コード例 #1
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
    def soap_getSupportedLocations(self, ps, **kw):
        response = SimulatorService.soap_getSupportedLocations(self, ps, **kw)

        spl = self.factory.new_SupportedPopulationLocation()

        spl._populationLocation = "42003"
        spl._populationLocationDescription = "Allegheny County"

        response._supportedPopluationLocations.append(spl)
        return response
コード例 #2
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
 def soap_getSupportedLocations(self, ps, **kw):
     response = SimulatorService.soap_getSupportedLocations(self, ps, **kw)
     
     spl = self.factory.new_SupportedPopulationLocation()
     
     spl._populationLocation = "42003"
     spl._populationLocationDescription = "Allegheny County"
     
     response._supportedPopluationLocations.append(spl)
     return response
コード例 #3
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
 def soap_run(self, ps, **kw):
     response = SimulatorService.soap_run(self, ps, **kw)
     request = ps.Parse(runRequest.typecode)
     print "received run request"
     #extract the epidemic model input object from the request            
     cfg = request._simulatorConfiguration
     #example to get the number of time steps in the simulation
     #run_length = cfg._simulatorTimeSpecification._runLength
     '''ACME code here'''
     response._runId = "1"
     return response
コード例 #4
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
        def soap_getRunStatus(self, ps, **kw):
            response = SimulatorService.soap_getRunStatus(self, ps, **kw)
            #get the run id of the job 
            request = ps.Parse(getRunStatusRequest.typecode)
            runId = request._runId
	
            response._runStatus = self.factory.new_RunStatus()
            response._runStatus._status = 'RUNNING'
            response._runStatus._message = 'the run is currently running'
            
            return response
コード例 #5
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
 def soap_run(self, ps, **kw):
     response = SimulatorService.soap_run(self, ps, **kw)
     request = ps.Parse(runRequest.typecode)
     print "received run request"
     #extract the epidemic model input object from the request
     cfg = request._simulatorConfiguration
     #example to get the number of time steps in the simulation
     #run_length = cfg._simulatorTimeSpecification._runLength
     '''ACME code here'''
     response._runId = "1"
     return response
コード例 #6
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
    def soap_getRunStatus(self, ps, **kw):
        response = SimulatorService.soap_getRunStatus(self, ps, **kw)
        #get the run id of the job
        request = ps.Parse(getRunStatusRequest.typecode)
        runId = request._runId

        response._runStatus = self.factory.new_RunStatus()
        response._runStatus._status = 'RUNNING'
        response._runStatus._message = 'the run is currently running'

        return response
コード例 #7
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
        def soap_getRunStatus(self, ps, **kw):
            response = SimulatorService.soap_getRunStatus(self, ps, **kw)
            #get the run id of the job 
            request = ps.Parse(getRunStatusRequest.typecode)
            runId = request._runId
	    	   	    
            status, message = fredConn._getStatus(runId)
            response._runStatus = self.factory.new_RunStatus()
            print "Fred status is:" + status
            response._runStatus._status = status.lower()
            print "Fred message is:" + message
            response._runStatus._message = message
            
            return response
コード例 #8
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
    def soap_getRunStatus(self, ps, **kw):
        response = SimulatorService.soap_getRunStatus(self, ps, **kw)
        #get the run id of the job
        request = ps.Parse(getRunStatusRequest.typecode)
        runId = request._runId

        status, message = fredConn._getStatus(runId)
        response._runStatus = self.factory.new_RunStatus()
        print "Fred status is:" + status
        response._runStatus._status = status.lower()
        print "Fred message is:" + message
        response._runStatus._message = message

        return response
コード例 #9
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
        def soap_run(self, ps, **kw):
	    fredConn._setup()
            response = SimulatorService.soap_run(self, ps, **kw)
            request = ps.Parse(runRequest.typecode)
            #extract the epidemic model input object from the request
            print "received run request"
            cfg = request._simulatorConfiguration
            
            #get the number of time steps in the simulation
            run_length = cfg._simulatorTimeSpecification._runLength
        
            #log the EpidemicModelInput request to a log file
            self.utils.log_simulatorConfiguration(cfg)

