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EukPhylo/PTL2/Scripts-DEV/guidance.v2.02/programs/semphy/make.dep
Katzlab dd76ab1d12 Added PTL2 Scripts 
These are PTL2 files from Auden 2/9
2023-02-14 11:20:52 -05:00

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approxSemphyDistance.o approxSemphyDistance.debug.o: approxSemphyDistance.cpp \
../../libs/phylogeny/definitions.h approxSemphyDistance.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/readTree.h ../../libs/phylogeny/errorMsg.h \
../../libs/phylogeny/logFile.h ../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/replacementModel.h \
../../libs/phylogeny/distribution.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/fromCountTableComponentToDistance.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/unObservableData.h \
../../libs/phylogeny/sequenceContainer.h ../../libs/phylogeny/sequence.h \
../../libs/phylogeny/alphabet.h ../../libs/phylogeny/mulAlphabet.h \
../../libs/phylogeny/someUtil.h ../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/suffStatComponent.h semphyDistance.h \
../../libs/phylogeny/tree.h ../../libs/phylogeny/sequenceContainer.h \
../../libs/phylogeny/computeCounts.h \
../../libs/phylogeny/suffStatComponent.h ../../libs/phylogeny/treeIt.h \
../../libs/phylogeny/logFile.h
constantSemphyDistance.o constantSemphyDistance.debug.o: constantSemphyDistance.cpp \
constantSemphyDistance.h semphyDistance.h \
../../libs/phylogeny/definitions.h
correctToCanonialForm.o correctToCanonialForm.debug.o: correctToCanonialForm.cpp \
correctToCanonialForm.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/readTree.h \
../../libs/phylogeny/errorMsg.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/logFile.h
minSpanTree.o minSpanTree.debug.o: minSpanTree.cpp minSpanTree.h \
../../libs/phylogeny/definitions.h rearangeTree.h semphyDistance.h \
../../libs/phylogeny/tree.h ../../libs/phylogeny/definitions.h \
../../libs/phylogeny/readTree.h ../../libs/phylogeny/errorMsg.h \
../../libs/phylogeny/logFile.h ../../libs/phylogeny/logFile.h
Multinomial.o Multinomial.debug.o: Multinomial.cpp Multinomial.h
rearangeTree.o rearangeTree.debug.o: rearangeTree.cpp rearangeTree.h semphyDistance.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/readTree.h \
../../libs/phylogeny/errorMsg.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/logFile.h
semphy.o semphy.debug.o: semphy.cpp bootstrapProvider.h ../../libs/phylogeny/bootstrap.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/split.h \
../../libs/phylogeny/splitMap.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/readTree.h ../../libs/phylogeny/errorMsg.h \
../../libs/phylogeny/logFile.h ../../libs/phylogeny/treeUtil.h \
../../libs/phylogeny/definitions.h mainSemphy.h \
../../libs/phylogeny/aaJC.h ../../libs/phylogeny/replacementModel.h \
../../libs/phylogeny/alphabet.h ../../libs/phylogeny/amino.h \
../../libs/phylogeny/alphabet.h ../../libs/phylogeny/geneticCodeHolder.h \
../../libs/phylogeny/codon.h ../../libs/phylogeny/someUtil.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/clustalFormat.h \
../../libs/phylogeny/sequenceContainer.h ../../libs/phylogeny/sequence.h \
../../libs/phylogeny/mulAlphabet.h \
../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/fastaFormat.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/distribution.h ../../libs/phylogeny/hky.h \
../../libs/phylogeny/maseFormat.h ../../libs/phylogeny/molphyFormat.h \
../../libs/phylogeny/nucJC.h ../../libs/phylogeny/nucleotide.h \
