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NCBI C++ ToolKit: src/gui/objutils/obj_fingerprint.cpp Source File

objects::CScope* scope)

objects::CScope* scope)

(vcf_variant !=

) {

it->second(checksum, obj, scope, *

);

[type_info] = func;

objects::CScope* scope,

& data_source,

& sAdditionalInfo)

(feat, feat.GetLocation(), scope, data_source, sAdditionalInfo);

objects::CScope* scope,

objects::CSeq_annot_Handle& annot_handle,

& sAdditionalInfo)

(feat, feat.GetLocation(), scope, annot_handle, sAdditionalInfo);

objects::CSeq_loc& loc,

objects::CScope* scope,

objects::CSeq_annot_Handle& annot_handle,

& sAdditionalInfo)

annot_name =

;

(annot_handle.IsNamed()) {

annot_name = annot_handle.GetName();

objects::CSeq_loc& loc,

objects::CScope* scope,

& data_source,

& sAdditionalInfo)

|= feat.GetData().GetSubtype() & 0xff;

(data_source.empty()) {

sprintf(

,

,

}

(is_naa || is_rmt) {

sprintf(

,

,

sprintf(

,

,

sAdditionalInfoDigest;

(!sAdditionalInfo.empty()) {

AdditionalInfoCS.

(sAdditionalInfo);

sAdditionalInfoDigest = AdditionalInfoCS.

();

id_str +

+ ((is_naa || is_rmt) ? data_source :

) + (sAdditionalInfoDigest.empty() ?

: (

+ sAdditionalInfoDigest));

objects::CScope* scope,

& data_source)

range = graph.GetLoc().GetTotalRange();

(data_source.empty()) {

sprintf(

,

,

sprintf(

,

,

sprintf(

,

,

id_str +

+ (is_naa ? data_source :

);

objects::CSeq_loc& on_loc,

objects::CScope* scope,

objects::CSeq_annot_Handle& annot_handle)

annot_name =

;

(annot_handle.IsNamed()) {

annot_name = annot_handle.GetName();

objects::CSeq_loc& on_loc, objects::CScope* scope,

& data_source)

range = on_loc.GetTotalRange();

AdjustedDS(data_source);

(data_source.empty()) {

sprintf(

,

,

}

(is_include_ds) {

sprintf(

,

,

AdjustedDS =

;

batch_found(align.GetNamedScore(

, batch)); (void)batch_found;

(batch_found,

);

sIsQuery(

);

(align.GetSeq_id(0).AsFastaString() == id_str) {

sprintf(

,

,

id_str +

+ (is_include_ds ? AdjustedDS :

);

objects::CScope* scope)

sprintf(

,

,

id_str +

;

objects::CScope* scope,

& title,

& data_source,

|= subtype & 0xff;

(data_source.empty()) {

sprintf(

,

,

}

(is_naa || is_rmt) {

sprintf(

,

,

sprintf(

,

,

id_str +

+ ((is_naa || is_rmt) ? data_source :

);

objects::CSeq_loc& mapped_loc,

objects::CScope* scope)

range = mapped_loc.GetTotalRange();

sprintf(

,

,

id_str +

;

sprintf(

,

, pnt, pnt,

, checksum);

id_str +

;

sprintf(

,

,

id_str +

;

objects::CSeq_id_Handle& sih,

& ds_fingerprint,

objects::CScope* scope)

vector<string>::const_iterator iter = toks.begin();

id_str = *iter++;

+ id_str);

subtype =

& 0xff;

(iter != toks.end()) {

& ds = *iter++;

toks.size() > 5 ? toks[5] :

;

static void PutInt4(unsigned char *ptr, Int4 value)

CChecksum – Checksum calculator.

static void AddDouble(CChecksum &checksum, double value)

void Fingerprint(CChecksum &checksum, const CObject &obj, objects::CScope *scope) const

void x_Register(TTypeInfo type_info, TFingerPFunc func)

static void ParseSignature(const string &sig, objects::CSeq_id_Handle &sih, TSeqPos &from, TSeqPos &to, EObjectType &type, int &subtype, Uint4 &fingerprint, Uint4 &ds_fingerprint, string &ds_name, objects::CScope *scope)

parse signature with data source info.

