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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/cleanup__author_8cpp_source.html below:

NCBI C++ ToolKit: src/objtools/cleanup/cleanup_author.cpp Source File

53 bool

any_change =

false

;

55 if

(author.IsSetName()) {

56 switch

(author.GetName().Which()) {

58

any_change = s_CleanupNameStdBC(author.SetName().SetName(), fix_initials);

61 n

= author.GetName().GetMl().size();

63 if

(

!= author.GetName().GetMl().size() ) {

71 n

= author.GetName().GetStr().size();

73 if

(

!= author.GetName().GetStr().size() ) {

81 n

= author.GetName().GetConsortium().size();

83 if

(

!= author.GetName().GetConsortium().size() ) {

105

original_name->Assign( name );

109 bool

upcaseinits =

false

;

114 string

first_initials;

144

string::size_type next_pos = 0;

145 while

( next_pos <

first

.length() ) {

147

next_pos =

first

.find_first_not_of(

" -"

, next_pos);

148 if

( string::npos == next_pos )

break

;

151

first_initials +=

first

[next_pos];

154

next_pos =

first

.find_first_of(

" -"

, next_pos);

155 if

( string::npos == next_pos )

break

;

157 if

(

first

[next_pos] ==

'-'

) {

158

first_initials +=

'-'

;

166 const string

&middle = name.

GetMiddle

();

167

string::size_type next_pos = 0;

168 while

( next_pos < middle.length() ) {

170

next_pos = middle.find_first_not_of(

" -"

, next_pos);

171 if

( string::npos == next_pos )

break

;

173 if

(

isalpha

( middle[next_pos] ) ) {

174

first_initials += middle[next_pos];

177

next_pos = middle.find_first_of(

" -"

, next_pos);

178 if

( string::npos == next_pos )

break

;

180 if

( middle[next_pos] ==

'-'

) {

181

first_initials +=

'-'

;

187 if

(!first_initials.empty()) {

189

first_initials.clear();

191

}

else if

(fix_initials) {

195

string::size_type initials_first_good_idx = 0;

196 for

( ; initials_first_good_idx < initials.length() &&

197

initials_first_good_idx < first_initials.length() &&

198 toupper

(initials[initials_first_good_idx]) ==

toupper

(first_initials[initials_first_good_idx]) ;

199

++initials_first_good_idx )

204 if

( initials_first_good_idx > 0 ) {

205

initials.erase( 0, initials_first_good_idx );

211 if

( fix_initials && ! first_initials.empty() ) {

222

string::const_iterator initials_iter = initials.begin();

224 for

( ; initials_iter != initials.end(); ++initials_iter ) {

225 const char

ch = *initials_iter;

229

new_initials +=

'-'

;

239 if

( (initials_iter + 1) != initials.end()) {

240 const char

next_char = *(initials_iter + 1);

243

new_initials +=

'.'

;

249 if

( initials != new_initials ) {

250

initials.swap(new_initials);

251

new_initials.clear();

329

name.

SetSuffix

(initials.substr( initials.length() - 3 ) );

330

initials.resize( initials.length() - 3 );

343 if

(pos == 2 && temp.length() >= 5 && temp[1] ==

'.'

&& temp [4] ==

'.'

) {

344

name.

SetFirst

(temp.substr(0, 1) +

'-'

+ temp.substr(3, 1));

348 return

(!original_name->Equals(name));

381 if

(initials.find(

'.'

) ==

NPOS

) {

386 #define EXTRACTSUFFIXFROMINITIALS( OLD, NEW ) \ 387 if( NStr::EndsWith(initials, OLD) ) { \ 388 initials.resize( initials.length() - strlen(OLD) ); \ 389 name.SetSuffix(NEW); \ 400 #undef EXTRACTSUFFIXFROMINITIALS 426 if

(affil.

IsStr

()) {

429 else if

(affil.

IsStd

()) {

455 const string

str

nullptr

;

456 switch

(name.

