def contigWorker((contigsFilePath, minMatchLen)):
#get contig map for the passed contigs
refContigsNameLen, queryContigsNameLen, refAdjList, queryAdjList\
= contigsCoordsConv.parseContigFileNGetMapInfo(contigsFilePath,\
minMatchLen)
#try to plot cross minimize ordering
contigsCoordsConv.plotCrossMinimizedOrdering(refAdjList, queryAdjList,\
minMatchLen)
return True
def main():
if len(sys.argv) >= 4:
#contigMapFile
contigMapFilePath = os.path.abspath(sys.argv[1])
#min match length
minMatchLen = int(sys.argv[2])
#plot outputfile
plotOutFilePath = os.path.abspath(sys.argv[3])
#get scaff map for the passed sequences
contigMap = contigsCoordsConv.parseContigFileNGetMapInfo(contigMapFilePath)
#generate plot for scaff map
scaffMapPlotter.generatePlot(contigMap, minMatchLen, plotOutFilePath)
else:
print 'err: files missin'
