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bugged stringlengths 4 228k	fixed stringlengths 0 96.3M	__index_level_0__ int64 0 481k
def updateLFN(f, lfn, newLFN): """ _updateLFN_ Update a LFN. """ if f['LFN'] != lfn: return f['LFN'] = newLFN return	def updateLFN(f, lfn, newLFN): """ _updateLFN_ Update a LFN. """ if f['LFN'] != lfn: return f['LFN'] = newLFN return	455,300
def updateLFN(f, lfn, newLFN): """ _updateLFN_ Update a LFN. """ if f['LFN'] != lfn: return f['LFN'] = newLFN return	def updateLFN(f, lfn, newLFN): """ _updateLFN_ Update a LFN. """ if f['LFN'] != lfn: return f['LFN'] = newLFN return	455,301
def __init__(self): super(ProtocolUberFtp, self).__init__()	def __init__(self): super(ProtocolUberFtp, self).__init__()	455,302
def decodeSubmit(self, jsonString): """ specialized method to decode JSON output of glite-wms-job-submit """ # pre-processing the string before decoding toParse = jsonString.replace( '\n' , ',' ) toParse = self.pattern1.sub(r'{ "\1', toParse[:-1] ) toParse = self.pattern2.sub(r'":"\1', toParse ) toParse = self.pattern...	def def hackTheEnv(prependCommand = ''): """ HaCk ThE eNv IMPORTANT NOTES - this hack is necessary if the SYSTEM python under '/usr/bin') and the EXTERNAL python have the same version - the hack is necessary only for CLI which are python(2) script - the hack reverts PATH & LD_LYBRARY_PATH if an external PYTHON is...	455,303
def __init__( self, args): # call super class init method super(SchedulerGLite, self).__init__(args) # some initializations self.warnings = [] # typical options self.vo = args.get( "vo", "cms" ) self.service = args.get( "service", "" ) self.config = args.get( "config", "" ) self.delegationId = args.get( "proxyna...	def __init__( self, args): # call super class init method super(SchedulerGLite, self).__init__(args) # some initializations self.warnings = [] # typical options self.vo = args.get( "vo", "cms" ) self.service = args.get( "service", "" ) self.config = args.get( "config", "" ) self.delegationId = args.get( "proxyna...	455,304
def postMortem( self, schedulerId, outfile, service): """ perform scheduler logging-info """ command = "glite-wms-job-logging-info -v 3 " + schedulerId + \ " > " + outfile return self.ExecuteCommand( self.proxyString + command )[0]	def postMortem( self, schedulerId, outfile, service): """ perform scheduler logging-info """ command = "glite-wms-job-logging-info -v 3 " + schedulerId + \ " > " + outfile return self.ExecuteCommand( self.proxyString + command )[0]	455,305
def query(self, obj, service='', objType='node') : """ query status and eventually other scheduler related information """ # jobId for remapping jobIds = {}	def query(self, obj, service='', objType='node') : """ query status and eventually other scheduler related information """ # jobId for remapping jobIds = {}	455,306
def query(self, obj, service='', objType='node') : """ query status and eventually other scheduler related information """ # jobId for remapping jobIds = {}	def query(self, obj, service='', objType='node') : """ query status and eventually other scheduler related information """ # jobId for remapping jobIds = {}	455,307
def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	455,308
def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	455,309
def checkMyProxy( self , proxy=None, Time=4, checkRetrieverRenewer=False): """ """ if proxy == None: proxy=self.getUserProxy() ## check the myproxy server valid = True	def checkMyProxy( self , proxy=None, Time=4, checkRetrieverRenewer=False): """ """ if proxy == None: proxy=self.getUserProxy() ## check the myproxy server valid = True	455,310
def splitNgstatOutput(output): """ Split a string of ngstat output into a list with one job per list item. The assumption is that the first line of a job has no indentation, and subsequent lines are indented by at least 1 space. """ jobs = [] s = "" for line in output.split('\n'): if len(line) == 0: continue if lin...	def splitNgstatOutput(output): """ Split a string of ngstat output into a list with one job per list item. The assumption is that the first line of a job has no indentation, and subsequent lines are indented by at least 1 space or start with "This job was only very recently submitted". """ jobs = [] s = "" for line i...	455,311