            ### STB CREATE FRED INPUT FILE
            ### do some error checking for this version of the model
            if cfg._simulatorTimeSpecification._timeStepUnit.lower() != 'days':
                    print ('This verison of FRED only supports time_step_unit of days')
                    print ('Apollo sent %s'%(cfg._simulatorTimeSpecification._timeStepUnit))
                    #### Put in Error Handling, have to ask John L.
                    
            if cfg._simulatorTimeSpecification._timeStepValue != 1:
                    print ('This version of FRED only supports a time_step_value of 1')
                    print ('Apollo sent %d'%(cfg._simulatorTimeSpecification._timeStepValue))
                    #### Put in Error Handling, have to ask John L.

            print ('WARNING: This service is currently ignoring infectious_period')
            print ('WARNING: This service is currently ignoring latent_period')

            ### Make a random directory name so that multiple calls can be made
            randID = random.randint(0,100000)
            tempDirName = "fred.tmp.%d"%(randID)
            try:
                    os.mkdir(tempDirName)
            except:
                    raise RuntimeError("Cannot make temporary FRED directory %s"%(tempDirName))

            os.chdir(tempDirName)
            doVacc = False
            with open('fred_input.params','wb') as f:
                    f.write('days = %d\n'%cfg._simulatorTimeSpecification._runLength)
                    f.write('symp[0] = %g\n'%cfg._disease._asymptomaticInfectionFraction)
                    f.write('R0 = %g\n'%cfg._disease._reproductionNumber)
                    f.write('primary_cases_file[0] = fred_initial_population_0.txt\n')
                    f.write('residual_immunity_ages[0] = 2 0 100\n')
                    totPop = self.utils.getTotalPopCount(cfg)
                    numImmune = self.utils.getPopCountGivenLocationAndDiseaseState(cfg, "ignoreed", "recovered")
                    percent_immune = float(numImmune)/float(totPop)
                    f.write('residual_immunity_values[0] = 1 %g\n'%(percent_immune))
		    f.write('track_infection_events = 1\n')
		    if sum(cfg._vaccinationControlMeasure._vaccineSupplySchedule) > 0.0:
                        doVacc = True
                        #print ('WARNING: This sevice is currently ignoring vaccine_cm_compliance due to someone f*****g FRED up')
                        f.write("##### VACCINE PARAMETERS\n")
                        f.write("enable_behaviors = 1\n")
                        f.write("enable_vaccination = 1\n")
                        f.write("number_of_vaccines = 1\n")
			f.write("accept_vaccine_enabled = 1\n")
			f.write("accept_vaccine_strategy_distribution = 7 %g %g 0 0 0 0 0\n"\
				%(1.0-cfg._vaccinationControlMeasure._vaccineCmCompliance,\
				  cfg._vaccinationControlMeasure._vaccineCmCompliance))
                        f.write("### VACCINE 1\n")
                        f.write("vaccine_number_of_doses[0] = 1\n")
                        # Setting this to infinity for now
                        # need to implement production as a time map as well
                        f.write("vaccine_total_avail[0] = 300000000\n")
                        f.write("vaccine_additional_per_day[0] = 300000000\n")
                        f.write("vaccine_starting_day[0] = 0\n")
                        f.write("##### Vaccine 1 Dose 0\n")
                        f.write("vaccine_next_dosage_day[0][0] = 0\n")
                        f.write("vaccine_dose_efficacy_ages[0][0] = 2 0 100\n")
                        f.write("vaccine_dose_efficacy_values[0][0] = 1 %g\n"\
                                %cfg._vaccinationControlMeasure._vaccineEfficacy)
                        f.write("vaccine_dose_efficacy_delay_ages[0][0] = 2 0 100\n")
                        f.write("vaccine_dose_efficacy_delay_values[0][0] = 1 %d\n"\
                                %cfg._vaccinationControlMeasure._vaccineEfficacyDelay)
                        f.write("vaccination_capacity_file = fred-vaccination-schedule_0.txt\n")

                        with open('fred-vaccination-schedule_0.txt','wb') as g:
                            vaccineSupplySchedule = cfg._vaccinationControlMeasure._vaccineSupplySchedule
                            vaccineAdminSchedule = cfg._vaccinationControlMeasure._vaccinationAdminSchedule

