A C D E F G H I L M N O P R S T U V _

A

AdminFilter - Class in net.shrine.sheriff.controller

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 14, 2009

Harvard Medical School Center for BioMedical Informatics

AdminFilter() - Constructor for class net.shrine.sheriff.controller.AdminFilter

AdminInterfaceServlet - Class in net.shrine.sheriff.view

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 13, 2009

Harvard Medical School Center for BioMedical Informatics

AdminInterfaceServlet() - Constructor for class net.shrine.sheriff.view.AdminInterfaceServlet

app - Variable in class edu.harvard.med.cbmi.auth.Authenticate

ascending() - Method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

Authenticate - Class in edu.harvard.med.cbmi.auth

Java class for authenticate complex type.

Authenticate() - Constructor for class edu.harvard.med.cbmi.auth.Authenticate

authenticate(String, String, String, String) - Method in interface edu.harvard.med.cbmi.auth.Ecauthnport

authenticateEcommons(String, String) - Method in class net.shrine.sheriff.controller.AuthFacade

AuthenticateResponse - Class in edu.harvard.med.cbmi.auth

Java class for authenticateResponse complex type.

AuthenticateResponse() - Constructor for class edu.harvard.med.cbmi.auth.AuthenticateResponse

AuthFacade - Class in net.shrine.sheriff.controller

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 13, 2009

Harvard Medical School Center for BioMedical Informatics

authorizeFacultyStatus(String) - Method in class net.shrine.sheriff.controller.AuthFacade

authorizeFacultyStatus(String, String) - Method in class net.shrine.sheriff.controller.AuthFacade

C

create(SheriffEntry) - Method in class net.shrine.sheriff.model.SheriffDAO

createAuthenticate() - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of Authenticate

createAuthenticate(Authenticate) - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of JAXBElement<Authenticate>}

createAuthenticateResponse() - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of AuthenticateResponse

createAuthenticateResponse(AuthenticateResponse) - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of JAXBElement<AuthenticateResponse>}

createGetEmail() - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of GetEmail

createGetEmail(GetEmail) - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of JAXBElement<GetEmail>}

createGetEmailResponse() - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of GetEmailResponse

createGetEmailResponse(GetEmailResponse) - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of JAXBElement<GetEmailResponse>}

createGetName() - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of GetName

createGetName(GetName) - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of JAXBElement<GetName>}

createGetNameResponse() - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of GetNameResponse

createGetNameResponse(GetNameResponse) - Method in class edu.harvard.med.cbmi.auth.ObjectFactory

Create an instance of JAXBElement<GetNameResponse>}

createInstance(String, String, String) - Static method in class net.shrine.sheriff.controller.AuthFacade

createInstance(boolean, String) - Static method in class net.shrine.sheriff.controller.SheriffMailUtil

createNewPendingEntry(SheriffEntry) - Method in class net.shrine.sheriff.model.SheriffDAO

createNewPendingEntry(String, String, String, String, String, String, boolean, String) - Method in class net.shrine.sheriff.model.SheriffDAO

D

dao - Variable in class net.shrine.sheriff.controller.SheriffImpl

DEBUG - Variable in class net.shrine.sheriff.controller.SheriffImpl

DEBUG - Static variable in class net.shrine.sheriff.controller.UIFilter

deepEquals(SheriffUser) - Method in class net.shrine.sheriff.model.SheriffUser

delete(SheriffEntry) - Method in class net.shrine.sheriff.model.SheriffDAO

descending() - Method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

destroy() - Method in class net.shrine.sheriff.controller.UIFilter

doFilter(ServletRequest, ServletResponse, FilterChain) - Method in class net.shrine.sheriff.controller.AdminFilter

doFilter(ServletRequest, ServletResponse, FilterChain) - Method in class net.shrine.sheriff.controller.UIFilter

doGet(HttpServletRequest, HttpServletResponse) - Method in class net.shrine.sheriff.view.AdminInterfaceServlet

doGet(HttpServletRequest, HttpServletResponse) - Method in class net.shrine.sheriff.view.LogonServlet

doGet(HttpServletRequest, HttpServletResponse) - Method in class net.shrine.sheriff.view.UserInterfaceServlet

doPost(HttpServletRequest, HttpServletResponse) - Method in class net.shrine.sheriff.view.AdminInterfaceServlet

doPost(HttpServletRequest, HttpServletResponse) - Method in class net.shrine.sheriff.view.LogonServlet

doPost(HttpServletRequest, HttpServletResponse) - Method in class net.shrine.sheriff.view.UserInterfaceServlet

E

Ecauthnport - Interface in edu.harvard.med.cbmi.auth

This class was generated by the JAX-WS RI.

