org.biomoby.service.test
Class ConvertAAtoFASTA_AA

java.lang.Object
  javax.servlet.GenericServlet
      javax.servlet.http.HttpServlet
          org.biomoby.service.MobyServlet
              org.biomoby.service.test.ConvertAAtoFASTA_AA

All Implemented Interfaces:

Serializable, Remote, javax.servlet.Servlet, javax.servlet.ServletConfig

@mobyService(name="ConvertAAtoFASTA_AA",
             type="FormatConversion",
             provider="moby.ucalgary.ca",
             author="gordonp@ucalgary.ca",
             in="inseq:AminoAcidSequence",
             out="outseq:FASTA_AA",
             description={"Converts amino acid objects into FastA formatted records, ","primarily to increase inter-service compatibility"})
public class ConvertAAtoFASTA_AA
extends MobyServlet

Simple service used for exemplary and testing purposes.

See Also:

Serialized Form

Field Summary

Fields inherited from class org.biomoby.service.MobyServlet

ADMIN_MODE, INIT_OUTPUT_BUFFER_SIZE, MOBY_AUTHORITATIVE_PARAM, MOBY_CENTRAL_URL_PARAM, MOBY_CONTACT_PARAM, MOBY_INPUT_PARAM, MOBY_OUTPUT_PARAM, MOBY_PROVIDER_URI_PARAM, MOBY_SECONDARYINPUT_PARAM, MOBY_SERVICE_DESC_PARAM, MOBY_SERVICENAME_PARAM, MOBY_SERVICETYPE_PARAM, MODE_HTTP_PARAM, RDF_MODE

Constructor Summary

ConvertAAtoFASTA_AA()

Method Summary

void	processRequest(MobyDataJob request, MobyDataJob result) Builds a FastA record from a MOBY AminoAcidSequence object.

Methods inherited from class org.biomoby.service.MobyServlet

createServiceFromConfig, destroy, doGet, doPost, getCentralImpl, getMobyContents, getServiceName, init, log, log, main, processRequests, setCoCInitParameter, setMainTerminationExit, stringToPrimaryDataTemplate, stringToSecondaryDataTemplate, validateArguments

Methods inherited from class javax.servlet.http.HttpServlet

service

Methods inherited from class javax.servlet.GenericServlet

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

Methods inherited from class java.lang.Object

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

Constructor Detail

ConvertAAtoFASTA_AA

public ConvertAAtoFASTA_AA()

Method Detail

processRequest

public void processRequest(MobyDataJob request,
                           MobyDataJob result)
                    throws Exception

Builds a FastA record from a MOBY AminoAcidSequence object. Demonstrates how to access fields of a MOBY object, and how to build a new object.

Overrides:

processRequest in class MobyServlet

Parameters:

request - the request to process, with params guaranteed to be of the type specified in the mobyService annotation, or values overriding the annjotation in a WAR file's WEB-INF/web.xml

Throws:

Exception