                            for day in range(0,len(vaccineSupplySchedule)) :
                                ## Hack for now, because I don't have the resolution on production in FRED
                                g.write("%d %d\n"%(day,min(vaccineSupplySchedule[day],vaccineAdminSchedule[day])))

            with open('fred_initial_population_0.txt','wb') as f:
                    f.write('#line_format\n')
                    numInfectious = self.utils.getPopCountGivenLocationAndDiseaseState(cfg, "ignored", "infectious")
                    #f.write('0 0 %d\n'%(cfg._disease_dynamics._pop_count[2]))
                    f.write('0 0 %d\n'%(numInfectious))

		     ### if vaccination comes through, parse this
            with open('starttime','wb') as f:
		    f.write('Nothing')

	    idPrefix = cfg._simulatorIdentification._simulatorDeveloper +\
		       "_" + cfg._simulatorIdentification._simulatorName +\
		       "_" + cfg._simulatorIdentification._simulatorVersion + "_"
	    
            fredConn._connect()
 
            ### Write the PBS submission Script
            with open('fred_submit.pbs','wb') as f:
                    f.write('#!/bin/csh\n')
		    if fredConn.machine == "blacklight.psc.xsede.org":
                        f.write('#PBS -l ncpus=16\n')
		    else:
			f.write('#PBS -l nodes=2:ppn=8\n')
                    f.write('#PBS -N fred.pbs.out\n')
                    f.write('#PBS -l walltime=30:00\n')
                    f.write('#PBS -j oe\n')
	     	    if fredConn.machine == "blacklight.psc.xsede.org":
                   	 f.write('#PBS -q debug\n')
                    f.write('\n')
		    if fredConn.machine == "blacklight.psc.xsede.org":
                        f.write('source /usr/share/modules/init/csh\n')
                        f.write('source /etc/csh.cshrc.psc\n')
                    f.write('module load fred\n')
		    f.write('module load python\n')
                    f.write('cd $PBS_O_WORKDIR\n')
		    f.write('echo `date` > starttime\n')
                    f.write('### Get the PBS ID\n')
                    f.write("set words = `echo $PBS_JOBID | sed 's/\./ /g'`\n")
                    f.write("set id = $words[1]\n")
                    f.write('fred_job -p fred_input.params -n 8 -t 2 -m 8 -k %s$id\n'%idPrefix)
		    f.write('touch .dbloading\n')
                    f.write('python $FRED_HOME/bin/fred_to_apollo_parallel.py -k %s$id\n'%(idPrefix))
                    f.write('rm -rf .dbloading\n')
                    #f.write('echo COMPLETED > job_status')
                    
            ### for a direct Job.. write the csh script to run FRED
	    with open('fred_run.csh','wb') as f:
		f.write('#!/bin/csh\n')
		f.write('echo `date` > starttime\n')
		f.write('### Generate Timestamp for ID\n')
		f.write('fred_job -p fred_input.params -n 4 -t 2 -m 4 -k %s$id > out.run\n'%idPrefix)
		f.write('touch .dbloading\n')
		f.write('python $FRED_HOME/bin/fred_to_apollo_parallel.py -k %s$id >& out.db\n'%idPrefix)
		f.write('rm -rf .dbloading\n')

            os.chdir('../')
            #fredConn._setup("warhol.psc.edu",username="******",privateKeyFile="./id_rsa")
            #fredConn._connect()
            #print "Created Connection"

            fredConn._mkdir(tempDirName)
            fredConn._sendFile(tempDirName+'/fred_submit.pbs')
	    fredConn._sendFile(tempDirName+'/fred_run.csh')
            fredConn._sendFile(tempDirName+'/fred_input.params')
            fredConn._sendFile(tempDirName+'/fred_initial_population_0.txt')
            fredConn._sendFile(tempDirName+'/starttime')		
	    if doVacc:
		    fredConn._sendFile(tempDirName+"/fred-vaccination-schedule_0.txt")

	    ### we do not need temp directory anymore
	    shutil.rmtree(tempDirName)
	
            print "Running FRED"
            sys.stdout.flush()

            #returnVal = fredConn._submitPBSJob(randID)
	    returnVal = fredConn._submitJob(randID)
            print returnVal 

