A B C D E G H I L M N O P R S T U V X Z

A

activeStatus(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Sets the active status property of the event being built.

addEvent(Event) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Adds an event to the patient's list of events.

addObservation(Observation) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Adds an observation to this event's list of associated observations.

addObservation(Observation) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer

Adds an observation to this observer's set of observations.

ageInYears(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the age in years of the patient being built.

authenticateUser(I2b2AuthMetadata) - Method in interface edu.emory.bmi.aiw.i2b2export.i2b2.I2b2UserAuthenticator

Determines whether or not a user is authenticated given their authentication metadata.

authenticateUser(I2b2AuthMetadata) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2UserAuthenticatorImpl

B

birthDate(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the birth date of the patient being built.

blob(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the blob of the observation being built.

build() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Builds and returns the event

build() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Builds and returns the observation.

build() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer.Builder

Builds and returns the observer.

build() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Builds and returns the patient.

Builder(String, Patient) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Default constructor.

Builder(Event) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Default constructor.

Builder(String, String) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer.Builder

Default constructor.

Builder(String) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Default constructor.

C

compareTo(Event) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

compareTo(Patient) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

conceptCode(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the i2b2 concept code of the observation being built.

conceptPath(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the i2b2 concept path of the observation being built.

configure() - Method in class edu.emory.bmi.aiw.i2b2export.config.GuiceConfigModule

CustomNullHashMap<K,V> - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

A hash map that will return a specified value if a key is not in the map.

CustomNullHashMap(V) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.CustomNullHashMap

Accepts the value that should be returned if CustomNullHashMap.get(Object) is called with a key that the map does not contain.

CustomNullHashMap() - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.CustomNullHashMap

Default constructor.

D

DeleteRequest - Class in edu.emory.bmi.aiw.i2b2export.comm

A bean to communicate deletion requests from the client.

DeleteRequest() - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.DeleteRequest

doSend(String, String) - Method in class edu.emory.bmi.aiw.i2b2export.resource.PatientSetResource

E

edu.emory.bmi.aiw.i2b2export.comm - package edu.emory.bmi.aiw.i2b2export.comm

Consists of communication classes between this service and a client.

edu.emory.bmi.aiw.i2b2export.config - package edu.emory.bmi.aiw.i2b2export.config

Contains Jersey and Guice configuration classes.

edu.emory.bmi.aiw.i2b2export.i2b2 - package edu.emory.bmi.aiw.i2b2export.i2b2

Contains classes for communicating with i2b2.

edu.emory.bmi.aiw.i2b2export.i2b2.pdo - package edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Consists of classes that represent objects in i2b2's Patient Data Object model, including Patient, Event, Observer, and Observation.

edu.emory.bmi.aiw.i2b2export.provider - package edu.emory.bmi.aiw.i2b2export.provider

edu.emory.bmi.aiw.i2b2export.resource - package edu.emory.bmi.aiw.i2b2export.resource

Provides all of the Jersey resource classes for the service.

edu.emory.bmi.aiw.i2b2export.xml - package edu.emory.bmi.aiw.i2b2export.xml

Provides utility functionality for parsing and transforming XML.

endDate(Date) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Sets the end date of the event being built.

endDate(Date) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the end date of the observation being built.

equals(Object) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

evalXPath(Node, String, QName) - Static method in class edu.emory.bmi.aiw.i2b2export.xml.XmlUtil

Gets the object at the given XPath in the given XML node.

evalXPath(String, String, QName) - Static method in class edu.emory.bmi.aiw.i2b2export.xml.XmlUtil

Gets the object at the given XPath in the given XML string.

Event - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Represents an event in i2b2's Patient Data Object model.

