data/beast-mcmc-1.10.4+dfsg/build_beastgen.xml:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_beastgen.xml:58: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:15: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:17: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:18: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:33: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:52: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:53: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:56: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:117: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:118: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:121: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:180: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:187: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:214: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_bss.xml:248: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/build_coalsim.xml:75: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_tempest.xml:42: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build_tempest.xml:72: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:44: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:104: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:139: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:140: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/build.xml:153: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:192: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:193: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:200: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:277: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:279: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:305: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/build.xml:342: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:364: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/build.xml:388: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:398: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:400: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:459: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/build.xml:483: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:493: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:557: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/build.xml:580: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:582: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:594: manaully ==> manually
data/beast-mcmc-1.10.4+dfsg/build.xml:595: manaully ==> manually
data/beast-mcmc-1.10.4+dfsg/build.xml:606: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/build.xml:628: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:675: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:678: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:685: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:686: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:687: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/build.xml:691: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Benchmarks/benchmark1.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Benchmarks/benchmark2.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Benchmarks/old_benchmark.xml:55: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Calibrations/testCalibration.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/ContinuousTraits/racoon_rabies.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/DiscreteTraits/phylogeneticGLM/batRABV_glm.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/DiscreteTraits/phylogeneticGLM/batRABV_glm.xml:5296: succes ==> success
data/beast-mcmc-1.10.4+dfsg/examples/DiscreteTraits/phylogeneticGLM/batRABV_glm.xml:5309: BEAuti ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Phylogeography/H5N1_HA_discrete.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Phylogeography/H5N1_HA_discrete_traits.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Phylogeography/continuous/RacRABV_LogNRRW.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Phylogeography/continuous/RacRABV_cauchyRRW.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Phylogeography/continuous/RacRABV_gammaRRW.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Phylogeography/continuous/RacRABV_homogeneous.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/Recombination/arg-rokas.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testAddPatterns.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testAddPatterns2.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testAutocorrelatedRelaxedClock.xml:27: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testJointTipAges.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testLognormalPrior.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMC3.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:80: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:137: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:153: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:156: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:175: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:178: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:197: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMSSD.xml:198: als ==> also
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testMultiThreading.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testPMD.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testTipDatePrecision.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testTransmissionStatistic.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/testUncertainSequences.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testFixedLocalClock.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testRandomLocalClock.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testStrictClock.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testStrictClockNoDate.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testStrictClockNoDate2.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testStrictClockTipDatesSampling.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testStrictClockTipTime.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testUCRelaxedClockContinuousQuantileLogNormal.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testUCRelaxedClockGamma.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/ClockModels/testUCRelaxedClockLogNormal.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/SubstModels/testSRD06CP12_3.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/BayesianSkyline+unccorelatedExp.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/GMRFBayesianSkyride+strict .xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/Yule+unccorelatedExp.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/birthDeath+unccorelatedLn.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/constant+uncorrelatedExp.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/expansionDoubling+strict.xml.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/exponentialDoubling+strict.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors+ClockModels/extendedBayesianSkyline+uncorrelatedLn.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testBSP.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testBSPNoClock.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testBirthDeathModel_10taxa.xml:20: intialize ==> initialize
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testCataclysmCoalescent.xml:32: intialize ==> initialize
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testCoalescent.xml:32: intialize ==> initialize
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testCoalescentNoClock.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testCoalescentNoClock1.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testEBSP.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testExponentialGrowth.xml:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testLinearBSP.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testPiecewiseExponential.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testYule.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testYuleCase3.xml:16: intialize ==> initialize
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testYuleModel.xml:14: intialize ==> initialize
data/beast-mcmc-1.10.4+dfsg/examples/TestXML/TreePriors/testYuleModel_10taxa.xml:20: intialize ==> initialize
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgexpv-beast.f:33: wich ==> which
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgexpv-beast.f:85: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgexpv-beast.f:93: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgpadm.f:48: iput ==> input
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgpadm.f:151: iput ==> input
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgpadm.f:162: iput ==> input
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgpadm.f:164: iput ==> input
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/dgpadm.f:168: iput ==> input
data/beast-mcmc-1.10.4+dfsg/native/deprecated/expokit/lapack.f:4: environement ==> environment
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:2: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:2: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:8: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:14: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:16: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:18: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:19: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:20: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:20: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:21: continious ==> continuous
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:23: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:24: popoulation ==> population
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:25: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:25: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:29: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:34: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:34: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:35: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:38: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:38: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:41: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:45: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:45: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:49: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:54: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:57: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:59: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:60: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:61: BEAuti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:61: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:62: BEAuti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:62: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:63: BEAuti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:63: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:64: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:64: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:65: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:69: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:69: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:76: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:78: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:79: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:79: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:81: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:81: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:83: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:83: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:85: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:86: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:87: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:87: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:88: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:91: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:95: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:97: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:97: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/all-issues.csv:98: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:2: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:2: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:10: popoulation ==> population
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:11: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:11: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:24: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:25: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:31: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:37: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:42: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:42: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:44: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:45: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:45: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:47: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:50: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:50: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:54: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:54: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:56: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:58: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:63: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:65: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:67: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:68: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:69: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:70: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:70: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:71: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:72: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:75: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:75: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:76: improvment ==> improvement
