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1 '''
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2 Created on 14 avr. 2009
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3
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4 @author: oinizan
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5 '''
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6 import re
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7 from commons.core.checker.IChecker import IChecker
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8 from commons.core.checker.OldConfigChecker import ConfigChecker
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9 from commons.core.checker.ConfigException import ConfigException
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10 from commons.core.checker.CheckerException import CheckerException
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11
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12 class DetectFeatureConfigChecker (IChecker):
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13 '''
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14 classdocs
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15 '''
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16 def __init__(self):
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17 '''
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18 Constructor
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19 '''
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20 self._dict = {"te_hmmer" : "",
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21 "te_blrn" : ""
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22 }
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23 self._specifiqueDict = {"te_hmmer_evalue" : "",
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24 "te_hmm_profiles" : ""
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25 }
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26
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27 def _appendMessageToConfigExceptionMessage(self, messages):
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28 appendedMessages = []
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29 for msg in messages:
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30 if (re.match("\[detect_features\] - No option 'te_hmm_profiles' in section: 'detect_features'", msg)):
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31 appendedMessages.append(msg + " whereas te_hmmer is set")
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32
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33 if (re.match("\[detect_features\] - No option 'te_hmmer_evalue' in section: 'detect_features'", msg)):
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34 appendedMessages.append(msg + " whereas te_hmmer is set - Default value will be set")
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35
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36 return appendedMessages
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37
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38
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39 def check(self, configFile):
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40 chk = ConfigChecker("detect_features", self._dict)
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41 try :
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42 chk.check(configFile)
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43 except ConfigException, e :
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44 raise e
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45
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46 if self._dict["te_hmmer"] == "yes":
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47 isErrorOccured = False
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48 try:
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49 chk = ConfigChecker("detect_features", self._specifiqueDict)
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50 chk.check(configFile)
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51 except ConfigException, e:
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52 appendedMessages = self._appendMessageToConfigExceptionMessage(e.messages)
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53 raise ConfigException("", appendedMessages)
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54
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55
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56 if __name__ == "__main__":
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57 pass
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