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paus |
1.2 |
#!/usr/bin/env python
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#---------------------------------------------------------------------------------------------------
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# Script to go through my crab jobs, get status and output and take some completion action if
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# needed and desired.
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#
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# Author: C.Paus (July 1, 2008)
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#---------------------------------------------------------------------------------------------------
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import os,sys,getopt,re,string
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import task
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def removeCrabTask(crabTask):
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cmd = 'crab -kill all -continue ' + crabTask.tag + ' >& /dev/null; rm -rf ' + crabTask.tag
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print ' KILL and REMOVE task: ' + cmd
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status = os.system(cmd)
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return status
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def updateExitStati(tag,status):
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# Make the file
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file = tag + '/res/CMSSW_%d.stdout'%(status.index)
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#print ' Analyzing file: ' + file
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cmd = 'cat ' + file
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if os.path.exists(file):
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for line in os.popen(cmd).readlines(): # run command
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line = line[:-1]
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# get ride of empty or commented lines
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if line == '' or line[0] == '#':
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continue
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# no more unnecessary spaces
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line = " ".join(str(line).split()).strip()
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f = line.split(" ")
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if f[0] == 'EXECUTABLE_EXIT_STATUS':
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status.exitCode = int(f[2])
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if f[0] == 'StageOutExitStatus':
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status.exitStatus = int(f[2])
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#else:
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# print ' output file for this job not yet retrieved. '
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def appendBlacklistSites(tag,failedlist,blacklist,exe):
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# Make the file
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file = tag + '/share/crab.cfg'
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# Find out whether there are any ce black listed
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ceBlacklist = ""
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# Get the original black list
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cmd = 'cat ' + file
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# finding the one line
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join = 0
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fullLine = ""
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bSlash = "\\";
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# New Configuration file
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fileOutput = open(tag + '_crab.cfg','w')
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for line in os.popen(cmd).readlines(): # run command
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line = line[:-1]
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##print 'Line: ' + line
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# get ride of empty or commented lines
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if line == '' or line[0] == '#':
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continue
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# no more unnecessary spaces
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line = " ".join(str(line).split()).strip()
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# join lines
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if join == 1:
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fullLine += line
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else:
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fullLine = line
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# determine if finished or more is coming
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if fullLine[-1] == bSlash:
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join = 1
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fullLine = fullLine[:-1]
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# line really ended, so now look at the whole thing
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else:
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join = 0
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# test whether there is a directory
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names = fullLine.split('=') # splitting every blank
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##print "FullLine: " + fullLine
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if names[0] == 'ce_black_list':
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ceBlacklist = fullLine
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fullLine += ',' + failedlist
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if blacklist != "":
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fullLine = "ce_black_list=" + blacklist
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print " new blacklist: " + fullLine
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fileOutput.write(fullLine + '\n')
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fileOutput.close()
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if ceBlacklist == '':
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print ' WARNING - site blacklisting did not work'
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cmd = 'mv ' + tag + '_crab.cfg ' + file
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print "\nACTION -- MOVE: " + cmd
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status = 0
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if exe == 1:
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status = os.system(cmd)
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else:
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##status = os.system('cat ' + tag + '_crab.cfg')
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status = os.system('rm ' + tag + '_crab.cfg')
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return status
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def removeJobRemainders(storageEle,storagePath,mitDataset,index,exe):
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fileMit = 'srm://' + storageEle + ':8443' + storagePath + '/' + mitDataset + \
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'_000_%d'%(index) + '.root'
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fileEdm = 'srm://' + storageEle + ':8443' + storagePath + '/' + mitDataset + \
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'-edm_%d'%(index) + '.root'
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cmd = 'srmrm ' + fileMit + ' ' + fileEdm + ' >& /dev/null'
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#print 'ACTION -- REMOVE: \n srmrm ' + fileMit + '\n srmrm ' + fileEdm + '\n'