data/beast-mcmc-1.10.4+dfsg/old_issue_list/open-issues.csv:77: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/plugins_SDK/templates/Dummy.xml:2: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Linux/scripts/beauti:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/BEAUti_launch4j.xml:3: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/BEAUti_launch4j.xml:4: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/BEAUti_launch4j.xml:12: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/BEAUti_launch4j.xml:14: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/BEAUti_launch4j.xml:15: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/BEAUti_launch4j.xml:16: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/Windows_Launchers/scripts/beauti.cmd:5: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:47: behavour ==> behaviour
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:82: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:86: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:86: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:90: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:92: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:106: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:143: parallization ==> parallelization
data/beast-mcmc-1.10.4+dfsg/release/common/README.txt:144: parallization ==> parallelization
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:49: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:50: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:57: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:74: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:79: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:86: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:100: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:101: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:102: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:102: substition ==> substitution
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:103: implementd ==> implemented
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:105: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:109: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:110: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:116: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:117: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:146: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:149: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:154: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:155: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:160: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:161: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:164: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:167: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:179: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:181: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:183: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:187: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:198: BEAuti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:200: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:201: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:204: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:209: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:211: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:213: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:229: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:236: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:241: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:245: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:250: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:256: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:280: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:286: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:290: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:317: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:318: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:319: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:321: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:323: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:325: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:326: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:328: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:329: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:330: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:333: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:334: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:350: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:352: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:356: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:362: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:363: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:367: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:375: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:385: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:391: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:393: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:396: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:404: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:410: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:410: usefull ==> useful
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:412: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:420: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:421: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:424: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:432: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:435: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:436: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:438: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:440: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:442: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:443: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:444: maximun ==> maximum
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:444: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:446: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:448: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:450: discription ==> description
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:451: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:452: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:453: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:459: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:460: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:464: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:466: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:468: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:469: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:479: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:481: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:482: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:484: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:489: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:491: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:492: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:497: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:498: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:503: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:510: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:512: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:513: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:518: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:524: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:525: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:528: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:529: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:532: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:533: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:534: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:535: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:537: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:538: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:539: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:540: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:543: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:544: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:545: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:547: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:563: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:574: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:576: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:584: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:588: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:589: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:591: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:592: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:594: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:602: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:605: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:615: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:616: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:618: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:619: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:621: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:622: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:623: maximun ==> maximum
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:623: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:624: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:625: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:646: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:649: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:651: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:656: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:658: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:678: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:680: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:681: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:683: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:685: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:687: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:688: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:690: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:691: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:693: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:695: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:696: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:698: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:699: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:701: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:703: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:704: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:705: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:706: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:708: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:709: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:711: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:711: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:714: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:716: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:718: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:720: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:721: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:723: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:724: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:726: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:727: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:728: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:730: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:732: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:734: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:736: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:746: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:749: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:754: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:756: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:758: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:760: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:761: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:765: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:766: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:767: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:769: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:779: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:780: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:781: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:783: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:785: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:786: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:788: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:789: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:793: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:801: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:802: Tittle ==> Title
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:803: paramter ==> parameter
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:805: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:814: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:829: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:831: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:832: binay ==> binary
