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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/doi__lookup_8cpp_source.html below:

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

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(string::const_iterator

=

.begin();

!=

.end(); ++

)

new_str +=

(sym);

new_str += replacement;

(node.

() > 0) {

(it != node.

()) {

(medline.empty()) {

suggest = medline;

(

& node,

& medline,

& title,

&issn, vector<string>& titles)

(!medline.empty()) {

(node.

() > 0) {

(it != node.

()) {

(*it, medline, title, issn, titles);

s_GetJournalIds(

& old_title,

& collection, vector<string>& uids)

db(

);

success =

;

ecli.

(db, old_title + collection, uids);

(

exception& e) {

success =

;

start = chrono::steady_clock::now();

vector<string> search_ids;

(!shortcut_title.empty()) {

success = s_GetJournalIds(shortcut_title,

, search_ids);

(search_ids.empty()) {

diff = chrono::steady_clock::now() - start;

(chrono::duration_cast<chrono::seconds>(diff) < chrono::seconds(45) || success) {

success = s_GetJournalIds(old_title,

, search_ids);

(search_ids.empty()) {

diff = chrono::steady_clock::now() - start;

(chrono::duration_cast<chrono::seconds>(diff) < chrono::seconds(45) || success) {

success = s_GetJournalIds(old_title,

, search_ids);

(search_ids.empty()) {

diff = chrono::steady_clock::now() - start;

(chrono::duration_cast<chrono::seconds>(diff) < chrono::seconds(45) || success) {

success = s_GetJournalIds(old_title,

, search_ids);

(search_ids.empty()) {

title_no_punct =

(old_title,

,

);

vector<string> tokens;

fields =

(tokens,

);

diff = chrono::steady_clock::now() - start;

(chrono::duration_cast<chrono::seconds>(diff) < chrono::seconds(45) || success) {

success = s_GetJournalIds(fields,

, search_ids);

(!search_ids.empty()) {

db =

;

diff = chrono::steady_clock::now() - start;

(chrono::duration_cast<chrono::seconds>(diff) < chrono::seconds(45) || success) {

ecli.

(db, search_ids, docsums,

);

medline =

, title =

, issn =

;

(node_it != docsums.

()) {

(*node_it, medline, title, issn, titles);

(!medline.empty()) {

vector<string> parts;

(parts.size() != 2)

(parts[1].

() != 2)

(!

(parts[1][0]) || parts[1][1] !=

)

initial = parts[1][0];

json = ss.str();

make_pair(

(

),

);

make_pair(

(

),

);

( !obj.

(

))

(obj[

].GetValue().GetString() !=

)

make_pair(

(

),

+ obj[

].GetValue().GetString());

(!obj.

(

) || !obj[

].

())

make_pair(

(

),

);

(

.has(

) &&

[

].IsArray()) {

(

= 0;

<

[

].GetArray().

();

++) {

(

[

].GetArray()[

].IsValue() &&

[

].GetArray()[

].GetValue().IsString()) {

=

[

].GetArray()[

].GetValue().GetString();

(!

.empty())

issn.push_back(

);

journal_title;

* kContainerTitle =

;

* kInst =

;

(

.has(kContainerTitle) &&

[kContainerTitle].IsArray() && !

[kContainerTitle].GetArray().empty()) {

& cont_title =

[kContainerTitle].GetArray().front();

(cont_title.IsValue() && cont_title.GetValue().IsString()) {

(

.has(kInst) &&

[kInst].IsArray() && !

[kInst].GetArray().empty()) {

& msg_array =

[kInst].GetArray().front();

(msg_array.IsObject() &&

msg_array.GetObject().has(

) &&

msg_array.GetObject()[

].IsValue() &&

msg_array.GetObject()[

].GetValue().IsString()) {

(!journal_title.empty())

issn.push_back(journal_title);

is_isojta =

;

(

& old_title : issn)

vector<string> titles;

(titles.size() == 1)

new_title = titles[0];

(pos != string::npos)

new_title = new_title.substr(0, pos);

journal_title = new_title;

title->SetIso_jta(journal_title);

title->SetName(journal_title);

.SetTitle().Set().push_back(title);

& imprint =

.SetImp();

(

.has(

) &&

[

].IsValue() &&

[

].GetValue().IsString()) {

(

.has(

) &&

[

].IsValue() &&

[

].GetValue().IsString()) {

(

.has(

) &&

[

].IsValue() &&

[

].GetValue().IsString()) {

imprint.SetPubstatus(4);

(

.has(

) &&

[

].IsArray()

&& !

[

].GetArray().empty()

&&

[

].GetArray().front().IsValue()

&&

[

].GetArray().front().GetValue().IsString()) {

(

.has(

) &&

[

].IsArray())

(

= 0;

<

[

].GetArray().

