#spec file to run Celera 8.3 on corrected reads 

gridEngineJobID = JOB_ID
ovlRefBlockLength = 100000000000
utgErrorLimit = 6.5
gridEngineNameOption = -cwd -N
ovlHashBlockLength = 1000000000
gridEngineHoldOption = -hold_jid "WAIT_TAG"
unitigger = bogart
utgErrorRate = 0.25
gridOptionsOverlap = -pe threads 16 -l mem=2GB
utgGraphErrorRate = 0.05
gridEngineSyncOption = -sync y
gridEngineArrayOption = -t ARRAY_JOBS
useGrid = 0
gridOptionsConsensus = -pe threads 16
gridOptionsScript = -pe threads 1
gridEngineOutputOption = -j y -o
frgMinLen = 200
ovlErrorRate = 0.25
gridEnginePropagateCommand = qalter -hold_jid "WAIT_TAG"
gridEngineArraySubmitID = $TASK_ID
gridEngineTaskID = SGE_TASK_ID
cnsMinFrags = 1000
cgwErrorRate = 0.25
gridEngineNameToJobIDCommand = 
doOverlapBasedTrimming = 0
gridEngineArrayName = ARRAY_NAME
ovlStoreMemory = 32000
merylThreads = 24
utgMergeErrorRate = 0.05
utgGraphErrorLimit = 0
cnsErrorRate = 0.25
doFragmentCorrection = 1
shell = /bin/bash
ovlRefBlockSize = 0
ovlHashLoad = 0.80
scriptOnGrid = 0
gridEngineSubmitCommand = qsub
gridOptions = 
merSize = 14
ovlHashBits = 24
doUnitigSplitting = 0
utgMergeErrorLimit = 0
merylMemory = 32000
ovlThreads = 24
ovlConcurrency = 1