def __init__( self, delimiter='\t', comment='#' ):
FlatFileParser.__init__( self, delimiter, comment )
requiredHeaders = {"bNumber":"Name", "gene":"gene", "function":"function"}
optionalHeaders = {}
self.addRequiredHeaders( requiredHeaders )
self.addOptionalHeaders( optionalHeaders )
def __init__( self, delimiter='\t', comment='#' ):
FlatFileParser.__init__( self, delimiter, comment )
requiredHeaders = {"Abbreviation":"Name", "OfficialName":"OfficialName", "Equation":"Equation"}
optionalHeaders = {}
self.addRequiredHeaders( requiredHeaders )
self.addOptionalHeaders( optionalHeaders )
def __init__(self,delimiter='\t',comment='#'):
FlatFileParser.__init__( self, delimiter, comment )
requiredHeaders = {"Abbreviation":"Name", "OfficialName":"OfficialName"}
optionalHeaders = {"concentration":"concentration","lower":"lower","upper":"upper","compartment":"compartment"}
self.addRequiredHeaders( requiredHeaders )
self.addOptionalHeaders( optionalHeaders )
def __init__( self, delimiter='\t',comment="#"):
FlatFileParser.__init__( self, delimiter, comment )
requiredHeaders = {"Flux":"Name", "Coefficient":"Coefficient"}
optionalHeaders = {}
self.addRequiredHeaders( requiredHeaders )
self.addOptionalHeaders( optionalHeaders )
def __init__( self, delimiter='\t', comment='#' ):
FlatFileParser.__init__( self, delimiter, comment )
self.reactionParser = ReactionParser()
requiredHeaders = {
"Abbreviation":"name",
"Equation":"equation",
"Lower Bound":"lowerBound",
"Upper Bound":"upperBound"
}
optionalHeaders = {"objective":"objective"}
self.addRequiredHeaders( requiredHeaders )
self.addOptionalHeaders( optionalHeaders )
self.setObjectiveTag( "objective function" )
def __init__( self, delimiter='\t', comment='#' ):
FlatFileParser.__init__( self, delimiter, comment )
self.setHeader( ["Flux", "Coefficient"] )
def __init__( self, delimiter='\t', comment='#' ):
FlatFileParser.__init__( self, delimiter, comment )
self.setHeader( ["Flux", "Lower", "Upper"] )
self.noLimit = ['None']
self.posInf = 1e3
self.negInf = -1e3