Event.Builder - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

The builder for Event

G

generateMessageId() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2XmlPostSupport

Generates a random message number for i2b2 requests.

get(Object) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.CustomNullHashMap

get() - Method in class edu.emory.bmi.aiw.i2b2export.provider.ServicesClientProvider

getActiveStatus() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the active status property of the event.

getAgeInYears() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's age in years.

getAuthMetadata() - Method in class edu.emory.bmi.aiw.i2b2export.comm.DeleteRequest

Gets the i2b2 authentication metadata of the user making the request.

getAuthMetadata() - Method in class edu.emory.bmi.aiw.i2b2export.comm.LoadRequest

Gets the i2b2 authentication metadata of the user making the request.

getAuthMetadata() - Method in class edu.emory.bmi.aiw.i2b2export.comm.SendPatientSetRequest

Gets the i2b2 authentication metadata of the user making the request.

getBirthDate() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's birth date as a String.

getBlob() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the i2b2 observation blob.

getColumnName() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the concept column name.

getConceptCode() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the i2b2 concept code for this observation.

getConceptPath() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the i2b2 concept path for this observation.

getDimensionCode() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the i2b2 concept's dimension code.

getDisplayName() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the display name for the concept.

getDomain() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Gets the user's domain.

getEndDate() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the end date of the event.

getEndDate() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the end date of this observation.

getEvent() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the event this observation was recorded at.

getEventId() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the event ID.

getEvents() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResults

Gets the events from these PDO results.

getEvents() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the list of events for this patient.

getHasChildren() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets whether this concept has children.

getI2b2Key() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the i2b2 key.

getI2b2ServiceHostUrl() - Method in class edu.emory.bmi.aiw.i2b2export.config.I2b2EurekaServicesProperties

Gets the URL of the i2b2 services.

getIcd9() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the concept's ICD-9 form.

getId() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the JPA entity's ID

getInjector() - Method in class edu.emory.bmi.aiw.i2b2export.config.GuiceConfig

getInOut() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the in-out property of the event.

getIsSynonym() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the i2b2 concept's synonym code.

getLanguage() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's language.

getLevel() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the i2b2 concept's level in the hierarchy.

getLocation() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the location of the event.

getLocation() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the location of the observation

getMaritalStatus() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's marital status

getModifier() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the i2b2 modifier code.

getName() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the concept name.

getName() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer

Gets the observer name

getNval() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the value of the numerical result of the observation.

getObservations() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the list of i2b2 observations associated with this event

getObservations() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResults

Gets the observations from these PDO results.

getObservations() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer

Gets the set of observations observed by this observer.

getObserver() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the observer string.

getObserverCode() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer

Gets the i2b2 observer code.

getObserverPath() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer

Gets the i2b2 observer path.

getObservers() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResults

Gets the observers from these PDO results.

getOperator() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the operator.

getOutputConfigurationId() - Method in class edu.emory.bmi.aiw.i2b2export.comm.DeleteRequest

Gets the ID of the output configuration to delete.

getOutputConfigurationId() - Method in class edu.emory.bmi.aiw.i2b2export.comm.LoadRequest

Gets the ID of the output configuration to load.

getPasswordNode() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Gets the user's password node.

getPatient() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the patient who had this event.

getPatientId() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's ID.

getPatients() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResults

Gets the patients from these PDO results.

getPatientSetCollId() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2PatientSet

Gets the i2b2 patient set collection ID.

getPatientSetSize() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2PatientSet

Gets the patient set size.

getProjectId() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Gets the user's project ID.

getProxyCallbackServer() - Method in class edu.emory.bmi.aiw.i2b2export.config.I2b2EurekaServicesProperties

getProxyUrl() - Method in class edu.emory.bmi.aiw.i2b2export.config.I2b2EurekaServicesProperties

Gets the URL of the i2b2 proxy cell.

getQueryMasterId() - Method in class edu.emory.bmi.aiw.i2b2export.comm.SendPatientSetRequest

Gets the ID of the output configuration to load.

getRace() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Get's the patient's race.

getReligion() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's religion

getServiceUrl() - Method in class edu.emory.bmi.aiw.i2b2export.config.I2b2EurekaServicesProperties

getSex() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's sex.

getSourceConfigId() - Method in class edu.emory.bmi.aiw.i2b2export.config.I2b2EurekaServicesProperties

getStartDate() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event

Gets the start date of the event.