Which

()) {

516 auto

& std = alnames.SetStd();

517 auto

cleaner = [&rval, fix_initials](

CRef<CAuthor>

& author) {

522

std::for_each(std.begin(), std.end(), cleaner);

523 size_t

before = std.size();

525

std.erase(

std::remove_if

(std.begin(), std.end(), em), std.end());

526 if

(std.size() != before) {

539 for

(

string

& it :

names

.SetStr()) {

547 if

(

names

.GetStr().empty()) {

559

al.

SetNames

().SetStr().push_back(

"?"

);

570

list< string > &auth_list =

names

.SetStr();

572

auth_list.push_back(

"?"

);

588 switch

(af.

Which

()) {

596 #define CLEAN_AFFIL_MEMBER(x) \ 597 if (std.IsSet##x()) { \ 598 string& val = std.Set##x(); \ 599 rval |= CleanAndCompressJunk(val); \ 616 #undef CLEAN_AFFIL_MEMBER 631 string

oldsub = std.

GetSub

();

void remove_if(Container &c, Predicate *__pred)

@Affil.hpp User-defined methods of the data storage class.

@Auth_list.hpp User-defined methods of the data storage class.

void ConvertMlToStandard(bool normalize_suffix=false)

static bool CleanupAffil(CAffil &af)

static void s_FixEtAl(CName_std &name)

static bool CleanupAuthList(CAuth_list &al, bool fix_initials=true)

static bool CleanupAuthor(CAuthor &author, bool fix_initials=true)

static bool IsEmpty(const CAuth_list::TAffil &affil)

static void ResetAuthorNames(CAuth_list::TNames &names)

static bool s_CleanupNameStdBC(CName_std &name, bool fix_initials)

static void s_ExtractSuffixFromInitials(CName_std &name)

@Name_std.hpp User-defined methods of the data storage class.

bool ExtractSuffixFromLastName()

static void FixSuffix(string &suffix)

class CStaticArrayMap<> provides access to a static array in much the same way as CStaticArraySet<>,...

#define CLEAN_AFFIL_MEMBER(x)

static const TStringPair bad_sfxs[]

CStaticArrayMap< string, string > TSuffixMap

#define EXTRACTSUFFIXFROMINITIALS(OLD, NEW)

SStaticPair< const char *, const char * > TStringPair

DEFINE_STATIC_ARRAY_MAP_WITH_COPY(TSuffixMap, sc_BadSuffixes, bad_sfxs)

static bool CleanAndCompressJunk(string &str)

bool CleanVisString(string &str)

bool CleanVisStringJunk(string &str, bool allow_ellipses)

bool Asn2gnbkCompressSpaces(string &val)

weird space compression from C Toolkit

bool CleanVisStringContainer(C &str_cont)

Include a standard set of the NCBI C++ Toolkit most basic headers.

static const struct name_t names[]

static void DLIST_NAME() init(DLIST_LIST_TYPE *list)

static DLIST_TYPE *DLIST_NAME() first(DLIST_LIST_TYPE *list)

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

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

static bool EndsWith(const CTempString str, const CTempString end, ECase use_case=eCase)

Check if a string ends with a specified suffix value.

static bool IsBlank(const CTempString str, SIZE_TYPE pos=0)

Check if a string is blank (has no text).

static void TruncateSpacesInPlace(string &str, ETrunc where=eTrunc_Both)

Truncate whitespace in a string (in-place)

static SIZE_TYPE Find(const CTempString str, const CTempString pattern, ECase use_case=eCase, EDirection direction=eForwardSearch, SIZE_TYPE occurrence=0)

Find the pattern in the string.

static bool EqualCase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-sensitive equality of a substring with another string.

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

Replace occurrences of a substring within a string.

static bool EqualNocase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-insensitive equality of a substring with another string.

static bool Equal(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2, ECase use_case=eCase)

Test for equality of a substring with another 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.

const char *const kEmptyCStr

Empty "C" string (points to a '\0').

