python.trigRecoExe.trigRecoExecutor Class Reference

Inheritance diagram for python.trigRecoExe.trigRecoExecutor:

Collaboration diagram for python.trigRecoExe.trigRecoExecutor:

Public Member Functions
	preExecute (self, input=set(), output=set())
	postExecute (self)

Public Attributes
	name

Protected Member Functions
	_prepAthenaCommandLine (self)
	_findOutputFiles (self, pattern)
	_mergeBSfiles (self, inputFiles, outputFile)
	_splitBSfile (self, streamsList, allStreamsFileName, splitFileName)
	_renamefile (self, currentFileName, newFileName)
	_postExecuteDebug (self, outputBSFile)

Protected Attributes
	_topOptionsFiles
	_substep
	_envUpdate = trfEnv.environmentUpdate()
	_exe
	_skeletonCA
	_cmd
	_name
	_skeleton
int	_rc = signal
	_logFileName

Detailed Description

Definition at line 30 of file trigRecoExe.py.

Member Function Documentation

_findOutputFiles()

python.trigRecoExe.trigRecoExecutor._findOutputFiles ( self, pattern )

protected

Definition at line 234 of file trigRecoExe.py.

    def _findOutputFiles(self, pattern):
        # list to store the filenames of files matching pattern
        matchedOutputFileNames = []
        # list of input files that could be in the same folder and need ignoring
        ignoreInputFileNames = []
        for dataType, dataArg in self.conf.dataDictionary.items():
            if dataArg.io == 'input':
                ignoreInputFileNames.append(dataArg.value[0])
        # loop over all files in folder to find matching output files
        for file in os.listdir('.'):
            if fnmatch.fnmatch(file, pattern):
                if file in ignoreInputFileNames:
                    msg.info('Ignoring input file: %s', file)
                else:
                    matchedOutputFileNames.append(file)
        return matchedOutputFileNames
 

_mergeBSfiles()

python.trigRecoExe.trigRecoExecutor._mergeBSfiles ( self, inputFiles, outputFile )

protected

Definition at line 252 of file trigRecoExe.py.

    def _mergeBSfiles(self, inputFiles, outputFile):
        msg.info(f'Merging multiple BS files ({inputFiles}) into {outputFile}')
        # Write the list of input files to a text file, to use it as a input for file_merging
        mergeBSFileList = 'RAWFileMerge.list'
        try:
            with open(mergeBSFileList, 'w') as BSFileList:
                for fname in inputFiles:
                    BSFileList.write(f'{fname}\n')
        except OSError as e:
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'), 
                f'Got an error when writing list of BS files to {mergeBSFileList}: {e}')
        
        # The user should never need to use this directly, but check it just in case...
        if not outputFile.endswith('._0001.data'):
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'), 
                'Output merged BS filename must end in "._0001.data"')
        else:
            # We need to remove the suffix to pass the output as an argument to file_merging
            outputFile = outputFile.split('._0001.data')[0]
        
        mergeBSFailure = 0
        try:
            cmd = f'file_merging {mergeBSFileList} 0 {outputFile}'
            msg.info('running command for merging (in original asetup env): %s', cmd)
            mergeBSFailure = subprocess.call(cmd, shell=True)
            msg.debug('file_merging return code %s', mergeBSFailure)
        except OSError as e:
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                f'Exception raised when merging BS files using file_merging: {e}')
        if mergeBSFailure != 0:
            msg.error('file_merging returned error (%s) no merged BS file created', mergeBSFailure)
            return 1
        return 0
 
 

_postExecuteDebug()

python.trigRecoExe.trigRecoExecutor._postExecuteDebug ( self, outputBSFile )

protected

Definition at line 522 of file trigRecoExe.py.

    def _postExecuteDebug(self, outputBSFile):
        # Run postRun step debug stream analysis if output BS file and output histogram are set
        msg.info("debug stream analysis in postExecute")
 
        # Set file name for debug stream analysis output
        fileNameDbg = self.conf.argdict["outputHIST_DEBUGSTREAMMONFile"].value
        msg.info('outputHIST_DEBUGSTREAMMONFile argument is {0}'.format(fileNameDbg))
 
        if(os.path.isfile(fileNameDbg[0])):
            # Keep filename if not defined
            msg.info('Will use file created in PreRun step {0}'.format(fileNameDbg))
        else:
            msg.info('No file created  in PreRun step {0}'.format(fileNameDbg))
        