../../libs/phylogeny/phylipFormat.h ../../libs/phylogeny/readDatMatrix.h \
../../libs/phylogeny/datMatrixHolder.h \
../../libs/phylogeny/sequenceContainer.h semphy_cmdline.h \
../../libs/phylogeny/stochasticProcess.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/uniDistribution.h \
../../libs/phylogeny/cmdline2EvolObjs.h ../../libs/phylogeny/amino.h \
../../libs/phylogeny/nucleotide.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/uniDistribution.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/alphaTrivialAccelerator.h \
../../libs/phylogeny/readDatMatrix.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/talRandom.h ../../libs/phylogeny/nucJC.h \
../../libs/phylogeny/aaJC.h ../../libs/phylogeny/hky.h \
../../libs/phylogeny/tamura92.h ../../libs/phylogeny/gtrModel.h \
../../libs/phylogeny/fromQtoPt.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/recognizeFormat.h \
../../libs/phylogeny/replacementModelSSRV.h \
../../libs/phylogeny/stochasticProcessSSRV.h \
distanceBasedSeqs2TreeFactory.h \
../../libs/phylogeny/distanceBasedSeqs2Tree.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/likeDist.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/jcDistance.h \
../../libs/phylogeny/unObservableData.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/distances2Tree.h \
../../libs/phylogeny/givenRatesMLDistance.h \
../../libs/phylogeny/posteriorDistance.h \
../../libs/phylogeny/pairwiseGammaDistance.h ../../libs/phylogeny/nj.h \
../../libs/phylogeny/njConstrain.h ../../libs/phylogeny/errorMsg.h
semphyDistance.o semphyDistance.debug.o: semphyDistance.cpp semphyDistance.h \
../../libs/phylogeny/definitions.h
semphySearchBestTree.o semphySearchBestTree.debug.o: semphySearchBestTree.cpp semphySearchBestTree.h \
../../libs/phylogeny/alphabet.h ../../libs/phylogeny/sequenceContainer.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/sequence.h \
../../libs/phylogeny/errorMsg.h ../../libs/phylogeny/alphabet.h \
../../libs/phylogeny/mulAlphabet.h ../../libs/phylogeny/someUtil.h \
../../libs/phylogeny/logFile.h ../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/tree.h ../../libs/phylogeny/readTree.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/replacementModel.h \
../../libs/phylogeny/distribution.h ../../libs/phylogeny/bestAlpha.h \
../../libs/phylogeny/likelihoodComputation.h \
../../libs/phylogeny/computePijComponent.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/sequenceContainer.h \
../../libs/phylogeny/suffStatComponent.h \
../../libs/phylogeny/unObservableData.h \
../../libs/phylogeny/uniDistribution.h ../../libs/phylogeny/aaJC.h \
../../libs/phylogeny/nucJC.h ../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/nucleotide.h ../../libs/phylogeny/amino.h \
../../libs/phylogeny/geneticCodeHolder.h ../../libs/phylogeny/codon.h \
../../libs/phylogeny/phylipFormat.h ../../libs/phylogeny/maseFormat.h \
../../libs/phylogeny/fastaFormat.h \
../../libs/phylogeny/likelihoodComputation.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/seqContainerTreeMap.h ../../libs/phylogeny/treeIt.h \
../../libs/phylogeny/gammaDistribution.h ../../libs/phylogeny/bblEM.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/NNiProp.h ../../libs/phylogeny/NNiSep.h \
../../libs/phylogeny/jcDistance.h ../../libs/phylogeny/distanceMethod.h \
../../libs/phylogeny/distanceTable.h ../../libs/phylogeny/nj.h \
../../libs/phylogeny/njConstrain.h ../../libs/phylogeny/distances2Tree.h \
semphyStep.h ../../libs/phylogeny/suffStatComponent.h semphyDistance.h \