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status = 0
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if exe == 1:
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# for now not execute this # status = os.system(cmd)
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print 'For now not removing file: ' + cmd
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return status
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#===================================================================================================
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# Main starts here
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#===================================================================================================
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# Define string to explain usage of the script
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usage = \
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paus |
1.8 |
"\nUsage: jobSitter.py [ --pattern= --apattern= --blacklist=" \
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+ " --status --kill --remove --help --backward --clean --extend --one" \
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+ " --exe ]\n"
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paus |
1.2 |
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# Define the valid options which can be specified and check out the command line
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paus |
1.8 |
valid = ['pattern=','apattern=','blacklist=','catalog=',
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'help','backward','kill','remove','clean','exe','extend','one']
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paus |
1.2 |
try:
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opts, args = getopt.getopt(sys.argv[1:], "", valid)
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except getopt.GetoptError, ex:
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print usage
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print str(ex)
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sys.exit(1)
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# --------------------------------------------------------------------------------------------------
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# Get all parameters for this little task
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# --------------------------------------------------------------------------------------------------
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# Set defaults
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pattern = ''
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paus |
1.8 |
apattern = ''
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paus |
1.2 |
blacklist = ''
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catalog = 0
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clean = 0
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kill = 0
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paus |
1.8 |
remove = 0
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paus |
1.2 |
exe = 0
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extend = 0
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one = 0
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backward = ''
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# Read new values from the command line
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for opt, arg in opts:
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if opt == "--help":
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print usage
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sys.exit(0)
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if opt == "--pattern":
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pattern = arg
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paus |
1.8 |
if opt == "--apattern":
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apattern = arg
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paus |
1.2 |
if opt == "--blacklist":
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blacklist = arg
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if opt == "--catalog":
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catalog = int(arg)
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if opt == "--clean":
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clean = 1
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if opt == "--one":
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one = 1
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if opt == "--exe":
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exe = 1
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if opt == "--extend":
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extend = 1
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if opt == "--backward":
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backward = ' -r '
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if opt == "--kill":
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kill = 1
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paus |
1.8 |
if opt == "--remove":
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remove = 1
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paus |
1.2 |
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# --------------------------------------------------------------------------------------------------
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# Here is where the real action starts -------------------------------------------------------------
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# --------------------------------------------------------------------------------------------------
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# Find the list of crab tasks to babysit
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crabTasks = []
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datasetList = []
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cmd = 'find ./ -maxdepth 1 -name crab_0_\* |grep -v cfg | sort' + backward
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print '\n=============================================================================='
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print ' Summary of crab task list: \n'
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for line in os.popen(cmd).readlines(): # run command
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line = line[:-1] # strip '\n'
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## print ' LINE: ' + line
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f = line.split('/') # splitting every blank
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tag = f.pop()
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crabTask = task.Task(tag)
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#print 'Pattern: ' + pattern + ' tag: ' + crabTask.mitDataset
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paus |
1.8 |
if apattern != '' and re.search(apattern,crabTask.mitDataset):
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print '\n Skipping: ' + crabTask.mitDataset + '\n\n'
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paus |
1.2 |
if re.search(pattern,crabTask.mitDataset):
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crabTasks.append(crabTask)
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crabTask.show()
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if one == 1:
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break
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# Process the crab tasks determined to be relevant in the last query
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print '\n=============================================================================='
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paus |
1.7 |
print ' Process crab task list\n'
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paus |
1.2 |
i = 0