        # Do debug stream postRun step
        dbgStream.dbgPostRun(outputBSFile, fileNameDbg[0], self.conf.argdict)
 

_prepAthenaCommandLine()

python.trigRecoExe.trigRecoExecutor._prepAthenaCommandLine ( self )

protected

Definition at line 202 of file trigRecoExe.py.

    def _prepAthenaCommandLine(self):
 
        # When running from the DB athenaHLT needs no skeleton file
        msg.info("Before build command line check if reading from DB")
 
        # Check if expecting to run from DB
        removeSkeleton = False
        if 'useDB' in self.conf.argdict:
            removeSkeleton = True
        elif 'athenaopts' in self.conf.argdict:
            v = self.conf.argdict['athenaopts'].value
            if '--use-database' in v or '-b' in v:
                removeSkeleton = True
 
        if removeSkeleton and self._isCAEnabled():
            msg.error('Do not specify --CA when reading from the DB, CA config will already be contained in the SMK')
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_ARG_ERROR'),
                    'Do not specify --CA when reading from the DB, CA config will already be contained in the SMK')
            return 1
 
        # Due to athenaExecutor code don't remove skeleton, otherwise lose runargs too
        # instead remove skeleton from _topOptionsFiles
        if removeSkeleton and self._skeleton is not None:
            msg.info('Read from DB: remove skeleton {0} from command'.format(self._skeleton))
            self._topOptionsFiles.remove(self._skeleton[0])
        else:
            msg.info('Not reading from DB: keep skeleton in command')
 
        # Now build command line as in athenaExecutor
        super(trigRecoExecutor, self)._prepAthenaCommandLine()
 

_renamefile()

python.trigRecoExe.trigRecoExecutor._renamefile ( self, currentFileName, newFileName )

protected

Definition at line 318 of file trigRecoExe.py.

    def _renamefile(self, currentFileName, newFileName):
        msg.info('Renaming file from %s to %s', currentFileName, newFileName)
        try:
            os.rename(currentFileName, newFileName)
        except OSError as e:
            msg.error('Exception raised when renaming {0} #to {1}: {2}'.format(currentFileName, newFileName, e))
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                'Exception raised when renaming {0} #to {1}: {2}'.format(currentFileName, newFileName, e))
 

_splitBSfile()

python.trigRecoExe.trigRecoExecutor._splitBSfile ( self, streamsList, allStreamsFileName, splitFileName )

protected

Definition at line 289 of file trigRecoExe.py.

    def _splitBSfile(self, streamsList, allStreamsFileName, splitFileName):
        # merge list of streams
        outputStreams = ','.join(str(stream) for stream in streamsList)
        msg.info('Splitting stream %s from BS file', outputStreams)
        splitStreamFailure = 0
        try:
            cmd = 'trigbs_extractStream.py -s ' + outputStreams + ' ' + allStreamsFileName
            msg.info('running command for splitting (in original asetup env): %s', cmd)
            splitStreamFailure = subprocess.call(cmd, shell=True)
            msg.debug('trigbs_extractStream.py splitting return code %s', splitStreamFailure)
        except OSError as e:
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                'Exception raised when selecting stream with trigbs_extractStream.py in file {0}: {1}'.format(allStreamsFileName, e))
        if splitStreamFailure != 0:
            msg.warning('trigbs_extractStream.py returned error (%s) no split BS file created', splitStreamFailure)
            return 1
        else:
            # know that the format will be of the form ####._athenaHLT.####.data
            expectedStreamFileName = '*_athenaHLT*.data'
            # list of filenames of files matching expectedStreamFileName
            matchedOutputFileName = self._findOutputFiles(expectedStreamFileName)
            if(len(matchedOutputFileName)):
                self._renamefile(matchedOutputFileName[0], splitFileName)
                return 0
            else:
                msg.error('trigbs_extractStream.py did not created expected file (%s)', expectedStreamFileName)
                return 1
 

postExecute()

python.trigRecoExe.trigRecoExecutor.postExecute

(

self

)

Definition at line 327 of file trigRecoExe.py.

    def postExecute(self):
 