();

++) {

(!

[

].GetArray()[

].IsObject())

auth->

().SetName().SetFirst(name);

(!initial.empty())

auth->

().SetName().SetInitials(initial);

auth->

().SetName().SetLast(name);

(

.has(

) &&

[

].IsObject()) {

date =

;

(

.has(

) &&

[

].IsObject())

date =

;

(

.has(

) &&

[

].IsObject())

&&

[date].GetObject().has(

)

&&

[date].GetObject()[

].IsArray()

&& !

[date].GetObject()[

].GetArray().empty()

&&

[date].GetObject()[

].GetArray().front().IsArray()

&& !

[date].GetObject()[

].GetArray().front().GetArray().empty())

(

[date].GetObject()[

].GetArray().

().GetArray()[0].IsValue()

&&

[date].GetObject()[

].GetArray().

().GetArray()[0].GetValue().IsInt4())

year =

[date].GetObject()[

].GetArray().front().GetArray()[0].GetValue().GetInt4();

pub->

().

().SetJournal().SetImp().SetDate().SetStd().SetYear(year);

(

[date].GetObject()[

].GetArray().

().GetArray().

() > 1

&&

[date].GetObject()[

].GetArray().

().GetArray()[1].IsValue()

&&

[date].GetObject()[

].GetArray().

().GetArray()[1].GetValue().IsInt4())

month =

[date].GetObject()[

].GetArray().front().GetArray()[1].GetValue().GetInt4();

pub->

().

().SetJournal().SetImp().SetDate().SetStd().SetMonth(month);

(

[date].GetObject()[

].GetArray().

().GetArray().

() > 2

&&

[date].GetObject()[

].GetArray().

().GetArray()[2].IsValue()

&&

[date].GetObject()[

].GetArray().

().GetArray()[2].GetValue().IsInt4())

day =

[date].GetObject()[

].GetArray().front().GetArray()[2].GetValue().GetInt4();

pub->

().

().SetJournal().SetImp().SetDate().SetStd().SetDay(day);

pubdesc->SetPub().Set().push_back(pub);

make_pair(pubdesc,

);

make_pair(pubdesc,

);

looked_up_pubdesc = it->second;

looked_up_pubdesc = new_pubdesc_str.first;

(looked_up_pubdesc) {

error_msg = new_pubdesc_str.second;

make_pair(looked_up_pubdesc, error_msg);

ostr <<

<<

<<

<<

<<

;

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

{

,

},

it = sc_ISOShortcutMap.find(old_title.c_str());

(it != sc_ISOShortcutMap.end()) {

titles = it->second;

(!new_title.empty()) {

titles.push_back(new_title);

tmp_title = old_title;

(

);

(

& it : titles) {

it = it.substr(0, pos);

titles.erase(

(titles.begin(), titles.end(), [](

& elem) { return NStr::IsBlank(elem); }), titles.end());

(titles.size() > 1 && (old_title.find(

) !=

)) {

(find(titles.begin(), titles.end(), nodots_title) != titles.end()) {

titles.assign({ nodots_title });

ostr <<

<<

<<

<<

<<

;

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

void remove_if(Container &c, Predicate *__pred)

pair< CRef< objects::CPubdesc >, string > GetPub(const string &doi)

TDOILookupMap m_DOILookupMap

void ReportStats(std::ostream &ostr)

static string GetSpecialCharacterReplacement(TUnicodeSymbol ch)

static bool LookupIsojta(string old_title, vector< string > &titles)

static pair< CRef< objects::CPubdesc >, string > GetPubFromCrossRef(const string &doi)

static string Transcode(const CStringUTF8 &input)

void SetMaxReturn(int ret_max)

Uint8 Search(const string &db, const string &term, vector< objects::CSeq_id_Handle > &uids, const string &xml_path=kEmptyStr)

void Summary(const string &db, const vector< objects::CSeq_id_Handle > &uids, xml::document &docsums, const string &version="")

static CGuiRegistry & GetInstance()

access the application-wide singleton

int GetInt(const string &key, int default_val=0) const

retrieve values by section and key.

static string s_GetISOShortcut(const string &old_title)

TISOJTALookupMap m_ISOJTALookupMap

void GetJournalAbbr(const string &old_title, vector< string > &titles)

void ReportStats(std::ostream &ostr)

static void s_DoLookup(const string &old_title, vector< string > &titles)

bool IsObject(void) const

CJson_ConstObject GetObject(void) const

Get JSON object contents of the node.

CJson_ConstValue GetValue(void) const

Get JSON value contents of the node.

bool has(const CJson_Node::TKeyType &name) const

Test if an element with this name exists in the object.

bool IsString(void) const

bool ParseString(const TStringType &v)

Read JSON data from a UTF8 string.

bool ReadSucceeded(void) const

Test if the most recent read was successful.

