org.utgenome.gwt.utgb.server.app
Class Sequence

java.lang.Object
  javax.servlet.GenericServlet
      javax.servlet.http.HttpServlet
          org.utgenome.gwt.utgb.server.RequestHandlerBase
              org.utgenome.gwt.utgb.server.WebTrackBase
                  org.utgenome.gwt.utgb.server.app.Sequence

All Implemented Interfaces:

Serializable, javax.servlet.Servlet, javax.servlet.ServletConfig, RequestHandler

public class Sequence
extends WebTrackBase

SubSequence retrieves a genome sequence of the specified target in the range (start, end) (inclusive)

Author:

leo

See Also:

Serialized Form

Nested Class Summary

class	Sequence.GraphicalOutput
static class	Sequence.JSONOutput Output a sequence as JSON
static class	Sequence.SequenceRetrieverBase
static class	Sequence.TextOutput Output a sequence as text
static class	Sequence.XMLOutput Output a sequence as XML

Field Summary

String	colorA
String	colorC
String	colorG
String	colorN
String	colorT
String	dbGroup
int	end
String	name
String	path
String	revision
String	species
int	start
int	width

Constructor Summary

Sequence()

Method Summary

void	handle(javax.servlet.http.HttpServletRequest request, javax.servlet.http.HttpServletResponse response) Handles the HTTP request
void	validate(javax.servlet.http.HttpServletRequest request, javax.servlet.http.HttpServletResponse response) Validate request parameters

Methods inherited from class org.utgenome.gwt.utgb.server.WebTrackBase

createSQL, createSQLFromFile, createSQLStatement, getActionPrefix, getActionSuffix, getDatabaseAccess, getHTTPRequestQueryString, getProjectRootPath, getTrackConfigProperty, loadJSON, loadJSON, openAction, openAction, toJSON

Methods inherited from class org.utgenome.gwt.utgb.server.RequestHandlerBase

doGet, doPost

Methods inherited from class javax.servlet.http.HttpServlet

doDelete, doHead, doOptions, doPut, doTrace, getLastModified, service, service

Methods inherited from class javax.servlet.GenericServlet

destroy, getInitParameter, getInitParameterNames, getServletConfig, getServletContext, getServletInfo, getServletName, init, init, log, log

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

colorA

public String colorA

colorC

public String colorC

colorG

public String colorG

colorT

public String colorT

colorN

public String colorN

dbGroup

public String dbGroup

species

public String species

revision

public String revision

start

public int start

end

public int end

name

public String name

width

public int width

path

public String path

Constructor Detail

Sequence

public Sequence()

Method Detail

validate

public void validate(javax.servlet.http.HttpServletRequest request,
                     javax.servlet.http.HttpServletResponse response)
              throws javax.servlet.ServletException,
                     UTGBException

Description copied from interface: RequestHandler

Validate request parameters

Specified by:

validate in interface RequestHandler

Overrides:

validate in class RequestHandlerBase

Throws:

javax.servlet.ServletException

UTGBException

handle

public void handle(javax.servlet.http.HttpServletRequest request,
                   javax.servlet.http.HttpServletResponse response)
            throws javax.servlet.ServletException,
                   IOException

Description copied from interface: RequestHandler

Handles the HTTP request

Specified by:

handle in interface RequestHandler

Specified by:

handle in class RequestHandlerBase

Parameters:

request - the http servlet request

response - the http servlet response

Throws:

javax.servlet.ServletException

IOException