        # Adding check for HLTMPPU.*Child Issue in the log file
        # - Throws an error message if there so we catch that the child died
        # - Also sets the return code of the mother process to mark the job as failed
        # - Is based on trfValidation.scanLogFile
        log = self._logFileName
        msg.debug('Now scanning logfile {0} for HLTMPPU Child Issues'.format(log))
        # Using the generator so that lines can be grabbed by subroutines if needed for more reporting
       
        #Count the number of rejected events 
        rejected = 0 
        #Count the number of accepted events
        accepted = 0 
       
        try:
            myGen = lineByLine(log, substepName=self._substep)
        except IOError as e:
            msg.error('Failed to open transform logfile {0}: {1:s}'.format(log, e))
        for line, lineCounter in myGen:
            # Check to see if any of the hlt children had an issue
            if 'Child Issue' in line:
                try:
                    signal = int((re.search('signal ([0-9]*)', line)).group(1))
                except AttributeError:
                    # signal not found in message, so return 1 to highlight failure
                    signal = 1
                msg.error('Detected issue with HLTChild, setting mother return code to %s', signal)
                self._rc = signal
 
        # Merge child log files into parent log file
        # is needed to make sure all child log files are scanned
        # files are found by searching whole folder rather than relying on nprocs being defined
        try:
            # open original log file (log.BSRDOtoRAW) to merge child files into
            with open(self._logFileName, 'a') as merged_file:
                for file in os.listdir('.'):
                    # expected child log files should be of the format athenaHLT:XX.out and .err
                    if fnmatch.fnmatch(file, 'athenaHLT:*'):
                        msg.info('Merging child log file (%s) into %s', file, self._logFileName)
                        with open(file) as log_file:
                            # write header infomation ### Output from athenaHLT:XX.out/err ###
                            merged_file.write('### Output from {} ###\n'.format(file))
                            # write out file line by line
                            for line in log_file:
                                merged_file.write(line)
                                # Check for rejected events in log file
                                if 'rejected:' in line and int(line[14]) != 0:
                                    #Add the number of rejected events      
                                    rejected += int(line[14:])
                                # Check for accepted events in log file
                                if 'accepted:' in line and int(line[14]) != 0:
                                    #Add the number of accepted events      
                                    accepted += int(line[14:])
                                if re.search('DFDcmEmuSession.* Communication error', line) or re.search('DFDcmEmuSession.* No new event provided within the timeout limit', line):
                                    msg.error('Caught DFDcmEmuSession error, aborting job')
                                    self._rc = 1
 
            if "HIST_DEBUGSTREAMMON" in self.conf.dataDictionary: 
                # Add the HLT_accepted_events and HLT_rejected_events histograms to the output file 
                dbgStream.getHltDecision(accepted, rejected, self.conf.argdict["outputHIST_DEBUGSTREAMMONFile"].value[0])
 
        except OSError as e:
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                        'Exception raised when merging log files into {0}: {1}'.format(self._logFileName, e))
 
        msg.info("Check for expert-monitoring.root file")
        # the BS-BS step generates the files:
        # - expert-monitoring.root (from mother process)
        # - athenaHLT_workers/*/expert-monitoring.root (from child processes)
        # to save on panda it needs to be renamed via the outputHIST_HLTMONFile argument
        expectedFileName = 'expert-monitoring.root'
 
        # first check athenaHLT step actually completed
        if self._rc != 0:
            msg.info('HLT step failed (with status %s) so skip HIST_HLTMON filename check', self._rc)
        # next check argument is in dictionary as a requested output
        elif 'outputHIST_HLTMONFile' in self.conf.argdict:
 
            # rename the mother file
            expectedMotherFileName = 'expert-monitoring-mother.root'
            if(os.path.isfile(expectedFileName)):
                msg.info('Renaming %s to %s', expectedFileName, expectedMotherFileName)
                try:
                    os.rename(expectedFileName, expectedMotherFileName)
                except OSError as e:
                    raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                        'Exception raised when renaming {0} to {1}: {2}'.format(expectedFileName, expectedMotherFileName, e))
            else:
                msg.error('HLTMON argument defined but mother %s not created', expectedFileName)
 