	    ### parse the run ID
	    response._runId = idPrefix + str(returnVal)
            
            #ssh.close()
            #sftp.close()
            
            return response
コード例 #10
0
ファイル: SimulatorService.py プロジェクト: joshhanna/apollo
    def soap_run(self, ps, **kw):
        fredConn._setup()
        response = SimulatorService.soap_run(self, ps, **kw)
        request = ps.Parse(runRequest.typecode)
        #extract the epidemic model input object from the request
        print "received run request"
        cfg = request._simulatorConfiguration

        #get the number of time steps in the simulation
        run_length = cfg._simulatorTimeSpecification._runLength

        #log the EpidemicModelInput request to a log file
        self.utils.log_simulatorConfiguration(cfg)

        ### STB CREATE FRED INPUT FILE
        ### do some error checking for this version of the model
        if cfg._simulatorTimeSpecification._timeStepUnit.lower() != 'days':
            print('This verison of FRED only supports time_step_unit of days')
            print('Apollo sent %s' %
                  (cfg._simulatorTimeSpecification._timeStepUnit))
            #### Put in Error Handling, have to ask John L.

        if cfg._simulatorTimeSpecification._timeStepValue != 1:
            print('This version of FRED only supports a time_step_value of 1')
            print('Apollo sent %d' %
                  (cfg._simulatorTimeSpecification._timeStepValue))
            #### Put in Error Handling, have to ask John L.

        print('WARNING: This service is currently ignoring infectious_period')
        print('WARNING: This service is currently ignoring latent_period')

        ### Make a random directory name so that multiple calls can be made
        randID = random.randint(0, 100000)
        tempDirName = "fred.tmp.%d" % (randID)
        try:
            os.mkdir(tempDirName)
        except:
            raise RuntimeError("Cannot make temporary FRED directory %s" %
                               (tempDirName))

        os.chdir(tempDirName)
        doVacc = False
        with open('fred_input.params', 'wb') as f:
            f.write('days = %d\n' % cfg._simulatorTimeSpecification._runLength)
            f.write('symp[0] = %g\n' %
                    cfg._disease._asymptomaticInfectionFraction)
            f.write('R0 = %g\n' % cfg._disease._reproductionNumber)
            f.write('primary_cases_file[0] = fred_initial_population_0.txt\n')
            f.write('residual_immunity_ages[0] = 2 0 100\n')
            totPop = self.utils.getTotalPopCount(cfg)
            numImmune = self.utils.getPopCountGivenLocationAndDiseaseState(
                cfg, "ignoreed", "recovered")
            percent_immune = float(numImmune) / float(totPop)
            f.write('residual_immunity_values[0] = 1 %g\n' % (percent_immune))
            f.write('track_infection_events = 1\n')
            if sum(cfg._vaccinationControlMeasure._vaccineSupplySchedule
                   ) > 0.0:
                doVacc = True
                #print ('WARNING: This sevice is currently ignoring vaccine_cm_compliance due to someone f*****g FRED up')
                f.write("##### VACCINE PARAMETERS\n")
                f.write("enable_behaviors = 1\n")
                f.write("enable_vaccination = 1\n")
                f.write("number_of_vaccines = 1\n")
                f.write("accept_vaccine_enabled = 1\n")
                f.write("accept_vaccine_strategy_distribution = 7 %g %g 0 0 0 0 0\n"\
                 %(1.0-cfg._vaccinationControlMeasure._vaccineCmCompliance,\
                   cfg._vaccinationControlMeasure._vaccineCmCompliance))
                f.write("### VACCINE 1\n")
                f.write("vaccine_number_of_doses[0] = 1\n")
                # Setting this to infinity for now
                # need to implement production as a time map as well
                f.write("vaccine_total_avail[0] = 300000000\n")
                f.write("vaccine_additional_per_day[0] = 300000000\n")
                f.write("vaccine_starting_day[0] = 0\n")
                f.write("##### Vaccine 1 Dose 0\n")
                f.write("vaccine_next_dosage_day[0][0] = 0\n")
                f.write("vaccine_dose_efficacy_ages[0][0] = 2 0 100\n")
                f.write("vaccine_dose_efficacy_values[0][0] = 1 %g\n"\
                        %cfg._vaccinationControlMeasure._vaccineEfficacy)
                f.write("vaccine_dose_efficacy_delay_ages[0][0] = 2 0 100\n")
                f.write("vaccine_dose_efficacy_delay_values[0][0] = 1 %d\n"\
                        %cfg._vaccinationControlMeasure._vaccineEfficacyDelay)
                f.write(
                    "vaccination_capacity_file = fred-vaccination-schedule_0.txt\n"
                )