Ecauthnsvc - Class in edu.harvard.med.cbmi.auth

This class was generated by the JAX-WS RI.

Ecauthnsvc(URL, QName) - Constructor for class edu.harvard.med.cbmi.auth.Ecauthnsvc

Ecauthnsvc() - Constructor for class edu.harvard.med.cbmi.auth.Ecauthnsvc

edu.harvard.med.cbmi.auth - package edu.harvard.med.cbmi.auth

email - Variable in class edu.harvard.med.cbmi.auth.GetEmailResponse

eq(Object) - Method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

equals(Object) - Method in class net.shrine.sheriff.model.SheriffUser

Based on ID, because that is the only field with an @@Id annotation

F

filterName - Static variable in class net.shrine.sheriff.controller.AdminFilter

filterName - Static variable in class net.shrine.sheriff.controller.UIFilter

G

getAction(HttpServletRequest) - Static method in class net.shrine.sheriff.view.MVC

getAdminQueryTopicDetail(Long) - Static method in class net.shrine.sheriff.view.MVC

getAdminSortedList(MVC.Form, boolean) - Static method in class net.shrine.sheriff.view.MVC

getApp() - Method in class edu.harvard.med.cbmi.auth.Authenticate

Gets the value of the app property.

getDataSourceName() - Method in class net.shrine.sheriff.model.SheriffHibernateUtil

getDataStewardEmail() - Method in class net.shrine.sheriff.controller.SheriffMailUtil

getDBDriver() - Method in class net.shrine.sheriff.model.SheriffHibernateUtil

getDBUrl() - Method in class net.shrine.sheriff.model.SheriffHibernateUtil

getEcauthnport() - Method in class edu.harvard.med.cbmi.auth.Ecauthnsvc

getEcauthnport(WebServiceFeature...) - Method in class edu.harvard.med.cbmi.auth.Ecauthnsvc

getEcommonsEmailDisplay(SheriffEntry) - Static method in class net.shrine.sheriff.view.MVC

getECommonsID() - Method in class net.shrine.sheriff.model.SheriffUser

getEmail(String, String) - Method in interface edu.harvard.med.cbmi.auth.Ecauthnport

GetEmail - Class in edu.harvard.med.cbmi.auth

Java class for getEmail complex type.

GetEmail() - Constructor for class edu.harvard.med.cbmi.auth.GetEmail

getEmail() - Method in class edu.harvard.med.cbmi.auth.GetEmailResponse

Gets the value of the email property.

getEmailAddress(String) - Method in class net.shrine.sheriff.controller.AuthFacade

getEmailDisplay(SheriffEntry) - Static method in class net.shrine.sheriff.view.MVC

GetEmailResponse - Class in edu.harvard.med.cbmi.auth

Java class for getEmailResponse complex type.

GetEmailResponse() - Constructor for class edu.harvard.med.cbmi.auth.GetEmailResponse

getEntries(HttpSession) - Static method in class net.shrine.sheriff.view.MVC

getEntryDisplayName(SheriffEntry) - Static method in class net.shrine.sheriff.view.MVC

getFormattedDate(Date) - Static method in class net.shrine.sheriff.view.MVC

getInstance() - Static method in class net.shrine.sheriff.controller.AuthFacade

getInstance() - Static method in class net.shrine.sheriff.controller.SheriffMailUtil

getInstitution() - Method in class net.shrine.sheriff.model.SheriffUser

getIssuer() - Method in class edu.harvard.med.cbmi.auth.Authenticate

Gets the value of the issuer property.

getIssuer() - Method in class edu.harvard.med.cbmi.auth.GetEmail

Gets the value of the issuer property.

getIssuer() - Method in class edu.harvard.med.cbmi.auth.GetName

Gets the value of the issuer property.

getLast(Session, int) - Static method in class net.shrine.sheriff.model.ProtocolNumberCounter

getLicenseAgreementTimestamp() - Method in class net.shrine.sheriff.model.SheriffUser

getName(String, String) - Method in interface edu.harvard.med.cbmi.auth.Ecauthnport

GetName - Class in edu.harvard.med.cbmi.auth

Java class for getName complex type.

GetName() - Constructor for class edu.harvard.med.cbmi.auth.GetName

getName() - Method in class edu.harvard.med.cbmi.auth.GetNameResponse

Gets the value of the name property.

getName(String) - Method in class net.shrine.sheriff.controller.AuthFacade

GetNameResponse - Class in edu.harvard.med.cbmi.auth

Java class for getNameResponse complex type.

