def branchClearingUnitTest(G, N, L,K, liid, threshold, foldername = "",branchingDepth= 20):
dummyParameters = logging.parameterObj()
dummyParameters.defaultFolder = foldername
dummyParameters.brachingDepth = branchingDepth
dummyParameters.K, dummyParameters.liid, dummyParameters.threshold = K, liid, threshold
dummyParameters.G, dummyParameters.N, dummyParameters.L = G, N, L
motherGen, reads, noisyReads = logging.rawDataLoad(foldername+"UnitTest",G,N,L, "dn")
returnfmapping= logging.fmappingLoad(foldername+'clusteredGroup.csv')
G1,startList, fmapping = graphForm.getSeqGraph(returnfmapping,noisyReads, dummyParameters)
#checkCondensingBasic(G1, startList, "simple")
returnfmapping, G1= branchClear.clearResidual(returnfmapping,G1,dummyParameters)
G2 = G1
graphForm.debugSeqGraph(G2)
#G2 = G1
checkCondensingBasic2(G2, [G2[0]], "simple")
def branchClearingUnitTest(G,
N,
L,
K,
liid,
threshold,
foldername="",
branchingDepth=20):
dummyParameters = logging.parameterObj()
dummyParameters.defaultFolder = foldername
dummyParameters.brachingDepth = branchingDepth
dummyParameters.K, dummyParameters.liid, dummyParameters.threshold = K, liid, threshold
dummyParameters.G, dummyParameters.N, dummyParameters.L = G, N, L
motherGen, reads, noisyReads = logging.rawDataLoad(foldername + "UnitTest",
G, N, L, "dn")
returnfmapping = logging.fmappingLoad(foldername + 'clusteredGroup.csv')
G1, startList, fmapping = graphForm.getSeqGraph(returnfmapping, noisyReads,
dummyParameters)
#checkCondensingBasic(G1, startList, "simple")
returnfmapping, G1 = branchClear.clearResidual(returnfmapping, G1,
dummyParameters)
G2 = G1
graphForm.debugSeqGraph(G2)
#G2 = G1
checkCondensingBasic2(G2, [G2[0]], "simple")
def graphFormUnitTest2(N, G, L, folderName = ""):
dummyParameters = logging.parameterObj()
dummyParameters.defaultFolder = folderName
returnfmapping= logging.fmappingLoad(dummyParameters.defaultFolder+'clusteredGroup.csv')
dummyParameters.N, dummyParameters.G, dummyParameters.L, dummyParameters.p, typeOfGen, detail = N, G, L, 0.015, 'm', "500-200-50"
motherGen, reads, noisyReads = logging.rawDataLoad(dummyParameters.defaultFolder+"UnitTest",dummyParameters.G,dummyParameters.N,dummyParameters.L, "dn")
G1,startList,fmapping = graphForm.getSeqGraph(returnfmapping,noisyReads, dummyParameters )
def graphFormUnitTest2(N, G, L, folderName=""):
dummyParameters = logging.parameterObj()
dummyParameters.defaultFolder = folderName
returnfmapping = logging.fmappingLoad(dummyParameters.defaultFolder +
'clusteredGroup.csv')
dummyParameters.N, dummyParameters.G, dummyParameters.L, dummyParameters.p, typeOfGen, detail = N, G, L, 0.015, 'm', "500-200-50"
motherGen, reads, noisyReads = logging.rawDataLoad(
dummyParameters.defaultFolder + "UnitTest", dummyParameters.G,
dummyParameters.N, dummyParameters.L, "dn")
G1, startList, fmapping = graphForm.getSeqGraph(returnfmapping, noisyReads,
dummyParameters)