getStartDate() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the start date of this observation.

getStateCityZip() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's state, city, and zip code

getTableName() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the i2b2 concept's table name.

getTooltip() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the concept's tooltip.

getTval() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the value of the text result of the observation.

getUnits() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the units of the observation result.

getUsername() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Gets the user's username.

getValueflag() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the value flag of the observation.

getValuetype() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation

Gets the value type of the observation result (text or numerical).

getVitalStatus() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's vital status.

getXmlOrig() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Gets the original XML of the concept.

getZipCode() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Gets the patient's zip code

GuiceConfig - Class in edu.emory.bmi.aiw.i2b2export.config

Configuration for Guice dependency injection.

GuiceConfig() - Constructor for class edu.emory.bmi.aiw.i2b2export.config.GuiceConfig

GuiceConfigModule - Class in edu.emory.bmi.aiw.i2b2export.config

Configuration for Guice interface bindings.

GuiceConfigModule() - Constructor for class edu.emory.bmi.aiw.i2b2export.config.GuiceConfigModule

H

hashCode() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

I

I2B2_DATE_FMT - Static variable in class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2CommUtil

I2b2AuthMetadata - Class in edu.emory.bmi.aiw.i2b2export.comm

A bean for storing i2b2 user authentication metadata.

I2b2AuthMetadata() - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

I2b2CommUtil - Class in edu.emory.bmi.aiw.i2b2export.i2b2

Class for utility methods for communicating with i2b2.

I2b2Concept - Class in edu.emory.bmi.aiw.i2b2export.comm

A JPA entity representing an i2b2 concept.

I2b2Concept() - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Default no-arg constructor.

I2b2Concept(String, Integer, String, String, String) - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Constructs an i2b2 concept from required fields.

I2b2EurekaServicesProperties - Class in edu.emory.bmi.aiw.i2b2export.config

I2b2EurekaServicesProperties() - Constructor for class edu.emory.bmi.aiw.i2b2export.config.I2b2EurekaServicesProperties

I2b2ExportServiceException - Exception in edu.emory.bmi.aiw.i2b2export.resource

General exception thrown from the application.

I2b2ExportServiceException() - Constructor for exception edu.emory.bmi.aiw.i2b2export.resource.I2b2ExportServiceException

Default no-arg constructor.

I2b2ExportServiceException(String) - Constructor for exception edu.emory.bmi.aiw.i2b2export.resource.I2b2ExportServiceException

Creates an exception with the given message.

I2b2ExportServiceException(Throwable) - Constructor for exception edu.emory.bmi.aiw.i2b2export.resource.I2b2ExportServiceException

Creates an exception wrapping the given cause.

I2b2ExportServiceException(String, Throwable) - Constructor for exception edu.emory.bmi.aiw.i2b2export.resource.I2b2ExportServiceException

Creates an exception with the given message wrapping the given cause.

I2b2ExportServiceXmlException - Exception in edu.emory.bmi.aiw.i2b2export.xml

An exception for errors that occur when dealing with i2b2 XML messaging.

I2b2ExportServiceXmlException() - Constructor for exception edu.emory.bmi.aiw.i2b2export.xml.I2b2ExportServiceXmlException

Default no-arg constructor

I2b2ExportServiceXmlException(String, Throwable) - Constructor for exception edu.emory.bmi.aiw.i2b2export.xml.I2b2ExportServiceXmlException

Creates an exception with the given message and cause to wrap.

I2b2ExportServiceXmlException(String) - Constructor for exception edu.emory.bmi.aiw.i2b2export.xml.I2b2ExportServiceXmlException

Creates an exception with the given message.

I2b2ExportServiceXmlException(Throwable) - Constructor for exception edu.emory.bmi.aiw.i2b2export.xml.I2b2ExportServiceXmlException

Creates an exception wrapping the given cause.

I2b2PatientSet - Class in edu.emory.bmi.aiw.i2b2export.comm

A bean for i2b2 patient sets.

