Removed dead configuration options.

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@261 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

extras/config.example

@@ -97,9 +97,6 @@ flankclipsize = 6
 # These settings are used by the Scheduler module.
 #
 
-# Name of the batch process.
-processName = "MutalyzerBatch2"
-
 # Return e-mail address.
 mailFrom = "noreply@humgen.nl"
 
@@ -146,12 +143,6 @@ threshold = 0.05
 # These settings are used by the GenRecord module.
 #
 
-# Number of upstream nucleotides when searching for a transcript.
-upstream = 5000
-
-# Number of downstream nucleotides when searching for a transcript.
-downstream = 2000
-
 spliceAlarm = 2
 
 spliceWarn = 5

mutalyzer/config.py

@@ -111,7 +111,6 @@ class Config():
             self.Mutator.flankclipsize = int(config["flankclipsize"])
 
             # Set the variables needed by the Scheduler module.
-            self.Scheduler.processName = config["processName"]
             self.Scheduler.mailFrom = config["mailFrom"]
             self.Scheduler.mailSubject = config["mailSubject"]
             self.Scheduler.resultsDir = config["resultsDir"]
@@ -133,8 +132,6 @@ class Config():
             self.GBparser.email = config["email"]
 
             # Set the variables needed by the File module.
-            #self.File.upstream = int(config["upstream"])
-            #self.File.downstream = int(config["downstream"])
             self.GenRecord.spliceAlarm = int(config["spliceAlarm"])
             self.GenRecord.spliceWarn = int(config["spliceWarn"])