                with open('fred-vaccination-schedule_0.txt', 'wb') as g:
                    vaccineSupplySchedule = cfg._vaccinationControlMeasure._vaccineSupplySchedule
                    vaccineAdminSchedule = cfg._vaccinationControlMeasure._vaccinationAdminSchedule

                    for day in range(0, len(vaccineSupplySchedule)):
                        ## Hack for now, because I don't have the resolution on production in FRED
                        g.write("%d %d\n" % (day,
                                             min(vaccineSupplySchedule[day],
                                                 vaccineAdminSchedule[day])))

        with open('fred_initial_population_0.txt', 'wb') as f:
            f.write('#line_format\n')
            numInfectious = self.utils.getPopCountGivenLocationAndDiseaseState(
                cfg, "ignored", "infectious")
            #f.write('0 0 %d\n'%(cfg._disease_dynamics._pop_count[2]))
            f.write('0 0 %d\n' % (numInfectious))

### if vaccination comes through, parse this
        with open('starttime', 'wb') as f:
            f.write('Nothing')

        idPrefix = cfg._simulatorIdentification._simulatorDeveloper +\
            "_" + cfg._simulatorIdentification._simulatorName +\
            "_" + cfg._simulatorIdentification._simulatorVersion + "_"

        fredConn._connect()

        ### Write the PBS submission Script
        with open('fred_submit.pbs', 'wb') as f:
            f.write('#!/bin/csh\n')
            if fredConn.machine == "blacklight.psc.xsede.org":
                f.write('#PBS -l ncpus=16\n')
            else:
                f.write('#PBS -l nodes=2:ppn=8\n')
            f.write('#PBS -N fred.pbs.out\n')
            f.write('#PBS -l walltime=30:00\n')
            f.write('#PBS -j oe\n')
            if fredConn.machine == "blacklight.psc.xsede.org":
                f.write('#PBS -q debug\n')
            f.write('\n')
            if fredConn.machine == "blacklight.psc.xsede.org":
                f.write('source /usr/share/modules/init/csh\n')
                f.write('source /etc/csh.cshrc.psc\n')
            f.write('module load fred\n')
            f.write('module load python\n')
            f.write('cd $PBS_O_WORKDIR\n')
            f.write('echo `date` > starttime\n')
            f.write('### Get the PBS ID\n')
            f.write("set words = `echo $PBS_JOBID | sed 's/\./ /g'`\n")
            f.write("set id = $words[1]\n")
            f.write('fred_job -p fred_input.params -n 8 -t 2 -m 8 -k %s$id\n' %
                    idPrefix)
            f.write('touch .dbloading\n')
            f.write(
                'python $FRED_HOME/bin/fred_to_apollo_parallel.py -k %s$id\n' %
                (idPrefix))
            f.write('rm -rf .dbloading\n')
            #f.write('echo COMPLETED > job_status')

    ### for a direct Job.. write the csh script to run FRED
        with open('fred_run.csh', 'wb') as f:
            f.write('#!/bin/csh\n')
            f.write('echo `date` > starttime\n')
            f.write('### Generate Timestamp for ID\n')
            f.write(
                'fred_job -p fred_input.params -n 4 -t 2 -m 4 -k %s$id > out.run\n'
                % idPrefix)
            f.write('touch .dbloading\n')
            f.write(
                'python $FRED_HOME/bin/fred_to_apollo_parallel.py -k %s$id >& out.db\n'
                % idPrefix)
            f.write('rm -rf .dbloading\n')

        os.chdir('../')
        #fredConn._setup("warhol.psc.edu",username="******",privateKeyFile="./id_rsa")
        #fredConn._connect()
        #print "Created Connection"

        fredConn._mkdir(tempDirName)
        fredConn._sendFile(tempDirName + '/fred_submit.pbs')
        fredConn._sendFile(tempDirName + '/fred_run.csh')
        fredConn._sendFile(tempDirName + '/fred_input.params')
        fredConn._sendFile(tempDirName + '/fred_initial_population_0.txt')
        fredConn._sendFile(tempDirName + '/starttime')
        if doVacc:
            fredConn._sendFile(tempDirName +
                               "/fred-vaccination-schedule_0.txt")