I2b2PatientSet() - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.I2b2PatientSet

I2b2PdoResultParser - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Parser for i2b2 PDO result XML.

I2b2PdoResultParser(Document) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResultParser

Default constructor.

I2b2PdoResults - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Container for i2b2 PDO results.

I2b2PdoResults(Collection<Patient>, Collection<Event>, Collection<Observer>, Collection<Observation>) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResults

Default constructor.

I2b2PdoRetriever - Interface in edu.emory.bmi.aiw.i2b2export.i2b2

Interface for retrieving PDO results from i2b2.

I2b2PdoRetrieverImpl - Class in edu.emory.bmi.aiw.i2b2export.i2b2

Implementation of the i2b2 PDO retriever interface.

I2b2PdoRetrieverImpl(I2b2EurekaServicesProperties, I2b2XmlPostSupport) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2PdoRetrieverImpl

Default no-arg constructor.

I2b2UserAuthenticator - Interface in edu.emory.bmi.aiw.i2b2export.i2b2

Interface for authenticating an i2b2 user given authentication metadata for that user.

I2b2UserAuthenticatorImpl - Class in edu.emory.bmi.aiw.i2b2export.i2b2

Implementation of the i2b2 user authentication interface.

I2b2UserAuthenticatorImpl(I2b2EurekaServicesProperties, I2b2XmlPostSupport) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2UserAuthenticatorImpl

Default no-arg constructor.

I2b2XmlPostSupport - Class in edu.emory.bmi.aiw.i2b2export.i2b2

I2b2XmlPostSupport(I2b2EurekaServicesProperties) - Constructor for class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2XmlPostSupport

inOut(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Sets the in-out property of the event being built.

L

language(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the language of the patient being built.

LoadRequest - Class in edu.emory.bmi.aiw.i2b2export.comm

A bean to communicate configuration load requests from the client.

LoadRequest() - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.LoadRequest

location(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Sets the location of the event being built.

location(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the location of the observation being built.

M

maritalStatus(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the marital status of the patient being built.

modifier(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the modifier of the observation being built.

N

name(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observer.Builder

Sets the name of the observer being built

nval(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the numerical value of the observation being built.

O

Observation - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Represents an observation in i2b2's Patient Data Object model.

Observation.Builder - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

The builder for Observation

observer(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the observer of the observation being built.

Observer - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Represents an observer (or provider) in i2b2's Patient Data Object model.

Observer.Builder - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Builder for Observer

P

parse() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.I2b2PdoResultParser

Parses the instance's XML document and returns the PDO results contained in it.

Patient - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Represents a patient in i2b2's Patient Data Object model.

Patient.Builder - Class in edu.emory.bmi.aiw.i2b2export.i2b2.pdo

Builder for Patient

PatientSetResource - Class in edu.emory.bmi.aiw.i2b2export.resource

Service for i2b2 to request that a specified patient set be sent to another service.

PatientSetResource(ServicesClient, I2b2EurekaServicesProperties) - Constructor for class edu.emory.bmi.aiw.i2b2export.resource.PatientSetResource

postXmlToI2b2(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2XmlPostSupport

Performs an HTTP POST of an XML request to the i2b2 proxy cell.

R

race(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the race of the patient being built.

religion(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the religion of the patient being built.

retrieve(I2b2AuthMetadata, Collection<I2b2Concept>, I2b2PatientSet) - Method in interface edu.emory.bmi.aiw.i2b2export.i2b2.I2b2PdoRetriever

Attempts to retrieve PDO results from i2b2 for the given patient set.

retrieve(I2b2AuthMetadata, Collection<I2b2Concept>, I2b2PatientSet) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.I2b2PdoRetrieverImpl

S

SendPatientSetRequest - Class in edu.emory.bmi.aiw.i2b2export.comm

A bean to communicate configuration load requests from the client.