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for crabTask in crabTasks:
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paus |
1.5 |
print '\n------------------------------------------------------------------------------'
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print ' --> PREPPING ' + crabTask.tag \
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paus |
1.9 |
+ '\n -> ' + crabTask.cmsDataset + ' (' + crabTask.mitDataset + ')'\
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+ '\n -> ' + crabTask.storageEle \
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+ '\n -> ' + crabTask.storagePath
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paus |
1.5 |
print '------------------------------------------------------------------------------\n'
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paus |
1.2 |
dataset = crabTask.cmsDataset
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storageEle = crabTask.storageEle
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storagePath = crabTask.storagePath
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paus |
1.10 |
if True:
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f = storagePath.split("=")
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path1 = f[1]
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path0 = "/".join(path1.split("/")[:-1])
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cmd = ' glexec chmod a+w ' + path0 + ' ' + path1
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paus |
1.11 |
#print ' Updating permissions - ' + cmd
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paus |
1.10 |
status = os.system(cmd)
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paus |
1.2 |
if kill == 1:
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crabTask.killAndRemove(1)
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continue
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paus |
1.8 |
if remove == 1:
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crabTask.remove(1)
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continue
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paus |
1.11 |
crabTask.loadAllLfns('lfns/' + crabTask.mitDataset + '.lfns')
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paus |
1.2 |
#if crabTask.status == 'cataloged':
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# ##removeCrabTask(crabTask)
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# crabTask.killAndRemove(1)
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# continue
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# make sure catalog is up to date
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f = storagePath.split(" ")
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cmd = 'catalog.sh -ceg -m ' + crabTask.mitCfg + ' ' \
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+ crabTask.mitVersion + ' ' + crabTask.mitDataset + '/' + crabTask.tag + ' --retry'
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if catalog == 3:
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cmd = 'catalog.sh -cegt -m ' + crabTask.mitCfg + ' ' + crabTask.mitVersion + \
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' ' + crabTask.mitDataset + '/' + crabTask.tag + ' --retry'
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if catalog == 4:
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cmd = 'catalog.sh -eg -m ' + crabTask.mitCfg + ' ' + crabTask.mitVersion + \
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' ' + crabTask.mitDataset + '/' + crabTask.tag + ' --retry'
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if catalog == 5:
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cmd = 'catalog.sh -ceg -m ' + crabTask.mitCfg + ' ' + crabTask.mitVersion + \
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' ' + crabTask.mitDataset + '/' + crabTask.tag + ' --remove'
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paus |
1.3 |
if catalog == 6:
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cmd = 'catalog.sh -e -m ' + crabTask.mitCfg + ' ' + crabTask.mitVersion + \
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' ' + crabTask.mitDataset + '/' + crabTask.tag + ' --compact'
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if catalog == 7:
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cmd = 'catalog.sh -g -m ' + crabTask.mitCfg + ' ' + crabTask.mitVersion + \
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' ' + crabTask.mitDataset + '/' + crabTask.tag + ' --compact'
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paus |
1.4 |
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paus |
1.9 |
#print '\n --> CATALOG '
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#print ' ' + cmd + '\n'
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paus |
1.2 |
if catalog != 0:
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os.system(cmd)
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# break out of the loop as only cataloging is required
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if catalog > 1:
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continue
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| 278 |
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# do we need to extend the task
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if extend == 1:
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paus |
1.4 |
cmd = 'crab -extend -c ' + crabTask.tag
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paus |
1.2 |
print '\n------------------------------------------------------------------------------'
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| 282 |
paus |
1.7 |
print ' --> EXTEND ' + crabTask.tag + ' -- ' \
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| 283 |
paus |
1.2 |
+ '\n -> ' + dataset + ' (' + crabTask.mitDataset + ')'\
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| 284 |
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+ '\n -> ' + storageEle \
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+ '\n -> ' + storagePath
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| 286 |
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print '------------------------------------------------------------------------------\n'
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| 287 |
paus |
1.4 |
print ' --> ' + cmd
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| 288 |
paus |
1.2 |
os.system(cmd)
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paus |
1.9 |
#print '\n------------------------------------------------------------------------------'
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| 291 |
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#print ' --> STATUS ' + crabTask.tag + ' -- ' \
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| 292 |
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# + '\n -> ' + dataset + ' (' + crabTask.mitDataset + ')'\
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| 293 |
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# + '\n -> ' + storageEle \
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| 294 |
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# + '\n -> ' + storagePath
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#print '------------------------------------------------------------------------------\n'
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print '\n --> STATUS ' + crabTask.tag + ' -- ' + crabTask.mitDataset
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paus |
1.2 |
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| 298 |
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# interact with crab to get the job status
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| 299 |
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crabTask.getJobStati()
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| 300 |
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if len(crabTask.jobStati) < 1:
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| 301 |
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print ' ERROR - dropped empty crab task from the work list.'