def splitNgstatOutput(output): """ Split a string of ngstat output into a list with one job per list item. The assumption is that the first line of a job has no indentation, and subsequent lines are indented by at least 1 space. """ jobs = [] s = "" for line in output.split('\n'): if len(line) == 0: continue if lin...	def splitNgstatOutput(output): """ Split a string of ngstat output into a list with one job per list item. The assumption is that the first line of a job has no indentation, and subsequent lines are indented by at least 1 space. """ jobs = [] s = "" for line in output.split('\n'): if len(line) == 0: continue if lin...	455,312
def splitNgstatOutput(output): """ Split a string of ngstat output into a list with one job per list item. The assumption is that the first line of a job has no indentation, and subsequent lines are indented by at least 1 space. """ jobs = [] s = "" for line in output.split('\n'): if len(line) == 0: continue if lin...	def splitNgstatOutput(output): """ Split a string of ngstat output into a list with one job per list item. The assumption is that the first line of a job has no indentation, and subsequent lines are indented by at least 1 space. """ jobs = [] s = "" for line in output.split('\n'): if len(line) == 0: continue if lin...	455,313
def decode(self, job, task, requirements=''): """ prepare scheduler specific job description	def decode(self, job, task, requirements=''): """ prepare scheduler specific job description	455,314
def decode(self, job, task, requirements=''): """ prepare scheduler specific job description	def decode(self, job, task, requirements=''): """ prepare scheduler specific job description	455,315
def decode(self, job, task, requirements=''): """ prepare scheduler specific job description	def decode(self, job, task, requirements=''): """ prepare scheduler specific job description	455,316
def submit(self, task, requirements='', config='', service = ''): """ set up submission parameters and submit uses self.decode()	def submit(self, task, requirements='', config='', service = ''): """ set up submission parameters and submit uses self.decode()	455,317
def query(self, obj, service='', objType='node'): """ Query status and eventually other scheduler related information, and store it in the job.runningJob data structure.	def query(self, obj, service='', objType='node'): """ Query status and eventually other scheduler related information, and store it in the job.runningJob data structure.	455,318
def query(self, obj, service='', objType='node'): """ Query status and eventually other scheduler related information, and store it in the job.runningJob data structure.	def query(self, obj, service='', objType='node'): """ Query status and eventually other scheduler related information, and store it in the job.runningJob data structure.	455,319
def createDir(self, source, opt = "", tout = None): """ _createDir_ """ exitcode = -1 outputs = "" ll = source.getLynk() source_fullpath = ll.split("file://",1)[1] if self.checkExists(source, opt) is False: cmd = "/bin/mkdir -m 775 -p " + opt + " " + source_fullpath exitcode, outputs = self.executeCommand(cmd, timeout...	def createDir(self, source, opt = "", tout = None): """ _createDir_ """ outputs = "" ll = source.getLynk() source_fullpath = ll.split("file://",1)[1] if self.checkExists(source, opt) is False: cmd = "/bin/mkdir -m 775 -p " + opt + " " + source_fullpath exitcode, outputs = self.executeCommand(cmd, timeout = tout) if ex...	455,320
def createDir(self, source, opt = "", tout = None): """ _createDir_ """ exitcode = -1 outputs = "" ll = source.getLynk() source_fullpath = ll.split("file://",1)[1] if self.checkExists(source, opt) is False: cmd = "/bin/mkdir -m 775 -p " + opt + " " + source_fullpath exitcode, outputs = self.executeCommand(cmd, timeout...	def createDir(self, source, opt = "", tout = None): """ _createDir_ """ exitcode = -1 outputs = "" ll = source.getLynk() source_fullpath = ll.split("file://",1)[1] if self.checkExists(source, opt) is False: cmd = "/bin/mkdir -m 775 -p " + opt + " " + source_fullpath exitcode, outputs = self.executeCommand(cmd, timeout...	455,321
def generateJobConfig(self, jobSpecNode): """ _generateJobConfig_	def generateJobConfig(self, jobSpecNode): """ _generateJobConfig_	455,322
def collectionJdlFile ( self, task, requirements='' ): """ build a collection jdl easy to be handled by the wmproxy API interface and gives back the list of input files for a better handling """ # general part for task jdl = "[\n" jdl += 'Type = "collection";\n'	def collectionJdlFile ( self, task, requirements='' ): """ build a collection jdl easy to be handled by the wmproxy API interface and gives back the list of input files for a better handling """ # general part for task jdl = "[\n" jdl += 'Type = "collection";\n'	455,323