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:833: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:836: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:838: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:840: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:842: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:844: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:847: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:849: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:851: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:852: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:862: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:864: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:867: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:868: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:872: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:873: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:876: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:878: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:880: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:882: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:883: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:887: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:888: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:889: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:891: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:894: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:897: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:899: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:901: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:903: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:904: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:908: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:909: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:910: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:913: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:922: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:922: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:924: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:941: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:950: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:951: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:953: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:954: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:955: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:956: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:957: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:958: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:959: Beauti ==> Beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:959: spurios ==> spurious
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:986: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1004: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1007: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1028: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1041: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1053: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1066: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1066: compatable ==> compatible
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1075: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1080: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1092: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1096: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1098: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1120: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1123: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1126: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1129: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1134: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1139: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1147: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1172: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1175: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/release/common/VERSION HISTORY.txt:1192: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release_beastgen/common/templates/beast_example.template:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release_beastgen/common/templates/example.template:3: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/release_pibuss/Linux/scripts/pibuss:26: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/release_tempest/common/README.txt:42: containg ==> containing
data/beast-mcmc-1.10.4+dfsg/release_tempest/common/README.txt:86: verson ==> version
data/beast-mcmc-1.10.4+dfsg/src/dr/top-level-packages.txt:9: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/top-level-packages.txt:41: probablistic ==> probabilistic
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beagle/tools/CompleteHistorySimulator.java:143: supress ==> suppress
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beagle/tools/parsers/CompleteHistorySimulatorParser.java:137: supress ==> suppress
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:232: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:235: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:237: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:357: parallization ==> parallelization
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:358: parallization ==> parallelization
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:805: currenly ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastMain.java:808: currenly ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:215: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:216: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:219: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:221: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:228: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:229: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastParser.java:231: keyPair ==> key pair
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/BeastVersion.java:173: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beast/old_parsers.properties:26: depricated ==> deprecated
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/BEASTGen.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/BEASTGen.java:66: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/BEASTGen.java:67: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/DataModelImporter.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/DataModelImporter.java:389: TRE ==> TREE
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:113: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:129: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beastgen/NexusApplicationImporter.java:196: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:67: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:77: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:79: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:80: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:89: overriden ==> overridden
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:255: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:262: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:275: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:276: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiApp.java:278: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiDefaultFileMenuFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:37: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:38: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:39: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:40: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:41: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:42: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:43: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:44: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:45: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:46: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:47: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:48: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:49: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:50: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:51: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:52: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:53: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:54: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:55: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:56: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:57: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:58: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:59: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:60: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:61: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:62: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:63: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:394: accessable ==> accessible
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:450: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:450: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:451: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:457: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:472: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:486: Aligment ==> Alignment
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiFrame.java:659: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiMacFileMenuFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiMenuBarFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/BeautiPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ComboBoxRenderer.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/AlignmentBuffer.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/AlignmentBufferListener.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/AlignmentPane.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/AlignmentViewer.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/AminoAcidDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/CellDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/ChemicalAminoAcidDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/ColumnDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/HydropathyAminoAcidDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/NucleotideDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/PlotPane.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/RowDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/RulerPane.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/StateCellDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/StateDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/TaxonPane.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/alignmentviewer/VolumeAminoAcidDecorator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesOptionsPanel.java:321: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/ancestralstatespanel/AncestralStatesPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/ClockModelsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/ClockModelsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/ClockModelsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/ClockModelsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/ClockModelsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/ClockModelsPanel.java:178: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/CloneModelDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/CloneModelDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/CloneModelDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/PartitionClockModelPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/PartitionClockModelPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/PartitionClockModelPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/PartitionClockModelPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/clockmodelspanel/PartitionClockModelPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/ancestralstates/AncestralStatesComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:258: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:342: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:439: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:542: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:692: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentGenerator.java:718: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousComponentOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousSubstModelType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/continuous/ContinuousSubstModelType.java:32: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteSubstModelType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/dollo/DolloComponentOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalModelComponentOptions.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalPhylogeneticModel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalPhylogeneticModel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/hpm/HierarchicalPhylogeneticModel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameter.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameter.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameter.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameter.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/linkedparameters/LinkedParameterComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MLEDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MLEDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MLEGSSDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MLEGSSDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MLEGSSDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MLEGSSDialog.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/marginalLikelihoodEstimation/MarginalLikelihoodEstimationOptions.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/sequenceerror/SequenceErrorModelComponentOptions.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentFactory.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentFactory.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentFactory.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentFactory.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentFactory.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentOptions.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/components/tipdatesampling/TipDateSamplingComponentOptions.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/BeautiAlignmentBuffer.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/BeautiAlignmentBuffer.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/BeautiAlignmentBuffer.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/DataPanel.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectClockDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectClockDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectModelDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectModelDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectTraitDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectTraitDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectTraitDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectTreeDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/SelectTreeDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/ViewAligmentPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/datapanel/ViewAligmentPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/AlignmentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/AlignmentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/AlignmentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/AlignmentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/AlignmentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/AlignmentGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BaseComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BaseComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BaseComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:66: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/BeastGenerator.java:323: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ClockModelGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ComponentGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/Generator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/Generator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/Generator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/Generator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/Generator.java:83: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:165: aligment ==> alignment
