid, CCdd_id_Base::e_Uid, and NStr::IntToString().

GetSeqIDStr()

string GetSeqIDStr

(

const CRef< CSeq_id > &

SeqID

)

Definition at line 145 of file cuUtils.cpp.

References Make_SeqID_String().

Referenced by AlignmentCollection::Get_GI_or_PDB_String_FromAlignment(), and BlockModel::toString().

Make_GI_or_PDB_String_CN3D()

void Make_GI_or_PDB_String_CN3D	(	const CRef< CSeq_id >	SeqID,
		std::string &	Str
	)

Definition at line 75 of file cuUtils.cpp.

References buf, CRef< C, Locker >::Empty(), CAliasBase< TPrim >::Get(), CPDB_seq_id_Base::GetChain(), CSeq_id_Base::GetGi(), CPDB_seq_id_Base::GetMol(), CSeq_id_Base::GetPdb(), CSeq_id_Base::IsGi(), CSeq_id_Base::IsPdb(), len, and string.

Make_SeqID_String()

string Make_SeqID_String	(	const CRef< CSeq_id >	SeqID,
		bool	Pad,
		int	Len
	)

Definition at line 106 of file cuUtils.cpp.

References CRef< C, Locker >::Empty(), CAliasBase< TPrim >::Get(), CTextseq_id_Base::GetAccession(), CPDB_seq_id_Base::GetChain(), CSeq_id_Base::GetGi(), CObject_id_Base::GetId(), CSeq_id_Base::GetLocal(), CPDB_seq_id_Base::GetMol(), CSeq_id_Base::GetOther(), CSeq_id_Base::GetPdb(), CSeq_id::GetSeqIdString(), CObject_id_Base::GetStr(), CSeq_id_Base::IsGi(), CObject_id_Base::IsId(), CSeq_id_Base::IsLocal(), CSeq_id_Base::IsOther(), CSeq_id_Base::IsPdb(), CObject_id_Base::IsStr(), kEmptyStr, Len, and string.

Referenced by CCdCore::Get_GI_or_PDB_String_FromAlignment(), and GetSeqIDStr().

Prosite2Regex()

bool Prosite2Regex	(	const std::string &	prosite,
		std::string *	regex,
		std::string *	errString
	)

Definition at line 203 of file cuUtils.cpp.

References i, isalpha(), string, and toupper().

Referenced by CDDAnnotateDialog::HighlightMotif(), Sequence::HighlightPattern(), and CDDAnnotateDialog::NewOrEditMotif().

SameCDAccession()

bool SameCDAccession	(	const CCdd_id &	id1,
		const CCdd_id &	id2
	)

Definition at line 191 of file cuUtils.cpp.

References CCdd_id_Base::e_Gid, CGlobal_id_Base::GetAccession(), CCdd_id_Base::GetGid(), result, and CCdd_id_Base::Which().

USING_SCOPE()

USING_SCOPE

(

objects

)

Variable Documentation

CDTreeColorCycle

const int CDTreeColorCycle[]

extern

Definition at line 55 of file cuUtils.cpp.

kNumColorsInCDTreeColorCycle

const int kNumColorsInCDTreeColorCycle

extern

Definition at line 73 of file cuUtils.cpp.