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| 302 |
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print ' crab task id: ' + crabTask.tag
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| 303 |
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continue
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| 304 |
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else:
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| 305 |
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print ' '
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| 306 |
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print ' Task status: ' + crabTask.status
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| 307 |
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if crabTask.status == 'completed' or crabTask.status == 'finished':
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| 308 |
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crabTask.remove(clean)
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| 309 |
paus |
1.5 |
print ' INFO - crab task has been removed, continuing.\n'
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| 310 |
paus |
1.4 |
continue
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| 311 |
paus |
1.2 |
print ' '
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| 312 |
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| 313 |
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# review failing sites
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| 314 |
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siteList = ""
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| 315 |
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if len(crabTask.failingSites) > 0:
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| 316 |
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nSites = 0
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| 317 |
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siteList = ",".join(crabTask.failingSites)
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| 318 |
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print " Failing sites (consider blacklisting them)"
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| 319 |
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for site,nAbort in crabTask.failingSites.iteritems():
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| 320 |
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nSites += 1
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| 321 |
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print ' ' + site + '(%d'%nAbort + ')'
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| 322 |
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appendBlacklistSites(crabTask.tag,siteList,blacklist,exe)
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| 323 |
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| 324 |
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# review all job stati and update exit stati if needed
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| 325 |
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for status in crabTask.jobStati:
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| 326 |
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if status.tag == 'Retrieved' and (status.exitCode < 0 and status.exitStatus < 0):
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| 327 |
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updateExitStati(crabTask.tag,status)
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| 328 |
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#status.showCompact()
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| 329 |
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| 330 |
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|
# review all job stati and propose action
|
| 331 |
|
|
subList = ''
|
| 332 |
|
|
resubList = ''
|
| 333 |
|
|
for status in crabTask.jobStati:
|
| 334 |
|
|
##print ' %4.0d '%(status.index) + ' --> ' + status.tag
|
| 335 |
|
|
if ((status.tag == 'Created' and status.outputFile == 0)):
|
| 336 |
|
|
status.showCompact()
|
| 337 |
|
|
if subList == '':
|
| 338 |
|
|
subList += '%d'%(status.index)
|
| 339 |
|
|
else:
|
| 340 |
|
|
subList += ',%d'%(status.index)
|
| 341 |
paus |
1.5 |
if ((status.tag == 'Aborted' or status.exitCode > 0 or status.exitStatus > 0)):
|
| 342 |
|
|
##or(status.tag == 'Retrieved' and status.outputFile == 0)):
|
| 343 |
paus |
1.2 |
status.showCompact()
|
| 344 |
|
|
if resubList == '':
|
| 345 |
|
|
resubList += '%d'%(status.index)
|
| 346 |
|
|
else:
|
| 347 |
|
|
resubList += ',%d'%(status.index)
|
| 348 |
|
|
# for failed job first remove remainders before resubmitting
|
| 349 |
|
|
if status.outputFile == 1:
|
| 350 |
|
|
removeJobRemainders(storageEle,storagePath,crabTask.mitDataset,status.index,exe)
|
| 351 |
|
|
|
| 352 |
|
|
if subList != '':
|
| 353 |
|
|
if not re.search('-',subList) and not re.search(',',subList):
|
| 354 |
|
|
subList = subList + ',999999999'
|
| 355 |
|
|
cmd = 'crab -c ' + crabTask.tag + ' -submit ' + subList
|
| 356 |
paus |
1.5 |
##print '\nACTION -- SUBMIT.PY: ' + cmd
|
| 357 |
|
|
##if exe == 1:
|
| 358 |
|
|
## status = os.system(cmd)
|
| 359 |
paus |
1.2 |
if resubList != '':
|
| 360 |
|
|
cmd = 'crab -c ' + crabTask.tag + ' -resubmit ' + resubList
|
| 361 |
paus |
1.5 |
##print '\nACTION -- RE-SUBMIT.PY: ' + cmd
|
| 362 |
|
|
##if exe == 1:
|
| 363 |
|
|
## status = os.system(cmd)
|
| 364 |
paus |
1.2 |
|
| 365 |
|
|
|
| 366 |
paus |
1.4 |
cmd = 'crab -getoutput -continue ' + crabTask.tag
|
| 367 |
paus |
1.9 |
#print '\n------------------------------------------------------------------------------'
|
| 368 |
|
|
#print ' --> GETOUTPUT ' + crabTask.tag + ' -- ' \
|
| 369 |
|
|
# + '\n -> ' + dataset \
|
| 370 |
|
|
# + '\n -> ' + storageEle \
|
| 371 |
|
|
# + '\n -> ' + storagePath
|
| 372 |
|
|
#print '------------------------------------------------------------------------------\n'
|
| 373 |
|
|
print '\n --> GETOUTPUT ' + crabTask.tag + ' -- ' + crabTask.mitDataset
|
| 374 |
paus |
1.4 |
print ' --> ' + cmd
|
| 375 |
paus |
1.2 |
status = os.system(cmd)
|
| 376 |
|
|
|
| 377 |
|
|
cmd = 'cleanupLog.py --crabId ' + crabTask.tag
|
| 378 |
|
|
status = os.system(cmd)
|
| 379 |
|
|
|
| 380 |
|
|
i += 1
|