@ eTrunc_Begin

Truncate leading whitespace only.

bool IsSetAffil(void) const

author affiliation Check if a value has been assigned to Affil data member.

void SetCountry(const TCountry &value)

Assign a value to Country data member.

void SetSub(const TSub &value)

Assign a value to Sub data member.

bool IsSetPhone(void) const

Check if a value has been assigned to Phone data member.

const TAffil & GetAffil(void) const

Get the Affil member data.

bool IsSetStreet(void) const

street address, not ANSI Check if a value has been assigned to Street data member.

const TStr & GetStr(void) const

Get the variant data.

bool IsSetCity(void) const

Author Affiliation, City Check if a value has been assigned to City data member.

void SetAffil(TAffil &value)

Assign a value to Affil data member.

bool IsSetEmail(void) const

Check if a value has been assigned to Email data member.

const TName & GetName(void) const

Get the Name member data.

const TSub & GetSub(void) const

Get the Sub member data.

bool IsStr(void) const

Check if variant Str is selected.

TStr & SetStr(void)

Select the variant.

bool IsSetNames(void) const

Check if a value has been assigned to Names data member.

E_Choice Which(void) const

Which variant is currently selected.

void SetNames(TNames &value)

Assign a value to Names data member.

bool IsSetFax(void) const

Check if a value has been assigned to Fax data member.

bool IsSetDiv(void) const

Author Affiliation, Division Check if a value has been assigned to Div data member.

const TCountry & GetCountry(void) const

Get the Country member data.

const TStd & GetStd(void) const

Get the variant data.

bool IsSetName(void) const

Author, Primary or Secondary Check if a value has been assigned to Name data member.

const TNames & GetNames(void) const

Get the Names member data.

void ResetAffil(void)

Reset Affil data member.

bool IsStd(void) const

Check if variant Std is selected.

bool IsSetPostal_code(void) const

Check if a value has been assigned to Postal_code data member.

bool IsSetCountry(void) const

Author Affiliation, Country Check if a value has been assigned to Country data member.

bool IsSetAffil(void) const

Author Affiliation, Name Check if a value has been assigned to Affil data member.

TStd & SetStd(void)

Select the variant.

E_Choice Which(void) const

Which variant is currently selected.

bool IsSetSub(void) const

Author Affiliation, County Sub Check if a value has been assigned to Sub data member.

E_Choice Which(void) const

Which variant is currently selected.

const TStr & GetStr(void) const

Get the variant data.

void ResetLast(void)

Reset Last data member.

void SetInitials(const TInitials &value)

Assign a value to Initials data member.

bool IsSetSuffix(void) const

Jr, Sr, III Check if a value has been assigned to Suffix data member.

void ResetInitials(void)

Reset Initials data member.

const TInitials & GetInitials(void) const

Get the Initials member data.

void ResetFirst(void)

Reset First data member.

bool IsSetMiddle(void) const

Check if a value has been assigned to Middle data member.

void SetLast(const TLast &value)

Assign a value to Last data member.

bool IsSetFull(void) const

full name eg.

void SetFirst(const TFirst &value)

Assign a value to First data member.

bool IsSetInitials(void) const

first + middle initials Check if a value has been assigned to Initials data member.

bool IsSetTitle(void) const

Dr., Sister, etc Check if a value has been assigned to Title data member.

const TMl & GetMl(void) const

Get the variant data.

bool IsSetLast(void) const

Check if a value has been assigned to Last data member.

void SetMiddle(const TMiddle &value)

Assign a value to Middle data member.

const TMiddle & GetMiddle(void) const

Get the Middle member data.

const TConsortium & GetConsortium(void) const

Get the variant data.

void SetSuffix(const TSuffix &value)

Assign a value to Suffix data member.

const TSuffix & GetSuffix(void) const

Get the Suffix member data.

void ResetTitle(void)

Reset Title data member.

const TFirst & GetFirst(void) const

Get the First member data.

void ResetFull(void)

Reset Full data member.

void ResetMiddle(void)

Reset Middle data member.

const TLast & GetLast(void) const

Get the Last member data.

const TName & GetName(void) const

Get the variant data.

bool IsSetFirst(void) const

Check if a value has been assigned to First data member.

void ResetSuffix(void)

Reset Suffix data member.

@ e_Ml

MEDLINE name (semi-structured) eg. "Jones RM".

@ e_Consortium

consortium name

@ e_Str

unstructured name

@ e_not_set

No variant selected.

bool operator()(CRef< CAuthor > &cauth)

Template structure SStaticPair is simlified replacement of STL pair<> Main reason of introducing this...

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