            # merge worker files
            expectedWorkerFileName = 'athenaHLT_workers/athenaHLT-01/' + expectedFileName
            if(os.path.isfile(expectedWorkerFileName) and os.path.isfile(expectedMotherFileName)):
                msg.info('Merging worker and mother %s files to %s', expectedFileName, self.conf.argdict['outputHIST_HLTMONFile'].value[0])
                try:
                    # have checked that at least one worker file exists
                    cmd = 'hadd ' + self.conf.argdict['outputHIST_HLTMONFile'].value[0] + ' athenaHLT_workers/*/expert-monitoring.root expert-monitoring-mother.root'
                    subprocess.call(cmd, shell=True)
                except OSError as e:
                    raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                        'Exception raised when merging worker and mother {0} files to {1}: {2}'.format(expectedFileName, self.conf.argdict['outputHIST_HLTMONFile'].value[0], e))
            else:
                msg.error('HLTMON argument defined %s but worker %s not created', self.conf.argdict['outputHIST_HLTMONFile'].value[0], expectedFileName)
 
        else:
            msg.info('HLTMON argument not defined so skip %s check', expectedFileName)
 
        msg.info("Search for created BS files, and rename if single file found")
        # The following is needed to handle the BS file being written with a different name (or names)
        # base is from either the tmp value created by the transform or the value entered by the user
   
        argInDict = {}
        if self._rc != 0:
            msg.error('HLT step failed (with status %s) so skip BS filename check', self._rc)
        elif 'BS' in self.conf.dataDictionary or 'DRAW_TRIGCOST' in self.conf.dataDictionary or 'HIST_DEBUGSTREAMMON' in self.conf.dataDictionary:
            # expected string based on knowing that the format will be of form: ####._HLTMPPy_####.data
            expectedOutputFileName = '*_HLTMPPy_*.data'
            # list of filenames of files matching expectedOutputFileName
            matchedOutputFileNames = self._findOutputFiles(expectedOutputFileName)
 
 
            # check there are file matches and rename appropriately
            if len(matchedOutputFileNames) == 0:
                msg.error('No BS files created with expected name: %s - please check for earlier failures', expectedOutputFileName)
                raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                    f'No BS files created with expected name: {expectedOutputFileName} - please check for earlier failures')
            else:
                # if only one BS file was created
                if len(matchedOutputFileNames) == 1:
                    msg.info('Single BS file found: will split (if requested) and rename the file')
                    BSFile = matchedOutputFileNames[0]
 
                # if more than one file BS was created, then merge them
                else:
                    msg.info('Multiple BS files found. A single BS file is required by the next transform steps, so they will be merged. Will split the merged file (if requested) and rename the file')
                    mergedBSFile = matchedOutputFileNames[0].split('._0001.data')[0] + '.mrg._0001.data' # a specific format is required to run file_merging
 
                    mergeFailed = self._mergeBSfiles(matchedOutputFileNames, mergedBSFile)
                    if(mergeFailed):
                        raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                            'Did not produce a merged BS file with file_merging')
                    
                    BSFile = 'tmp.BS.mrg'
                    msg.info(f'Renaming temporary merged BS file to {BSFile}')
                    self._renamefile(mergedBSFile, BSFile)
 
                # First check if we want to produce the COST DRAW output
                if 'DRAW_TRIGCOST' in self.conf.dataDictionary:
                    splitFailed = self._splitBSfile(['CostMonitoring'], BSFile, self.conf.dataDictionary['DRAW_TRIGCOST'].value[0])
                    if(splitFailed):
                        raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                            'Did not produce any BS file when selecting CostMonitoring stream with trigbs_extractStream.py in file')
                
                # Run debug step for all streams
                if "HIST_DEBUGSTREAMMON" in self.conf.dataDictionary:
                    self._postExecuteDebug(BSFile)
 