../../libs/phylogeny/definitions.h rearangeTree.h minSpanTree.h \
../../libs/phylogeny/computeUpAlg.h \
../../libs/phylogeny/computeDownAlg.h \
../../libs/phylogeny/computeMarginalAlg.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/getRandomWeights.h ../../libs/phylogeny/treeUtil.h \
../../libs/phylogeny/bestTamura92param.h ../../libs/phylogeny/tamura92.h \
../../libs/phylogeny/bestGtrModelParams.h \
../../libs/phylogeny/gtrModel.h ../../libs/phylogeny/fromQtoPt.h
semphyStep.o semphyStep.debug.o: semphyStep.cpp semphyStep.h \
../../libs/phylogeny/suffStatComponent.h \
../../libs/phylogeny/definitions.h semphyDistance.h \
../../libs/phylogeny/definitions.h rearangeTree.h \
../../libs/phylogeny/tree.h ../../libs/phylogeny/readTree.h \
../../libs/phylogeny/errorMsg.h ../../libs/phylogeny/logFile.h \
minSpanTree.h ../../libs/phylogeny/sequenceContainer.h \
../../libs/phylogeny/sequence.h ../../libs/phylogeny/alphabet.h \
../../libs/phylogeny/mulAlphabet.h ../../libs/phylogeny/someUtil.h \
../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/computePijComponent.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/replacementModel.h \
../../libs/phylogeny/distribution.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/stochasticProcess.h approxSemphyDistance.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/fromCountTableComponentToDistance.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/unObservableData.h \
../../libs/phylogeny/sequenceContainer.h \
../../libs/phylogeny/computePijComponent.h correctToCanonialForm.h \
../../libs/phylogeny/likelihoodComputation.h \
../../libs/phylogeny/suffStatComponent.h \
../../libs/phylogeny/searchStatus.h ../../libs/phylogeny/talRandom.h \
../../libs/phylogeny/computeUpAlg.h \
../../libs/phylogeny/computeDownAlg.h constraints.h \
../../libs/phylogeny/treeIt.h ../../libs/phylogeny/someUtil.h
constraints.o constraints.debug.o: constraints.cpp constraints.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/readTree.h \
../../libs/phylogeny/errorMsg.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/someUtil.h ../../libs/phylogeny/alphabet.h
bootstrapProvider.o bootstrapProvider.debug.o: bootstrapProvider.cpp bootstrapProvider.h \
../../libs/phylogeny/bootstrap.h ../../libs/phylogeny/definitions.h \
../../libs/phylogeny/split.h ../../libs/phylogeny/splitMap.h \
../../libs/phylogeny/tree.h ../../libs/phylogeny/readTree.h \
../../libs/phylogeny/errorMsg.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/treeUtil.h ../../libs/phylogeny/definitions.h \
mainSemphy.h ../../libs/phylogeny/aaJC.h \
../../libs/phylogeny/replacementModel.h ../../libs/phylogeny/alphabet.h \
../../libs/phylogeny/amino.h ../../libs/phylogeny/alphabet.h \
../../libs/phylogeny/geneticCodeHolder.h ../../libs/phylogeny/codon.h \
../../libs/phylogeny/someUtil.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/clustalFormat.h \
../../libs/phylogeny/sequenceContainer.h ../../libs/phylogeny/sequence.h \
../../libs/phylogeny/mulAlphabet.h \
../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/fastaFormat.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/distribution.h ../../libs/phylogeny/hky.h \
../../libs/phylogeny/maseFormat.h ../../libs/phylogeny/molphyFormat.h \
../../libs/phylogeny/nucJC.h ../../libs/phylogeny/nucleotide.h \
../../libs/phylogeny/phylipFormat.h ../../libs/phylogeny/readDatMatrix.h \
../../libs/phylogeny/datMatrixHolder.h \
../../libs/phylogeny/sequenceContainer.h semphy_cmdline.h \