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

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

CTimeout – Timeout interval.

const_iterator end() const

const_iterator find(const key_type &key) const

The xml::document class is used to hold the XML tree and various bits of information about it.

node::iterator begin(void)

Get an iterator to the first child node of this document.

node::iterator end(void)

Get an iterator that points one past the last child node for this document.

The xml::node::iterator provides a way to access children nodes similar to a standard C++ container.

The xml::node class is used to hold information about one XML node.

bool is_text(void) const

Find out if this node is a text node or sometiming like a text node, CDATA for example.

const char * get_name(void) const

Get the name of this xml::node.

iterator end(void)

Get an iterator that points one past the last child for this node.

iterator begin(void)

Get an iterator that points to the beginning of this node's children.

const char * get_content(void) const

Get the content for this text node.

size_type size(void) const

Returns the number of childer this nodes has.

CStaticArrayMap< const char *, const char *, PNocase_CStr > TISOShortcutMap

void FixAuthorCap(string &name, bool bApostrophes)

DEFINE_STATIC_ARRAY_MAP(TISOShortcutMap, sc_ISOShortcutMap, k_iso_shortcut_pair_map)

static const TISOShortcutPairElem k_iso_shortcut_pair_map[]

string s_GetValFromChildren(xml::node &node)

void s_GetTitle(xml::node &node, string &medline, string &title, string &issn, vector< string > &titles)

string s_GetTitleSuggestion(const string &medline, const string &title, const string &issn)

SStaticPair< const char *, const char * > TISOShortcutPairElem

static void ExtractMiddleInitial(string &name, string &initial)

static auto & FixCapitalizationInElement

static auto & CapitalizeAfterApostrophe

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

#define NCBI_USER_THROW(message)

Throw a quick-and-dirty runtime exception of type 'CException' with the given error message and error...

void Error(CExceptionArgs_Base &args)

const string & GetMsg(void) const

Get message string.

static string StripHTML(const string &str)

Strip all HTML code from a string.

CHttpResponse Get(const CUrl &url, const CTimeout &timeout=CTimeout(CTimeout::eDefault), THttpRetries retries=null)

Shortcut for GET requests.

CNcbiIstream & ContentStream(void) const

Get input stream.

int GetStatusCode(void) const

Get response status code.

const string & GetStatusText(void) const

Get response status text.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

bool NcbiStreamCopy(CNcbiOstream &os, CNcbiIstream &is)

Copy the entire contents of stream "is" to stream "os".

static list< string > & Split(const CTempString str, const CTempString delim, list< string > &arr, TSplitFlags flags=0, vector< SIZE_TYPE > *token_pos=NULL)

Split a string using specified delimiters.

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

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

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

Convert int to string.

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 string Join(const TContainer &arr, const CTempString &delim)

Join strings using the specified delimiter.

char32_t TUnicodeSymbol

Unicode character.

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 StartsWith(const CTempString str, const CTempString start, ECase use_case=eCase)

Check if a string starts with a specified prefix value.

static TUnicodeSymbol Decode(const char *&src)

Convert sequence of UTF8 code units into Unicode code point.

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 IsUpper(const CTempString str)

Checks if all letters in the given string have a upper case.

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 URLEncode(const CTempString str, EUrlEncode flag=eUrlEnc_SkipMarkChars)

URL-encode string.

@ fSplit_Tokenize

All delimiters are merged and trimmed, to get non-empty tokens only.

@ eNocase

Case insensitive compare.

void SetIds(TIds &value)

Assign a value to Ids data member.

void SetTitle(TTitle &value)

Assign a value to Title data member.

void SetName(TName &value)

Assign a value to Name data member.

void SetFrom(TFrom &value)

Assign a value to From data member.

void SetAuthors(TAuthors &value)

Assign a value to Authors data member.

TDoi & SetDoi(void)

Select the variant.

bool IsSetName(void) const

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

TArticle & SetArticle(void)

Select the variant.

This file contains the definition of the xml::document class.

constexpr auto front(list< Head, As... >, T=T()) noexcept -> Head

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

const GenericPointer< typename T::ValueType > T2 value

double r(size_t dimension_, const Int4 *score_, const double *prob_, double theta_)

User-defined methods of the data storage class.

CRef< CPub > journal(ParserPtr pp, char *bptr, char *eptr, CRef< CAuth_list > &auth_list, CRef< CTitle::C_E > &title, bool has_muid, CRef< CCit_art > &cit_art, Int4 er)

static SLJIT_INLINE sljit_ins msg(sljit_gpr r, sljit_s32 d, sljit_gpr x, sljit_gpr b)

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

RetroSearch is an open source project built by @garambo | Open a GitHub Issue

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