static string GetRsiteSignature(const objects::CSeq_feat &feat, int pnt, objects::CScope *scope)

static void Register(TTypeInfo type_info, TFingerPFunc func)

static string GetHistogramSignature(const objects::CSeq_loc &loc, EObjectType obj_type, objects::CScope *scope, const string &title, const string &data_source="", int subtype=0)

static string GetGraphSignature(const objects::CSeq_graph &graph, objects::CScope *scope, const string &data_source="")

static void GetFingerprint(CChecksum &checksum, const CObject &obj, objects::CScope *scope=NULL)

static string GetComponentSignature(const objects::CSeq_loc &comp_loc, const objects::CSeq_loc &mapped_loc, objects::CScope *scope)

void(* TFingerPFunc)(CChecksum &checksum, const CObject &obj, objects::CScope *scope, const CObjFingerprint &fingerP)

static string GetVcfVariantSignature(const objects::CVcfVariant &vcf_variant, objects::CScope *scope)

static string ParseSignatureDS(const string &sig)

static string GetFeatSignature(const objects::CSeq_feat &feat, objects::CScope *scope, const string &data_source="", const string &sAdditionalInfo="")

static string GetSeqLocSignature(const objects::CSeq_loc &loc, objects::CScope *scope)

static string GetAlignSignature(const objects::CSeq_align &align, const objects::CSeq_loc &on_loc, objects::CScope *scope, const objects::CSeq_annot_Handle &annot_handle)

static void AddInteger(CChecksum &checksum, unsigned char *pvalue, int size)

static CObjFingerprint & x_GetInstance()

namespace ncbi::objects::

Base class for all serializable objects.

CTypeInfo class contains all information about C++ types (both basic and classes): members and layout...

container_type::const_iterator const_iterator

const_iterator end() const

const_iterator find(const key_type &key) const

static const char * str(char *buf, int n)

unsigned int TSeqPos

Type for sequence locations and lengths.

string GetHexSum(void) const

Return string with checksum in hexadecimal form.

void AddLine(const char *line, size_t len)

Uint4 GetChecksum(void) const

Return calculated checksum.

void AddChars(const char *str, size_t len)

Update current control sum with data provided.

#define NCBI_ASSERT(expr, mess)

#define NCBI_THROW(exception_class, err_code, message)

Generic macro to throw an exception, given the exception class, error code and message string.

static bool IsNAA(const string &annot, bool isStrict=false)

check if a given annotation is a named annotation accession[.version][number] when isSctrict == false...

static bool IsAlignDb(const string &annot)

check if a given annotation is AlignDb (potentially suffixed with batch identication string after a '...

static bool isRmtAnnotName(const string &sAnnotname)

check if a given annotation was created by a remote file pipeline

static void TokenizeWithEscape(const string &str, const string &delim, vector< string > &tokens, bool remove_escape=false)

Tokenize a string using the delim.

const objects::CSeq_loc & GetLocation() const

virtual const CTypeInfo * GetThisTypeInfo(void) const =0

const string AsFastaString(void) const

CConstRef< CSeq_id > GetSeqId(void) const

const CSeq_id & GetId(const CSeq_loc &loc, CScope *scope)

If all CSeq_ids embedded in CSeq_loc refer to the same CBioseq, returns the first CSeq_id found,...

CSeq_id_Handle GetIdHandle(const CSeq_loc &loc, CScope *scope)

int16_t Int2

2-byte (16-bit) signed integer

int32_t Int4

4-byte (32-bit) signed integer

uint32_t Uint4

4-byte (32-bit) unsigned integer

uint16_t Uint2

2-byte (16-bit) unsigned integer

uint64_t Uint8

8-byte (64-bit) unsigned integer

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static string DoubleToString(double value, int precision=-1, TNumToStringFlags flags=0)

Convert double to string.

static bool MatchesMask(CTempString str, CTempString mask, ECase use_case=eCase)

Match "str" against the "mask".

static unsigned int StringToUInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to unsigned int.

static enable_if< is_arithmetic< TNumeric >::value||is_convertible< TNumeric, Int8 >::value, string >::type NumericToString(TNumeric value, TNumToStringFlags flags=0, int base=10)

Convert numeric value to string.

static string & ReplaceInPlace(string &src, const string &search, const string &replace, SIZE_TYPE start_pos=0, SIZE_TYPE max_replace=0, SIZE_TYPE *num_replace=0)

Replace occurrences of a substring within a string.

static string UInt8ToString(Uint8 value, TNumToStringFlags flags=0, int base=10)

Convert UInt8 to string.

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

const TLocation & GetLocation(void) const

Get the Location member data.

const struct ncbi::grid::netcache::search::fields::SIZE size

const GenericPointer< typename T::ValueType > T2 value

Multi-threading – mutexes; rw-locks; semaphore.

DEFINE_STATIC_MUTEX(s_Mutex)

static void s_EscapeDash(string &id)

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