        ### we do not need temp directory anymore
        shutil.rmtree(tempDirName)

        print "Running FRED"
        sys.stdout.flush()

        #returnVal = fredConn._submitPBSJob(randID)
        returnVal = fredConn._submitJob(randID)
        print returnVal

        ### parse the run ID
        response._runId = idPrefix + str(returnVal)

        #ssh.close()
        #sftp.close()

        return response
コード例 #11
0
        def soap_run(self, ps, **kw):
	    fredConn._setup()
            response = SimulatorService.soap_run(self, ps, **kw)
            request = ps.Parse(runRequest.typecode)
            #extract the epidemic model input object from the request
            print "received run request"
            cfg = request._simulatorConfiguration
            
            #log the EpidemicModelInput request to a log file
            self.utils.log_simulatorConfiguration(cfg)

	    ### get population file for fractions
	    fipsCountDict = {}
	    with open("2005_2009_ver2_pop_counts_by_fips.txt","rb") as f:
		for line in f:
		    fipsCountDict[line.split()[0]] = int(line.split()[1].strip())
	    
	    ### STB CREATE FRED INPUT FILE
	    ### do some error checking for this version of the model
	    print cfg._simulatorTimeSpecification._timeStepUnit
	    if cfg._simulatorTimeSpecification._timeStepUnit.lower() != 'day':
		print ('This verison of FRED only supports time_step_unit of day')
		print ('Apollo sent %s'%(cfg._simulatorTimeSpecification._timeStepUnit))
	        #### Put in Error Handling, have to ask John L.
		response._runId = -401
		return response
	    if cfg._simulatorTimeSpecification._timeStepValue != 1:
		print ('This version of FRED only supports a time_step_value of 1')
		print ('Apollo sent %d'%(cfg._simulatorTimeSpecification._timeStepValue))
		response._runId = -402
		return response
		
	    lenLoc = len(cfg._populationInitialization._populationLocation)
	    print "lenLoc = " + str(lenLoc)
	    if lenLoc != 5 and lenLoc != 2:
		print ('This version of the FRED only supports 2 (state) or 5 (county) NSIDS codes')
		response._runId = -403
		return response

	    if cfg._populationInitialization._populationLocation not in fipsCountDict.keys():
		print ('The location specified does not have a total population')
		response._runId = -406
		return response

            ### Make a random directory name so that multiple calls can be made
            randID = random.randint(0,100000)
            tempDirName = "fred.tmp.%d"%(randID)

            try:
                    os.mkdir(tempDirName)
            except:
                    print("Cannot make temporary FRED directory %s"%(tempDirName))
		    response._runId = -404
		    return response

	    fredInput = FredInputFileSet(cfg,tempDirName,fipsCountDict,self)
	    fredInput.createParam()
	    fredInput.parseControlMeasures()
	    
	    os.chdir(tempDirName)
            with open('starttime','wb') as f:
		    f.write('Nothing')

	    idPrefix = cfg._simulatorIdentification._softwareDeveloper +\
		       "_" + cfg._simulatorIdentification._softwareName +\
		       "_" + cfg._simulatorIdentification._softwareVersion + "_"
	    
	    fredConn.writeRunScript(idPrefix)
            os.chdir('../')
            fredConn._setup()
            fredConn._connect()
            fredConn._mkdir(tempDirName)
	    for fileNames in fredInput.fileList:
		fredConn._sendFile(tempDirName+'/'+fileNames)
            fredConn._sendFile(tempDirName+ '/' + fredConn.runScriptName)

            fredConn._sendFile(tempDirName+'/starttime')
		    
	    ### we do not need temp directory anymore
	    shutil.rmtree(tempDirName)
	
            print "Running FRED"
            sys.stdout.flush()

            #returnVal = fredConn._submitPBSJob(randID)
	    returnVal = fredConn._submitJob(randID)
            print returnVal 

	    ### parse the run ID
	    response._runId = idPrefix + str(returnVal)
            
            #ssh.close()
            #sftp.close()
            
            return response