                # Rename BS file if requested
                if 'BS' in self.conf.dataDictionary:
                    argInDict = self.conf.dataDictionary['BS']
                    # If a stream (not All) is selected, then slim the orignal (many stream) BS output to the particular stream
                    if 'streamSelection' in self.conf.argdict and self.conf.argdict['streamSelection'].value[0] != "All":
                        splitEmpty = self._splitBSfile(self.conf.argdict['streamSelection'].value, BSFile, argInDict.value[0])
                        if(splitEmpty):
                            msg.info('Did not produce any BS file when selecting stream with trigbs_extractStream.py in file')
                            #If splitEmpty==1, the chosen streams contained no events 
                            #then run the command to produce an empty BS file and rename it to RAW.pool.root 
                            #this stops non-zero exit code for rejected events 
                            cmd_splitFailed = 'trigbs_failedStreamSelection.py ' + BSFile   
                            msg.info('running command for creating empty file: %s', cmd_splitFailed)
                            subprocess.call(cmd_splitFailed, shell=True)
                            #Rename the empty file to "RAW.pool.root" to prevent failure 
                            #expected filename will be of form: T0debug.runnumber.unknown_debug.unknown.RAW._lb0000._TRF._0001.data
                            runnumber = eformat.EventStorage.pickDataReader(BSFile).runNumber()
                            expectedOutputFileName = 'T0debug.00'+str(runnumber)+'.unknown_debug.unknown.RAW._lb0000._TRF._0001.data'
                            #rename the file to RAW.pool.root, this file will contain 0 events 
                            self._renamefile(expectedOutputFileName, argInDict.value[0])                     
                    else:
                        msg.info('Stream "All" requested, so not splitting BS file')
                        self._renamefile(BSFile, argInDict.value[0])
                else:
                    msg.info('BS output filetype not defined so skip renaming BS')
        else:
            msg.info('BS, DRAW_TRIGCOST or HIST_DEBUGSTREAMMON output filetypes not defined so skip BS post processing')
 
        msg.info('Now run athenaExecutor:postExecute')
        super(trigRecoExecutor, self).postExecute()
 
        if "HIST_DEBUGSTREAMMON" in self.conf.dataDictionary:
            # Do debug stream postRun step for BS file that contains events after the streamSelection
            fileNameDbg = self.conf.argdict["outputHIST_DEBUGSTREAMMONFile"].value
            dbgStream.dbgPostRun(argInDict.value[0], fileNameDbg[0], self.conf.argdict, isSplitStream=True)
 
 

preExecute()

python.trigRecoExe.trigRecoExecutor.preExecute	(		self,
			input = set(),
			output = set() )

Definition at line 36 of file trigRecoExe.py.

    def preExecute(self, input = set(), output = set()):
        msg.debug('Preparing for execution of {0} with inputs {1} and outputs {2}'.format(self.name, input, output))
 
        # Check we actually have events to process!
        if (self._inputEventTest and 'skipEvents' in self.conf.argdict and
            self.conf.argdict['skipEvents'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor) is not None):
            msg.debug('Will test for events to process')
            for dataType in input:
                inputEvents = self.conf.dataDictionary[dataType].nentries
                msg.debug('Got {} events for {}'.format(inputEvents, dataType))
                if not isinstance(inputEvents, int):
                    msg.warning('Are input events countable? Got nevents={} so disabling event count check for this input'.format(inputEvents))
                elif self.conf.argdict['skipEvents'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor) >= inputEvents:
                    raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_NOEVENTS'),
                                                                    'No events to process: {0} (skipEvents) >= {1} (inputEvents of {2}'.format(self.conf.argdict['skipEvents'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor), inputEvents, dataType))
 
        
        if self._skeleton is not None:
            inputFiles = dict()
            for dataType in input:
                inputFiles[dataType] = self.conf.dataDictionary[dataType]
            outputFiles = dict()
            for dataType in output:
                outputFiles[dataType] = self.conf.dataDictionary[dataType]
 
            # See if we have any 'extra' file arguments
            for dataType, dataArg in self.conf.dataDictionary.items():
                if dataArg.io == 'input' and self._name in dataArg.executor:
                    inputFiles[dataArg.subtype] = dataArg
 
            msg.info('Input Files: {0}; Output Files: {1}'.format(inputFiles, outputFiles))
 
            # Get the list of top options files that will be passed to athena (=runargs file + all skeletons)
            self._topOptionsFiles = self._jobOptionsTemplate.getTopOptions(input = inputFiles,
                                                                           output = outputFiles)
 
        
        if len(input) > 0:
            self._extraMetadata['inputs'] = list(input)
        if len(output) > 0:
            self._extraMetadata['outputs'] = list(output)
 
        
        asetupString = None
        if 'asetup' in self.conf.argdict:
            asetupString = self.conf.argdict['asetup'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor)
        else:
            msg.info('Asetup report: {0}'.format(asetupReport()))
 
        # If legacy release, bring up centos7 container
        OSSetupString = None
        if asetupString is not None:
            legacyOSRelease = asetupReleaseIsOlderThan(asetupString, 24)
            currentOS = os.environ['ALRB_USER_PLATFORM']
            if legacyOSRelease and "centos7" not in currentOS:
                OSSetupString = "centos7"
                msg.info('Legacy release required for the substep {}, will setup a container running {}'.format(self._substep, OSSetupString))
 