def query(self, obj, service='', objType='node'): """ query status of jobs """	def query(self, obj, service='', objType='node'): """ query status of jobs """	455,324
def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	455,325
def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	455,326
def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	455,327
def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	def executeCommand(self, command, timeout=None , stderr=False): """ _executeCommand_	455,328
def __init__(self): # call super super(BossliteJsonDecoder, self).__init__() # cache pattern to optimize reg-exp substitution self.pattern1 = re.compile('\{,[\s]([a-zA-Z0-9_\-\+\=])') self.pattern2 = re.compile(':[\s]([a-zA-Z_\-\+\=])') self.pattern3 = re.compile( '[\s]([a-zA-Z0-9_\-\+\=]),[\s]([a-zA-Z0-9_\-\+\=]...	def __init__(self): # call super super(BossliteJsonDecoder, self).__init__() # cache pattern to optimize reg-exp substitution self.pattern1 = re.compile('([^ \t\n\r\f\v\{\}]+)\s') self.pattern2 = re.compile(':"(["\|\{])') self.pattern3 = re.compile('"[\s]*"')	455,329
def decodeSubmit(self, jsonString): """ specialized method to decode JSON output of glite-wms-job-submit """ # pre-processing the string before decoding toParse = jsonString.replace( '\n' , ',' ) toParse = self.pattern1.sub(r'{ "\1', toParse[:-1] ) toParse = self.pattern2.sub(r'":"\1', toParse ) toParse = self.pattern...	def decodeSubmit(self, jsonString): """ specialized method to decode JSON output of glite-wms-job-submit """ # pre-processing the string before decoding toParse = jsonString.replace( '\n' , ' ' ) toParse = self.pattern1.sub(r'"\1"', toParse ) toParse = self.pattern2.sub(r'":\1', toParse ) toParse = self.pattern3.sub(r...	455,330
def decodeSubmit(self, jsonString): """ specialized method to decode JSON output of glite-wms-job-submit """ # pre-processing the string before decoding toParse = jsonString.replace( '\n' , ',' ) toParse = self.pattern1.sub(r'{ "\1', toParse[:-1] ) toParse = self.pattern2.sub(r'":"\1', toParse ) toParse = self.pattern...	def decodeSubmit(self, jsonString): """ specialized method to decode JSON output of glite-wms-job-submit """ # pre-processing the string before decoding toParse = jsonString.replace( '\n' , ',' ) toParse = self.pattern1.sub(r'{ "\1', toParse[:-1] ) toParse = self.pattern2.sub(r'":"\1', toParse ) toParse = self.pattern...	455,331
def __init__( self, **args):	def __init__( self, **args):	455,332
def __init__( self, **args):	def __init__( self, **args):	455,333
def queryLocal(self, schedIdList, objType='node' ) :	def queryLocal(self, schedIdList, objType='node' ) :	455,334
def queryLocal(self, schedIdList, objType='node' ) :	def queryLocal(self, schedIdList, objType='node' ) :	455,335
def kill( self, obj ): """ kill the job instance	def kill( self, obj ): """ kill the job instance	455,336
def modify(self, query): """ execute a query which does not return such as insert/update/delete """	def modify(self, query): """ execute a query which does not return such as insert/update/delete """	455,337
def __init__(self): super(ProtocolLcgUtils, self).__init__() self.options = " --verbose " self.options += " --vo=cms " env = '' source = self.expandEnv('RUNTIME_AREA', '/CacheEnv.sh') if os.path.isfile(str(source).strip()): env = str(source) vars = {\ 'OSG_GRID': '/setup.sh', \ 'GLITE_WMS_LOCATION': '/etc/profile.d/g...	def __init__(self): super(ProtocolLcgUtils, self).__init__() self.options = " --verbose " self.options += " --vo=cms " env = '' source = self.expandEnv('RUNTIME_AREA', '/CacheEnv.sh') if os.path.isfile(str(source).strip()): env = str(source) vars = {\ 'OSG_GRID': '/setup.sh', \ 'GLITE_WMS_LOCATION': '/etc/profile.d/g...	455,338
def __init__( self, args): # call super class init method super(SchedulerGLite, self).__init__(args) # some initializations self.warnings = [] # typical options self.vo = args.get( "vo", "cms" ) self.service = args.get( "service", "" ) self.config = args.get( "config", "" ) self.delegationId = args.get( "proxyna...	def self.killThreshold = 100 __init__( self.killThreshold = 100 self, self.killThreshold = 100 **args): self.killThreshold = 100 self.killThreshold = 100 # self.killThreshold = 100 call self.killThreshold = 100 super self.killThreshold = 100 class self.killThreshold = 100 init self.killThreshold = 10...	455,339