annotate commons/core/launcher/JobScriptTemplate.py @ 12:5a054da77808

Updated CompareOverlappingSmallRef.xml
author m-zytnicki
date Thu, 14 Mar 2013 05:37:35 -0400
parents 769e306b7933
children 94ab73e8a190
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1 #!/usr/bin/env python
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2
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3 import os
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4 import sys
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5 import time
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6 import shutil
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7 from commons.core.checker.RepetException import RepetException
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8 from commons.core.sql.TableJobAdaptator import TableJobAdaptator
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9 from commons.core.sql.DbFactory import DbFactory
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10 from commons.core.sql.Job import Job
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11
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12 try:
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13 newDir = None
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14 print os.uname()
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15 beginTime = time.time()
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16 print 'beginTime=%f' % beginTime
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17 print "work in dir '@@tmpDir@@'"
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18 sys.stdout.flush()
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19 if not os.path.exists( "@@tmpDir@@" ):
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20 raise IOError("ERROR: temporary directory '@@tmpDir@@' doesn't exist")
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21
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22 minFreeGigaInTmpDir = 1
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23 freeSpace = os.statvfs("@@tmpDir@@")
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24 if ((freeSpace.f_bavail * freeSpace.f_frsize) / 1073741824.0 < minFreeGigaInTmpDir):
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25 raise RepetException("ERROR: less than %iG of input file in '@@tmpDir@@'" % minFreeGigaInTmpDir)
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26
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27 os.chdir("@@tmpDir@@")
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28 newDir = "@@groupId@@_@@jobName@@_@@time@@"
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29 if os.path.exists(newDir):
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30 shutil.rmtree(newDir)
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31 os.mkdir(newDir)
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32 os.chdir(newDir)
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33
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34 iJob = Job(jobname = "@@jobName@@", groupid = "@@groupId@@", launcherFile = "@@launcher@@", node = os.getenv("HOSTNAME"))
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35 iDb = DbFactory.createInstance()
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36 iTJA = TableJobAdaptator(iDb, "@@jobTableName@@")
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37 print "current status: %s" % iTJA.getJobStatus(iJob)
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38 iTJA.changeJobStatus(iJob, "running")
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39 print "updated status: %s" % iTJA.getJobStatus(iJob)
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40 sys.stdout.flush()
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41 iDb.close()
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42
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43 @@cmdStart@@
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44 if log != 0:
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45 raise RepetException("ERROR: job returned %i" % log)
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46 else:
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47 print "job finished successfully"
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48 sys.stdout.flush()
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49 @@cmdFinish@@
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50
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51 os.chdir("..")
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52 shutil.rmtree(newDir)
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53
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54 iDb = DbFactory.createInstance()
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55 iTJA = TableJobAdaptator(iDb, "@@jobTableName@@")
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56 print "current status: %s" % iTJA.getJobStatus(iJob)
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57 iTJA.changeJobStatus(iJob, "finished")
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58 print "updated status: %s" % iTJA.getJobStatus(iJob)
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59 sys.stdout.flush()
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60 iDb.close()
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61
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62 endTime = time.time()
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63 print 'endTime=%f' % endTime
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64 print 'executionTime=%f' % (endTime - beginTime)
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65 print os.uname()
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66 sys.stdout.flush()
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67
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68 except IOError, e :
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69 print e
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70 iJob = Job(jobname = "@@jobName@@", groupid = "@@groupId@@", launcherFile = "@@launcher@@", node = os.getenv("HOSTNAME"))
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71 iDb = DbFactory.createInstance()
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72 iTJA = TableJobAdaptator(iDb, "@@jobTableName@@")
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73 print "current status: %s" % iTJA.getJobStatus(iJob)
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74 iTJA.changeJobStatus(iJob, "error")
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75 print "updated status: %s" % iTJA.getJobStatus(iJob)
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76 sys.stdout.flush()
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77 iDb.close()
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78 sys.exit(1)
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79
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80 except Exception, e :
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81 print "tmpDir is : @@tmpDir@@"
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82 print "cDir is : @@cDir@@"
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83 print e
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84 if newDir != None and os.path.exists("../%s" % newDir) and not os.path.exists("@@cDir@@/%s" % newDir):
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85 os.chdir("..")
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86 shutil.move(newDir, "@@cDir@@/%s" % newDir)
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87 iJob = Job(jobname = "@@jobName@@", groupid = "@@groupId@@", launcherFile = "@@launcher@@", node = os.getenv("HOSTNAME"))
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88 iDb = DbFactory.createInstance()
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89 iTJA = TableJobAdaptator(iDb, "@@jobTableName@@")
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90 print "current status: %s" % iTJA.getJobStatus(iJob)
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91 iTJA.changeJobStatus(iJob, "error")
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92 print "updated status: %s" % iTJA.getJobStatus(iJob)
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93 sys.stdout.flush()
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94 iDb.close()
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95 sys.exit(1)