GetNameResponse() - Constructor for class edu.harvard.med.cbmi.auth.GetNameResponse

getNext(Session, int) - Static method in class net.shrine.sheriff.model.ProtocolNumberCounter

Drop to JDBC to atomically increment and make available for return the next protocol number value for a givern year.

getNonShrineCollaboratorInfoDisplay(SheriffEntry) - Static method in class net.shrine.sheriff.view.MVC

getPass() - Method in class edu.harvard.med.cbmi.auth.Authenticate

Gets the value of the pass property.

getProfileDetailsURL(String) - Static method in class net.shrine.sheriff.view.MVC

getQueryReasonDisplay(SheriffEntry) - Static method in class net.shrine.sheriff.view.MVC

getSessionFactory() - Static method in class net.shrine.sheriff.model.SheriffDAO

getSessionFactory() - Method in class net.shrine.sheriff.model.SheriffHibernateUtil

getUser() - Method in class edu.harvard.med.cbmi.auth.Authenticate

Gets the value of the user property.

getUser() - Method in class edu.harvard.med.cbmi.auth.GetEmail

Gets the value of the user property.

getUser() - Method in class edu.harvard.med.cbmi.auth.GetName

Gets the value of the user property.

getUserActionServlet(MVC.Action, Long) - Static method in class net.shrine.sheriff.view.MVC

H

hashCode() - Method in class net.shrine.sheriff.model.SheriffUser

Based on ID, because that is the only field with an @@Id annotation

hibernateConfigFileName - Static variable in class net.shrine.sheriff.model.SheriffHibernateUtil

HostNameResolver - Class in net.shrine.util

[ Summary ] ------------------------------------------------- [ Author ]

This class resolves the various possible hosts that the PSL application may be deployed to, to the various hosts that serve up the centrally shared Catalyst resources.

HostNameResolver() - Constructor for class net.shrine.util.HostNameResolver

I

INFO - Variable in class net.shrine.sheriff.controller.SheriffImpl

INFO - Static variable in class net.shrine.sheriff.controller.UIFilter

init(FilterConfig) - Method in class net.shrine.sheriff.controller.UIFilter

init() - Method in class net.shrine.sheriff.view.AdminInterfaceServlet

init() - Method in class net.shrine.sheriff.view.LogonServlet

init() - Method in class net.shrine.sheriff.view.UserInterfaceServlet

Instance - Static variable in class net.shrine.sheriff.model.SheriffHibernateUtil

isReturn() - Method in class edu.harvard.med.cbmi.auth.AuthenticateResponse

Gets the value of the return property.

isSendEmailNotifications() - Method in class net.shrine.sheriff.controller.SheriffMailUtil

issuer - Variable in class edu.harvard.med.cbmi.auth.Authenticate

issuer - Variable in class edu.harvard.med.cbmi.auth.GetEmail

issuer - Variable in class edu.harvard.med.cbmi.auth.GetName

L

like(Object) - Method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

log - Variable in class net.shrine.sheriff.controller.SheriffImpl

log - Static variable in class net.shrine.sheriff.controller.SheriffMailUtil

log - Static variable in class net.shrine.sheriff.controller.UIFilter

LogonServlet - Class in net.shrine.sheriff.view

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 14, 2009

Harvard Medical School Center for BioMedical Informatics

LogonServlet() - Constructor for class net.shrine.sheriff.view.LogonServlet

M

maxStringColumnLength - Static variable in class net.shrine.sheriff.model.SheriffUser

30000 chars should hopefully be enough in all cases, but not big enough To push us into LONG VARCHAR territory.

MVC - Class in net.shrine.sheriff.view

MVC() - Constructor for class net.shrine.sheriff.view.MVC

MVC.Action - Enum in net.shrine.sheriff.view

MVC.Form - Enum in net.shrine.sheriff.view

MVC.Session - Enum in net.shrine.sheriff.view

N

name - Variable in class edu.harvard.med.cbmi.auth.GetNameResponse

ne(Object) - Method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

net.shrine.sheriff.controller - package net.shrine.sheriff.controller

net.shrine.sheriff.model - package net.shrine.sheriff.model

net.shrine.sheriff.view - package net.shrine.sheriff.view

net.shrine.util - package net.shrine.util

nextAdminJsp(MVC.Action) - Static method in class net.shrine.sheriff.view.MVC

nextDetailJsp(MVC.Action) - Static method in class net.shrine.sheriff.view.MVC

nextUserDetailJsp(MVC.Action) - Static method in class net.shrine.sheriff.view.MVC

nextUserJsp(MVC.Action) - Static method in class net.shrine.sheriff.view.MVC

NO_SESSION - Static variable in class net.shrine.sheriff.controller.UIFilter

NOT_AUTHORIZED - Static variable in class net.shrine.sheriff.controller.UIFilter

O

ObjectFactory - Class in edu.harvard.med.cbmi.auth

This object contains factory methods for each Java content interface and Java element interface generated in the edu.harvard.med.cbmi.auth package.

