def main():
usage = ( '%prog --file=file.txt --mode=[scaffPaths|contigs|contigPaths|blocks|contamination] [options]\n\n'
'%prog takes an aggregate text file ( --file ) and a mode \n'
'( --mode ) and then produces a pretty picture.' )
data = Data()
parser = OptionParser( usage=usage )
initOptions( parser )
lpt.initOptions( parser )
options, args = parser.parse_args()
checkOptions( options, parser )
lpt.checkOptions( options, parser )
fig, pdf = lpt.initImage( 8.0, 10.0, options, data )
axDict = establishAxes( fig, options, data )
data.valuesDict = readFile( options.file, options )
data.xData = data.valuesDict['columnLength']
if options.mode != 'contamination':
data.valuesDict = normalizeDataNormalMode( data.valuesDict, options, data )
else:
normalizeDataContaminationMode( options, data )
setAxisLimits( axDict['main'], axDict['crazy'],
axDict['blowUp'], data.xData,
options, data )
drawData( axDict['main'], axDict['crazy'],
axDict['blowUp'], data.xData, data.valuesDict, options, data )
drawLegend( options, data )
drawAxisLabels( fig, options, data )
setAxisLimits( axDict['main'], axDict['crazy'],
axDict['blowUp'], data.xData,
options, data )
establishTicks( axDict['main'], axDict['crazy'],
axDict['blowUp'], options, data )
lpt.writeImage( fig, pdf, options )
def main():
usage = (
'%prog --file=file.txt --mode=[scaffPaths|contigs|contigPaths|blocks|contamination] [options]\n\n'
'%prog takes an aggregate text file ( --file ) and a mode \n'
'( --mode ) and then produces a pretty picture.')
data = Data()
parser = OptionParser(usage=usage)
initOptions(parser)
lpt.initOptions(parser)
options, args = parser.parse_args()
checkOptions(options, parser)
lpt.checkOptions(options, parser)
fig, pdf = lpt.initImage(8.0, 10.0, options, data)
axDict = establishAxes(fig, options, data)
data.valuesDict = readFile(options.file, options)
data.xData = data.valuesDict['columnLength']
if options.mode != 'contamination':
data.valuesDict = normalizeDataNormalMode(data.valuesDict, options,
data)
else:
normalizeDataContaminationMode(options, data)
setAxisLimits(axDict['main'], axDict['crazy'], axDict['blowUp'],
data.xData, options, data)
drawData(axDict['main'], axDict['crazy'], axDict['blowUp'], data.xData,
data.valuesDict, options, data)
drawLegend(options, data)
drawAxisLabels(fig, options, data)
setAxisLimits(axDict['main'], axDict['crazy'], axDict['blowUp'],
data.xData, options, data)
establishTicks(axDict['main'], axDict['crazy'], axDict['blowUp'], options,
data)
lpt.writeImage(fig, pdf, options)