        # allow overriding the container OS using a flag
        if 'runInContainer' in self.conf.argdict:
            OSSetupString = self.conf.argdict['runInContainer'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor)
            msg.info('The step {} will be performed in a container running {}, as explicitly requested'.format(self._substep, OSSetupString))
 
        
        dbrelease = dbsetup = None
        if 'DBRelease' in self.conf.argdict:
            dbrelease = self.conf.argdict['DBRelease'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor)
            if dbrelease:
                # Classic tarball - filename format is DBRelease-X.Y.Z.tar.gz
                dbdMatch = re.match(r'DBRelease-([\d\.]+)\.tar\.gz', os.path.basename(dbrelease))
                if dbdMatch:
                    msg.debug('DBRelease setting {0} matches classic tarball file'.format(dbrelease))
                    if not os.access(dbrelease, os.R_OK):
                        msg.warning('Transform was given tarball DBRelease file {0}, but this is not there'.format(dbrelease))
                        msg.warning('I will now try to find DBRelease {0} in cvmfs'.format(dbdMatch.group(1)))
                        dbrelease = dbdMatch.group(1)
                        dbsetup = cvmfsDBReleaseCheck(dbrelease)
                    else:
                        # Check if the DBRelease is setup
                        unpacked, dbsetup = unpackDBRelease(tarball=dbrelease, dbversion=dbdMatch.group(1))
                        if unpacked:
                            # Now run the setup.py script to customise the paths to the current location...
                            setupDBRelease(dbsetup)
                # For cvmfs we want just the X.Y.Z release string (and also support 'current')
                else:
                    dbsetup = cvmfsDBReleaseCheck(dbrelease)
 
        # Look for environment updates and perpare the athena command line
        self._envUpdate = trfEnv.environmentUpdate()
        # above is needed by _prepAthenaCommandLine, but remove the setStandardEnvironment so doesn't include imf or tcmalloc
        # self._envUpdate.setStandardEnvironment(self.conf.argdict)
        self._prepAthenaCommandLine()
 
        # to get athenaHLT to read in the relevant parts from the runargs file we have to translate them
        if 'athenaHLT' in self._exe:
            self._cmd.remove('runargs.BSRDOtoRAW.py')
            # get list of translated arguments to be used by athenaHLT
            optionList = getTranslated(self.conf.argdict, name=self._name, substep=self._substep, first=self.conf.firstExecutor, output = outputFiles)
            self._cmd.extend(optionList)
            # updates for CA
            if self._isCAEnabled():
                msg.info("Running in CA mode")
                # we don't use the runargs file with athenaHLT so add the JO and preExecs to the command line
                self._cmd.append(self._skeletonCA)
                if 'preExec' in self.conf.argdict:
                    self._cmd.extend(self.conf.argdict['preExec'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor))
                    msg.info('Command adjusted for CA to %s', self._cmd)
            else:
                msg.info("Running in legacy mode")
 
            # Run preRun step debug stream analysis if output histogram are set
            if "outputHIST_DEBUGSTREAMMONFile" in self.conf.argdict:
                # Do debug stream preRun step and get asetup string from debug stream input files
                dbgAsetupString, dbAlias = dbgStream.dbgPreRun(self.conf.dataDictionary['BS_RDO'], self.conf.dataDictionary['HIST_DEBUGSTREAMMON'].value, self.conf.argdict)
                # Setup asetup from debug stream
                # if no --asetup r2b:string was given and is not running with tzero/software/patches as TestArea
                if asetupString is None and dbgAsetupString is not None:
                    asetupString = dbgAsetupString
                    msg.info('Will use asetup string for debug stream analysis %s', dbgAsetupString)
                    # If legacy release, bring up centos7 container
                    legacyOSRelease = asetupReleaseIsOlderThan(asetupString, 24)
                    currentOS = os.environ['ALRB_USER_PLATFORM']
                    if legacyOSRelease and "centos7" not in currentOS:
                        OSSetupString = "centos7"
                        msg.info('Legacy release required for the substep {}, will setup a container running {}'.format(self._substep, OSSetupString))
                    # allow overriding the container OS using a flag
                    if 'runInContainer' in self.conf.argdict:
                        OSSetupString = self.conf.argdict['runInContainer'].returnMyValue(name=self._name, substep=self._substep, first=self.conf.firstExecutor)
                        msg.info('The step {} will be performed in a container running {}, as explicitly requested'.format(self._substep, OSSetupString))
 
