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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/psg__client__cgi_8cpp_source.html below:

NCBI C++ ToolKit: src/app/pubseq_gateway/client/psg_client_cgi.cpp Source File

<

TF>

invoke_result_t<TF, const string&>

(

&

, TF

, invoke_result_t<TF, const string&> def_value)

;

<

T>

(

&

)

{

(

, [](

& v) {

NStr::StringToNumeric<T>(v); },

()); }

<

TF>

invoke_result_t<TF, const string&>

(

&

, TF

, invoke_result_t<TF, const string&> def_value)

found ==

.

() ? def_value :

(found->second.GetValue());

(range.first, range.second, back_inserter(rv), [](

& p) {

p.second.GetValue(); });

<

TParams>

SBase : TParams

<

... TInitArgs>

std::forward<TInitArgs>(init_args)...

SOneRequest : SBase<SOneRequestParams>

GetDataOnlyOutputFormat(

)

<

TParams>

SParallelProcessing : SBase<TParams>

<

... TInitArgs>

std::forward<TInitArgs>(init_args)...

SBatchResolve : SParallelProcessing<SBatchResolveParams>

ForEachTSE(

exclude)

;

()

{

objects::CSeq_id::GetSNPScaleLimit_Value(

.GetString(

)); }

SetRequestFlags(shared_ptr<CPSG_Request> request)

;

[&](

& name) {

.Has(name);

ids =

.GetStringList(

);

(

&

: ids) {

rv.emplace_back(

);

&

=

.GetString(

);

blob_ids =

.GetStringList(

);

(

& blob_id : blob_ids) {

(

.Has(

)) {

m_Response(response),

(

status);

m_Response.SetContentType(

);

m_Response.SetContentType(

);

m_Response.SetContentType(

);

m_Response.SetContentType(

);

m_Response.SetContentType(

);

m_Response.WriteHeader() << m_Out.rdbuf();

cerr << m_Err.rdbuf();

m_Response.SetContentType(

);

m_Response.WriteHeader() << doc;

m_Response.WriteHeader() << m_Err.rdbuf();

()

;

Help(

& request,

json,

& response);

GetStatus(

rv);

<

TChild,

TParent,

... TArgs>

TChild*

(TParent* parent, TArgs&&... args)

child =

TChild(std::forward<TArgs>(args)...);

parent->AppendChild(child);

& request =

.GetRequest();

(

==

) {

}

(

==

) {

response.

(builder.data_only);

status = GetStatus(rv);

SetHTTPStatus(status);

(!help_doc.

(

)) {

response.

() <<

;

request_obj = help_obj[

].

();

(request_obj.has(request)) {

= request_obj.begin();

(

!= request_obj.end()) {

(

->name != request) {

= request_obj.erase(

);

NewChild<CHTML_title>(html.

())->AppendPlainText(

);

body = NewChild<CHTML_body>(html.

());

NewChild<CHTML_h2>(body)->AppendPlainText(

);

NewChild<CHTMLPlainText>(body,

);

= help_obj.find(

);

(

!= help_obj.end()) {

AddParamsTable(body,

->name, *

);

(

&

: request_obj) {

NewChild<CHTML_hr>(body);

h2 = NewChild<CHTML_h2>(body);

NewChild<CHTML_i>(h2)->AppendPlainText(

);

h2->AppendPlainText(

(

) +

.name);

r_obj =

.value.GetObject();

k = r_obj.find(

);

(k != r_obj.end()) {

(

& m : k->value.GetObject()) {

m_obj = m.value.GetObject();

NewChild<CHTML_h3>(body, m.name +

(

));

NewChild<CHTMLPlainText>(body, m_obj[

].GetValue().GetString());

j = m_obj.find(

);

(j != m_obj.end()) {

AddParamsTable(body, m.name +

(

), *j);

NewChild<CHTMLPlainText>(body, r_obj[

].GetValue().GetString());

j = r_obj.find(

);

(j != r_obj.end()) {

AddParamsTable(body, j->name, *j);

NewChild<CHTML_h4>(body, name);

= NewChild<CHTML_table>(body);

header =

->HeaderCell(

, 0);

header->AppendPlainText(

.

);

header->SetColSpan(2);

(

& param :

.value.GetObject()) {

NewChild<CHTML_i>(

->DataCell(

, 0))->AppendPlainText(param.name);

->DataCell(

, 1)->AppendPlainText(param.value.GetValue().GetString());

(

argc,

* argv[])

Exception classes used by the NCBI CGI framework.

void transform(Container &c, UnaryFunction *op)

CJson_ConstObject GetObject(void) const

Get JSON object contents of the node.

const CJson_ConstNode value

bool Read(std::istream &in)

Read JSON data from a stream.

CJson_Object SetObject(void)

Get JSON object contents of the node.

CJson_Value SetValue(void)

Get JSON value contents of the node.