../../libs/phylogeny/stochasticProcess.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/uniDistribution.h \
../../libs/phylogeny/cmdline2EvolObjs.h ../../libs/phylogeny/amino.h \
../../libs/phylogeny/nucleotide.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/uniDistribution.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/alphaTrivialAccelerator.h \
../../libs/phylogeny/readDatMatrix.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/talRandom.h ../../libs/phylogeny/nucJC.h \
../../libs/phylogeny/aaJC.h ../../libs/phylogeny/hky.h \
../../libs/phylogeny/tamura92.h ../../libs/phylogeny/gtrModel.h \
../../libs/phylogeny/fromQtoPt.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/recognizeFormat.h \
../../libs/phylogeny/replacementModelSSRV.h \
../../libs/phylogeny/stochasticProcessSSRV.h \
distanceBasedSeqs2TreeFactory.h \
../../libs/phylogeny/distanceBasedSeqs2Tree.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/likeDist.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/jcDistance.h \
../../libs/phylogeny/unObservableData.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/distances2Tree.h \
../../libs/phylogeny/givenRatesMLDistance.h \
../../libs/phylogeny/posteriorDistance.h \
../../libs/phylogeny/pairwiseGammaDistance.h ../../libs/phylogeny/nj.h \
../../libs/phylogeny/njConstrain.h \
../../libs/phylogeny/getRandomWeights.h ../../libs/phylogeny/logFile.h
mainSemphy.o mainSemphy.debug.o: mainSemphy.cpp ../../libs/phylogeny/definitions.h \
mainSemphy.h ../../libs/phylogeny/aaJC.h \
../../libs/phylogeny/replacementModel.h \
../../libs/phylogeny/definitions.h ../../libs/phylogeny/alphabet.h \
../../libs/phylogeny/amino.h ../../libs/phylogeny/errorMsg.h \
../../libs/phylogeny/alphabet.h ../../libs/phylogeny/geneticCodeHolder.h \
../../libs/phylogeny/codon.h ../../libs/phylogeny/someUtil.h \
../../libs/phylogeny/logFile.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/clustalFormat.h \
../../libs/phylogeny/sequenceContainer.h ../../libs/phylogeny/sequence.h \
../../libs/phylogeny/mulAlphabet.h \
../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/fastaFormat.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/distribution.h ../../libs/phylogeny/hky.h \
../../libs/phylogeny/maseFormat.h ../../libs/phylogeny/molphyFormat.h \
../../libs/phylogeny/nucJC.h ../../libs/phylogeny/nucleotide.h \
../../libs/phylogeny/phylipFormat.h ../../libs/phylogeny/readDatMatrix.h \
../../libs/phylogeny/datMatrixHolder.h \
../../libs/phylogeny/sequenceContainer.h semphy_cmdline.h \
../../libs/phylogeny/stochasticProcess.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/readTree.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/uniDistribution.h \
../../libs/phylogeny/cmdline2EvolObjs.h ../../libs/phylogeny/amino.h \
../../libs/phylogeny/nucleotide.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/uniDistribution.h \
../../libs/phylogeny/trivialAccelerator.h \
../../libs/phylogeny/alphaTrivialAccelerator.h \
../../libs/phylogeny/readDatMatrix.h \
../../libs/phylogeny/chebyshevAccelerator.h \
../../libs/phylogeny/talRandom.h ../../libs/phylogeny/nucJC.h \
../../libs/phylogeny/aaJC.h ../../libs/phylogeny/hky.h \
../../libs/phylogeny/tamura92.h ../../libs/phylogeny/gtrModel.h \
../../libs/phylogeny/fromQtoPt.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/recognizeFormat.h \
../../libs/phylogeny/replacementModelSSRV.h \
../../libs/phylogeny/stochasticProcessSSRV.h \
distanceBasedSeqs2TreeFactory.h \