ObjectFactory() - Constructor for class edu.harvard.med.cbmi.auth.ObjectFactory

Create a new ObjectFactory that can be used to create new instances of schema derived classes for package: edu.harvard.med.cbmi.auth

P

pass - Variable in class edu.harvard.med.cbmi.auth.Authenticate

PROFILES_NAMESPACE - Static variable in class net.shrine.sheriff.controller.AuthFacade

PROFILES XML Namespace

PROFILES_REQUEST - Static variable in class net.shrine.sheriff.controller.AuthFacade

PROFILES API request template XML message

PROFILES_URL - Static variable in class net.shrine.sheriff.view.MVC

ProtocolNumberCounter - Class in net.shrine.sheriff.model

ProtocolNumberCounter() - Constructor for class net.shrine.sheriff.model.ProtocolNumberCounter

R

read(List<Criterion>) - Method in class net.shrine.sheriff.model.SheriffDAO

read(List<Criterion>, Order...) - Method in class net.shrine.sheriff.model.SheriffDAO

readAll() - Method in class net.shrine.sheriff.model.SheriffDAO

readApprovedEntries(Identity) - Method in class net.shrine.sheriff.controller.SheriffImpl

readApprovedEntries(String) - Method in class net.shrine.sheriff.model.SheriffDAO

readApprovedTopic(Identity, Integer) - Method in class net.shrine.sheriff.controller.SheriffImpl

readById(Long) - Method in class net.shrine.sheriff.model.SheriffDAO

readByRequestorID(String) - Method in class net.shrine.sheriff.model.SheriffDAO

readPendingEntries() - Method in class net.shrine.sheriff.model.SheriffDAO

readPendingEntries(String) - Method in class net.shrine.sheriff.model.SheriffDAO

readUser(String) - Method in class net.shrine.sheriff.model.SheriffDAO

resolveForHost(String) - Static method in class net.shrine.util.HostNameResolver

Resolves Host names for the vhosts that house the centrally shared assets that include but are not limited to: header_footer.css - css for the catalyst header and footer external.css - css for weymouth delivered catalyst styled content header.txt - properly formatted xhtml header div common to all catalyst assets footer.txt - properly formatted xhtml footer div common to all catalyst assets

hostname.properties contains a map of PSL host names to central asset host names.

resubmit(SheriffEntry) - Method in class net.shrine.sheriff.model.SheriffDAO

retract(SheriffEntry) - Method in class net.shrine.sheriff.model.SheriffDAO

returnError(ServletRequest, ServletResponse, String) - Method in class net.shrine.sheriff.controller.UIFilter

S

sendDataStewardNotification(String, String) - Method in class net.shrine.sheriff.controller.SheriffMailUtil

sendSysAdminNotification(String, String) - Method in class net.shrine.sheriff.controller.SheriffMailUtil

sendUserNotification(String, String, String) - Method in class net.shrine.sheriff.controller.SheriffMailUtil

setApp(String) - Method in class edu.harvard.med.cbmi.auth.Authenticate

Sets the value of the app property.

setECommonsID(String) - Method in class net.shrine.sheriff.model.SheriffUser

setEmail(String) - Method in class edu.harvard.med.cbmi.auth.GetEmailResponse

Sets the value of the email property.

setInstitution(String) - Method in class net.shrine.sheriff.model.SheriffUser

setIssuer(String) - Method in class edu.harvard.med.cbmi.auth.Authenticate

Sets the value of the issuer property.

setIssuer(String) - Method in class edu.harvard.med.cbmi.auth.GetEmail

Sets the value of the issuer property.

setIssuer(String) - Method in class edu.harvard.med.cbmi.auth.GetName

Sets the value of the issuer property.

setLicenseAgreementTimestamp(Date) - Method in class net.shrine.sheriff.model.SheriffUser

setName(String) - Method in class edu.harvard.med.cbmi.auth.GetNameResponse

Sets the value of the name property.

setPass(String) - Method in class edu.harvard.med.cbmi.auth.Authenticate

Sets the value of the pass property.

setReturn(boolean) - Method in class edu.harvard.med.cbmi.auth.AuthenticateResponse

Sets the value of the return property.

setSendEmailNotifications(boolean) - Method in class net.shrine.sheriff.controller.SheriffMailUtil

setUser(String) - Method in class edu.harvard.med.cbmi.auth.Authenticate

Sets the value of the user property.

setUser(String) - Method in class edu.harvard.med.cbmi.auth.GetEmail

Sets the value of the user property.

setUser(String) - Method in class edu.harvard.med.cbmi.auth.GetName

Sets the value of the user property.