SendPatientSetRequest() - Constructor for class edu.emory.bmi.aiw.i2b2export.comm.SendPatientSetRequest

ServicesClientProvider - Class in edu.emory.bmi.aiw.i2b2export.provider

ServicesClientProvider(I2b2EurekaServicesProperties) - Constructor for class edu.emory.bmi.aiw.i2b2export.provider.ServicesClientProvider

ServletConfigModule - Class in edu.emory.bmi.aiw.i2b2export.config

Jersey servlet configuration.

ServletConfigModule(I2b2EurekaServicesProperties) - Constructor for class edu.emory.bmi.aiw.i2b2export.config.ServletConfigModule

setAuthMetadata(I2b2AuthMetadata) - Method in class edu.emory.bmi.aiw.i2b2export.comm.DeleteRequest

Sets the i2b2 authentication metadata of the user making the request.

setAuthMetadata(I2b2AuthMetadata) - Method in class edu.emory.bmi.aiw.i2b2export.comm.LoadRequest

Sets the i2b2 authentication metadata of the user making the request.

setAuthMetadata(I2b2AuthMetadata) - Method in class edu.emory.bmi.aiw.i2b2export.comm.SendPatientSetRequest

Sets the i2b2 authentication metadata of the user making the request.

setColumnName(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the column name.

setDimensionCode(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the dimension code.

setDisplayName(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the display name.

setDomain(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Sets the user's domain.

setHasChildren(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the has children property.

setI2b2Key(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the i2b2 key.

setIcd9(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the concept's ICD-9 string.

setIsSynonym(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the synonym code.

setLevel(Integer) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the level.

setName(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the name

setOperator(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the operator.

setOutputConfigurationId(Long) - Method in class edu.emory.bmi.aiw.i2b2export.comm.DeleteRequest

Sets the ID of the output configuration to delete.

setOutputConfigurationId(Long) - Method in class edu.emory.bmi.aiw.i2b2export.comm.LoadRequest

Sets the ID of the output configuration to load.

setPasswordNode(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Sets the user's password XML node.

setPatientSetCollId(Integer) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2PatientSet

Sets the i2b2 patient set collection ID

setPatientSetSize(Integer) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2PatientSet

Sets the patient set size

setProjectId(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Sets the user's project ID

setQueryMasterId(Long) - Method in class edu.emory.bmi.aiw.i2b2export.comm.SendPatientSetRequest

Sets the ID of the output configuration to load.

setTableName(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the table name.

setTooltip(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the tooltip.

setUsername(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

Sets the user's username.

setXmlOrig(String) - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

Sets the original XML.

sex(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the sex of the patient being built.

sortEvents() - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient

Sorts the patient's event according to Event's natural ordering.

startDate(Date) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Event.Builder

Sets the start date of the event being built.

startDate(Date) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the start date of the observation being built.

stateCityZip(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the state, city, and zip code of the patient being built.

T

toString() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2AuthMetadata

toString() - Method in class edu.emory.bmi.aiw.i2b2export.comm.I2b2Concept

toString() - Method in class edu.emory.bmi.aiw.i2b2export.comm.SendPatientSetRequest

tval(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the text value of the observation being built.

U

units(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the units the observation being built.

V

valueflag(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the value flag of the observation being built.

valuetype(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Observation.Builder

Sets the value type of the observation being built.

vitalStatus(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the vital status of the patient being built.

X

xmlDocumentToString(Node) - Static method in class edu.emory.bmi.aiw.i2b2export.xml.XmlUtil

Converts an XML document or node to an equivalent string.

xmlStringToDocument(String) - Static method in class edu.emory.bmi.aiw.i2b2export.xml.XmlUtil

Converts an XML string into an equivalent XML document.

XmlUtil - Class in edu.emory.bmi.aiw.i2b2export.xml

Utility methods for handling XPaths and converting between XML document objects and strings.

Z

zipCode(String) - Method in class edu.emory.bmi.aiw.i2b2export.i2b2.pdo.Patient.Builder

Sets the zip code of the patient being built.

A B C D E G H I L M N O P R S T U V X Z