../../libs/phylogeny/distanceBasedSeqs2Tree.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/likeDist.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/jcDistance.h \
../../libs/phylogeny/unObservableData.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/distances2Tree.h \
../../libs/phylogeny/givenRatesMLDistance.h \
../../libs/phylogeny/posteriorDistance.h \
../../libs/phylogeny/pairwiseGammaDistance.h ../../libs/phylogeny/nj.h \
../../libs/phylogeny/njConstrain.h ../../libs/phylogeny/jcDistance.h \
../../libs/phylogeny/distanceTable.h constraints.h \
../../libs/phylogeny/bblEM.h ../../libs/phylogeny/suffStatComponent.h \
semphySearchBestTree.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/datMatrixHolder.h \
../../libs/phylogeny/likelihoodComputation.h \
../../libs/phylogeny/likeDist.h ../../libs/phylogeny/bestAlpha.h \
../../libs/phylogeny/likelihoodComputation.h \
../../libs/phylogeny/bestParamUSSRV.h \
../../libs/phylogeny/C_evalParamUSSRV.h \
../../libs/phylogeny/likelihoodComputation2USSRV.h \
../../libs/phylogeny/ussrvModel.h ../../libs/phylogeny/computeUpAlg.h \
../../libs/phylogeny/bestAlpha.h ../../libs/phylogeny/numRec.h \
../../libs/phylogeny/uniformDistribution.h ../../libs/phylogeny/bblEM.h \
../../libs/phylogeny/bestAlphaAndNu.h ../../libs/phylogeny/bblEM2USSRV.h \
../../libs/phylogeny/computeDownAlg.h \
../../libs/phylogeny/computeCounts.h ../../libs/phylogeny/treeIt.h \
../../libs/phylogeny/fromCountTableComponentToDistance2USSRV.h \
../../libs/phylogeny/likeDist2USSRV.h \
../../libs/phylogeny/bestTamura92param.h \
../../libs/phylogeny/bestGtrModelParams.h \
../../libs/phylogeny/findRateOfGene.h ../../libs/phylogeny/talRandom.h \
../../libs/phylogeny/someUtil.h ../../libs/phylogeny/getRandomWeights.h \
../../libs/phylogeny/codon.h ../../libs/phylogeny/recognizeFormat.h \
../../libs/phylogeny/generalGammaDistributionLaguerre.h \
correctToCanonialForm.h ../../libs/phylogeny/ssrvDistanceSeqs2Tree.h \
../../libs/phylogeny/distanceBasedSeqs2Tree.h
distanceBasedSeqs2TreeFactory.o distanceBasedSeqs2TreeFactory.debug.o: distanceBasedSeqs2TreeFactory.cpp \
distanceBasedSeqs2TreeFactory.h \
../../libs/phylogeny/distanceBasedSeqs2Tree.h \
../../libs/phylogeny/distanceMethod.h ../../libs/phylogeny/definitions.h \
../../libs/phylogeny/sequence.h ../../libs/phylogeny/errorMsg.h \
../../libs/phylogeny/alphabet.h ../../libs/phylogeny/mulAlphabet.h \
../../libs/phylogeny/someUtil.h ../../libs/phylogeny/logFile.h \
../../libs/phylogeny/sequenceContainer.h \
../../libs/phylogeny/gainLossAlphabet.h \
../../libs/phylogeny/stochasticProcess.h \
../../libs/phylogeny/pijAccelerator.h \
../../libs/phylogeny/replacementModel.h \
../../libs/phylogeny/distribution.h ../../libs/phylogeny/likeDist.h \
../../libs/phylogeny/countTableComponent.h \
../../libs/phylogeny/jcDistance.h \
../../libs/phylogeny/unObservableData.h ../../libs/phylogeny/tree.h \
../../libs/phylogeny/readTree.h \
../../libs/phylogeny/computePijComponent.h \
../../libs/phylogeny/multipleStochasticProcess.h \
../../libs/phylogeny/gammaDistribution.h \
../../libs/phylogeny/generalGammaDistribution.h \
../../libs/phylogeny/distances2Tree.h \
../../libs/phylogeny/givenRatesMLDistance.h \
../../libs/phylogeny/posteriorDistance.h \
../../libs/phylogeny/pairwiseGammaDistance.h ../../libs/phylogeny/nj.h \
../../libs/phylogeny/njConstrain.h \
../../libs/phylogeny/ssrvDistanceSeqs2Tree.h \
../../libs/phylogeny/distanceBasedSeqs2Tree.h
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