CJson_Value & SetString(const TStringType &value)

CJson_Value & SetInt8(Int8 value)

Bio-id (such as accession)

shared_ptr< void > TApiLock

Get an API lock.

static TApiLock GetApiLock()

CNullable< string > TNucleotide

static int OneRequest(const SOneRequestParams &params, shared_ptr< CPSG_Request > request)

static int ParallelProcessing(const TParams &params, istream &is=cin)

int Help(const string &request, bool json, CCgiResponse &response)

void Init() override

This method is called on the CGI application initialization – before starting to process a HTTP reque...

static int GetStatus(int rv)

static TChild * NewChild(TParent *parent, TArgs &&... args)

static void AddParamsTable(CHTML_body *body, const string &name, const CJson_ConstObject_pair &params)

int ProcessRequest(CCgiContext &ctx) override

This is the method you should override.

CPSG_Queue::TApiLock m_ApiLock

CTimeout – Timeout interval.

const_iterator_pair equal_range(const key_type &key) const

const_iterator find(const key_type &key) const

const_iterator end() const

int AppMain(int argc, const char *const *argv, const char *const *envp=0, EAppDiagStream diag=eDS_Default, const char *conf=NcbiEmptyCStr, const string &name=NcbiEmptyString)

Main function (entry point) for the NCBI application.

void Flush(void) const

Flush output stream.

void SetContentType(const string &type)

Set content type (text/html by default if not provided)

CNcbiOstream & WriteHeader(void) const

Write HTTP response header to the output stream.

@ fDoNotParseContent

do not automatically parse the request's content body (from "istr")

@ fDisableParsingAsIndex

Disable parsing input as 'indexed' query (RFC3875) even if no '=' is present.

EDiagSev

Severity level for the posted diagnostics.

static bool StrToSeverityLevel(const char *str_sev, EDiagSev &sev)

Get severity from string.

@ eDiag_Warning

Warning message.

@ e500_InternalServerError

void Error(CExceptionArgs_Base &args)

#define NCBI_THROW(exception_class, err_code, message)

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

ESerialDataFormat

Data file format.

@ eSerial_AsnText

ASN.1 text.

@ eSerial_AsnBinary

ASN.1 binary.

TObjectType * GetPointer(void) THROWS_NONE

Get pointer,.

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

Convert string to int.

static Int8 StringToInt8(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to Int8.

static string URLDecode(const CTempString str, EUrlDecode flag=eUrlDec_All)

URL-decode string.

@ eDefault

Default timeout (to be interpreted by the client code)

E_Choice

Choice variants.

unsigned int

A callback function used to compare two keys in a database.

The blob sat and sat key Both must be positive integers</td > n< td > Non empty string The interpretation of the blob id depends on a processor Cassandra n processor expects the following format

<!DOCTYPE HTML >< html > n< header > n< title > PubSeq Gateway Help Page</title > n< style > n table

SParallelProcessing< TIpgBatchResolveParams > TIpgBatchResolve

const struct ncbi::grid::netcache::search::fields::KEY key

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

@ eSuccess

Successfully retrieved.

@ eForbidden

User is not authorized for the retrieval.

@ eError

An error was encountered while trying to send request or to read and to process the reply.

vector< CPSG_BioId > CPSG_BioIds

EPSG_BioIdResolution

Whether to try to resolve provided seq-ids before use.

@ Resolve

Try to resolve provided seq-ids.

@ NoResolve

Use provided seq-ids as is.

int main(int argc, const char *argv[])

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

SBase(const SPsgCgiEntries &entries, TInitArgs &&... init_args)

SBatchResolve(const SPsgCgiEntries &entries)

SOneRequest(const SPsgCgiEntries &entries)

static ESerialDataFormat GetDataOnlyOutputFormat(const SPsgCgiEntries &entries)

SParallelProcessing(const SPsgCgiEntries &entries, TInitArgs &&... init_args)

const ESerialDataFormat output_format

static void SetDefault(const T &value)

Arbitrary request URL arguments.

T GetNumeric(const string &key) const

bool Has(const string &key) const

SPsgCgiEntries(const TCgiEntries &e)

auto GetStringList(const string &key) const

invoke_result_t< TF, const string & > Get(const string &key, TF f, invoke_result_t< TF, const string & > def_value) const

const TCgiEntries & entries

const string & GetString(const string &key) const

SReader(const SPsgCgiEntries &i)

SPSG_UserArgs GetUserArgs() const

auto GetAccSubstitution() const

auto GetNucleotide() const

CTimeout GetResendTimeout() const

EPSG_BioIdResolution GetBioIdResolution() const

auto GetSNPScaleLimit() const

CPSG_BioId GetBioId() const

auto GetAbsPathRef() const

const SPsgCgiEntries & input

auto GetBioIdType() const

vector< string > GetNamedAnnots() const

static CPSG_BioId::TType GetBioIdType(const string &type)

function< void(string)> TExclude

static shared_ptr< TRequest > Build(const TInput &input, TArgs &&... args)

static EPSG_AccSubstitution GetAccSubstitution(const string &acc_substitution)

static SResolveParams GetResolveParams(const TInput &input)

function< bool(const string &)> TSpecified

void DataOnly(const SOneRequestParams::SDataOnly &data_only)

CCgiResponse & m_Response

void operator()(int status)

optional< ESerialDataFormat > m_Format

SResponse(CCgiResponse &response)

static wxAcceleratorEntry entries[3]

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