                # Set database in command line if it was missing
                if 'useDB' in self.conf.argdict and 'DBserver' not in self.conf.argdict and dbAlias:
                    msg.warn("Database alias will be set to %s", dbAlias)
                    self._cmd.append("--db-server " + dbAlias)
            else:
                msg.info("Flag outputHIST_DEBUGSTREAMMONFile not defined - debug stream analysis will not run.")
 
        # The following is needed to avoid conflicts in finding BS files prduced by running the HLT step
        # and those already existing in the working directory
        if 'BS' in self.conf.dataDictionary or 'DRAW_TRIGCOST' in self.conf.dataDictionary or 'HIST_DEBUGSTREAMMON' in self.conf.dataDictionary:
            # expected string based on knowing that the format will be of form: ####._HLTMPPy_####.data
            expectedOutputFileName = '*_HLTMPPy_*.data'
            # list of filenames of files matching expectedOutputFileName
            matchedOutputFileNames = self._findOutputFiles(expectedOutputFileName)
            # check there are no file matches
            if len(matchedOutputFileNames) > 0:
                msg.error(f'Directoy already contains files with expected output name format ({expectedOutputFileName}), please remove/rename these first: {matchedOutputFileNames}')
                raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_OUTPUT_FILE_ERROR'),
                    f'Directory already contains files with expected output name format {expectedOutputFileName}, please remove/rename these first: {matchedOutputFileNames}')
 
        # Sanity check:
        if OSSetupString is not None and asetupString is None:
            raise trfExceptions.TransformExecutionException(trfExit.nameToCode('TRF_EXEC_SETUP_FAIL'),
                                                            'Athena version must be specified for the substep which requires running inside a container (either via --asetup or from DB)')
 
        # Call athenaExecutor parent as the above overrides what athenaExecutor would have done
        super(athenaExecutor, self).preExecute(input, output)
 
        # Now we always write a wrapper, because it's very convenient for re-running individual substeps
        # This will have asetup and/or DB release setups in it
        # Do this last in this preExecute as the _cmd needs to be finalised
        msg.info('Now writing wrapper for substep executor {0}'.format(self._name))
        self._writeAthenaWrapper(asetup=asetupString, dbsetup=dbsetup, ossetup=OSSetupString)
        msg.info('Athena will be executed in a subshell via {0}'.format(self._cmd))
 

Member Data Documentation

_cmd

python.trigRecoExe.trigRecoExecutor._cmd

protected

Definition at line 143 of file trigRecoExe.py.

_envUpdate

python.trigRecoExe.trigRecoExecutor._envUpdate = trfEnv.environmentUpdate()

protected

Definition at line 125 of file trigRecoExe.py.

_exe

python.trigRecoExe.trigRecoExecutor._exe

protected

Definition at line 131 of file trigRecoExe.py.

_logFileName

python.trigRecoExe.trigRecoExecutor._logFileName

protected

Definition at line 362 of file trigRecoExe.py.

_name

python.trigRecoExe.trigRecoExecutor._name

protected

Definition at line 198 of file trigRecoExe.py.

_rc

python.trigRecoExe.trigRecoExecutor._rc = signal

protected

Definition at line 355 of file trigRecoExe.py.

_skeleton

python.trigRecoExe.trigRecoExecutor._skeleton

protected

Definition at line 225 of file trigRecoExe.py.

_skeletonCA

python.trigRecoExe.trigRecoExecutor._skeletonCA

protected

Definition at line 140 of file trigRecoExe.py.

_substep

python.trigRecoExe.trigRecoExecutor._substep

protected

Definition at line 93 of file trigRecoExe.py.

_topOptionsFiles

python.trigRecoExe.trigRecoExecutor._topOptionsFiles

protected

Initial value:

=  self._jobOptionsTemplate.getTopOptions(input = inputFiles,
                                                                           output = outputFiles)

Definition at line 69 of file trigRecoExe.py.

name

python.trigRecoExe.trigRecoExecutor.name

Definition at line 37 of file trigRecoExe.py.

---

The documentation for this class was generated from the following file:

• trigRecoExe.py