SheriffAuthException - Exception in net.shrine.sheriff.controller

SheriffAuthException() - Constructor for exception net.shrine.sheriff.controller.SheriffAuthException

SheriffAuthException(String, Throwable) - Constructor for exception net.shrine.sheriff.controller.SheriffAuthException

SheriffAuthException(String) - Constructor for exception net.shrine.sheriff.controller.SheriffAuthException

SheriffAuthException(Throwable) - Constructor for exception net.shrine.sheriff.controller.SheriffAuthException

SheriffDAO - Class in net.shrine.sheriff.model

SheriffDAO() - Constructor for class net.shrine.sheriff.model.SheriffDAO

SheriffDAO.QueryParam - Enum in net.shrine.sheriff.model

SheriffDAOException - Exception in net.shrine.sheriff.controller

SheriffDAOException() - Constructor for exception net.shrine.sheriff.controller.SheriffDAOException

SheriffDAOException(String, Throwable) - Constructor for exception net.shrine.sheriff.controller.SheriffDAOException

SheriffDAOException(String) - Constructor for exception net.shrine.sheriff.controller.SheriffDAOException

SheriffDAOException(Throwable) - Constructor for exception net.shrine.sheriff.controller.SheriffDAOException

sheriffEntry - Variable in class net.shrine.sheriff.model.SheriffEntryList

SheriffEntryList - Class in net.shrine.sheriff.model

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 18, 2009

Harvard Medical School Center for BioMedical Informatics

SheriffEntryList() - Constructor for class net.shrine.sheriff.model.SheriffEntryList

SheriffEntryList(SheriffEntry) - Constructor for class net.shrine.sheriff.model.SheriffEntryList

SheriffEntryList(List<SheriffEntry>) - Constructor for class net.shrine.sheriff.model.SheriffEntryList

SheriffHibernateUtil - Class in net.shrine.sheriff.model

SheriffImpl - Class in net.shrine.sheriff.controller

SheriffImpl() - Constructor for class net.shrine.sheriff.controller.SheriffImpl

SheriffMailUtil - Class in net.shrine.sheriff.controller

SheriffUser - Class in net.shrine.sheriff.model

SheriffUser() - Constructor for class net.shrine.sheriff.model.SheriffUser

shutDown() - Method in class net.shrine.sheriff.model.SheriffHibernateUtil

T

toString() - Method in class net.shrine.sheriff.model.ProtocolNumberCounter

toString() - Method in class net.shrine.sheriff.model.SheriffUser

truncateSheriffEntries() - Method in class net.shrine.sheriff.model.SheriffDAO

U

UIFilter - Class in net.shrine.sheriff.controller

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 14, 2009

Harvard Medical School Center for BioMedical Informatics

UIFilter() - Constructor for class net.shrine.sheriff.controller.UIFilter

update(Long, ApprovalStatus) - Method in class net.shrine.sheriff.model.SheriffDAO

update(SheriffEntry) - Method in class net.shrine.sheriff.model.SheriffDAO

user - Variable in class edu.harvard.med.cbmi.auth.Authenticate

user - Variable in class edu.harvard.med.cbmi.auth.GetEmail

user - Variable in class edu.harvard.med.cbmi.auth.GetName

UserInterfaceServlet - Class in net.shrine.sheriff.view

[ SUMMARY ]

[ Author ] Andrew McMurry Date: Jul 13, 2009

Harvard Medical School Center for BioMedical Informatics

UserInterfaceServlet() - Constructor for class net.shrine.sheriff.view.UserInterfaceServlet

V

valueOf(String) - Static method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum net.shrine.sheriff.view.MVC.Action

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum net.shrine.sheriff.view.MVC.Form

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum net.shrine.sheriff.view.MVC.Session

Returns the enum constant of this type with the specified name.

values() - Static method in enum net.shrine.sheriff.model.SheriffDAO.QueryParam

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum net.shrine.sheriff.view.MVC.Action

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum net.shrine.sheriff.view.MVC.Form

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum net.shrine.sheriff.view.MVC.Session

Returns an array containing the constants of this enum type, in the order they are declared.

_

_return - Variable in class edu.harvard.med.cbmi.auth.AuthenticateResponse

A C D E F G H I L M N O P R S T U V _