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/InitialTreeGenerator.java:166: aligments ==> alignments
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/LogGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/LogGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/LogGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/LogGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/LogGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/LogGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/OperatorsGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/OperatorsGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/OperatorsGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/OperatorsGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/OperatorsGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/OperatorsGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ParameterPriorGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ParameterPriorGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ParameterPriorGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ParameterPriorGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ParameterPriorGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/ParameterPriorGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/PatternListGenerator.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/SubstitutionModelGenerator.java:99: substition ==> substitution
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TMRCAStatisticsGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TMRCAStatisticsGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TMRCAStatisticsGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TMRCAStatisticsGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TMRCAStatisticsGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeLikelihoodGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeLikelihoodGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeLikelihoodGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeLikelihoodGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeLikelihoodGenerator.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeLikelihoodGenerator.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeModelGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeModelGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeModelGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeModelGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeModelGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreeModelGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/generator/TreePriorGenerator.java:172: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/mcmcpanel/MCMCPanel.java:37: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/operatorspanel/OperatorsPanel.java:261: paramter ==> parameter
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/AbstractPartitionData.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:257: paremeters ==> parameters
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:972: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/BeautiOptions.java:974: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ClockModelOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ComponentOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/DateGuesser.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/GlobalModelOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/GlobalModelOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/GlobalModelOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/GuessDatesException.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/MicrosatelliteOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/MicrosatelliteOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ModelOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ModelOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ModelOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ModelOptions.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/ModelOptions.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/Operator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/Operator.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/Parameter.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/Parameter.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/Parameter.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionClockModel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionClockModel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionClockModel.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionClockModel.java:70: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionData.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionOptions.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionPattern.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionSubstitutionModel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionSubstitutionModel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionSubstitutionModel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionSubstitutionModel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionSubstitutionModel.java:61: HOMOGENOUS ==> HOMOGENEOUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionSubstitutionModel.java:113: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionTreeModel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionTreeModel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionTreeModel.java:67: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionTreePrior.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionTreePrior.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/PartitionTreePrior.java:69: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/Predictor.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitData.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitGuesser.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitGuesser.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitGuesser.java:150: Insufficent ==> Insufficient
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitGuesser.java:150: lable ==> label
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitGuesser.java:156: Insufficent ==> Insufficient
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TraitGuesser.java:156: lable ==> label
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TreeModelOptions.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/options/TreeModelOptions.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/AbstractPriorDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/AbstractPriorDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/DefaultPriorTableDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/DefaultPriorTableDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/DefaultPriorTableDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/HierarchicalPriorDialog.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/HierarchicalPriorDialog.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/HierarchicalPriorDialog.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/HierarchicalPriorDialog.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/HierarchicalPriorDialog.java:37: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/HierarchicalPriorDialog.java:38: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/JointPriorDialog.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/JointPriorDialog.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/JointPriorDialog.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/JointPriorDialog.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/JointPriorDialog.java:37: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorOptionsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorOptionsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorOptionsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorOptionsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorSettingsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorSettingsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorSettingsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorTableModel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorTableModel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/PriorsPanel.java:37: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/SelectParametersDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/SelectParametersDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/SpecialNumberPanel.java:27: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/priorspanel/SpecialNumberPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/CloneModelDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/CloneModelDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/CloneModelDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/GLMSettingsPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:36: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:37: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:38: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:39: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:205: Detemine ==> Determine
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:341: homogenous ==> homogeneous
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/PartitionModelPanel.java:516: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/sitemodelspanel/SiteModelsPanel.java:180: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/taxonsetspanel/TaxonSetPanel.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/GuessDatesDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/GuessDatesDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/GuessDatesDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/SetValueDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/tipdatepanel/TipDatesPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/CreateTraitDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/CreateTraitDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/CreateTraitDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/CreateTraitDialog.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/GuessTraitDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/GuessTraitDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/GuessTraitException.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitValueDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitValueDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:35: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:648: remvoe ==> remove
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/traitspanel/TraitsPanel.java:648: inteface ==> interface
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/GenerateTreeDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/GenerateTreeDialog.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/GenerateTreeDialog.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/GenerateTreeDialog.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreeModelPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreeModelPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreeModelPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreeModelPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreeModelPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreeModelPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:260: Lond ==> Long
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/PartitionTreePriorPanel.java:311: Lond ==> Long
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreeDisplayPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreeDisplayPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreesPanel.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreesPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreesPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreesPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/treespanel/TreesPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/BinaryModelType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/ClockDistributionType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/ClockType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/FixRateType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/FrequencyPolicyType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/HierarchicalModelType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/MicroSatModelType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/MicroSatModelType.java:37: Asymetric ==> Asymmetric
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/OperatorSetType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/OperatorType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/ParameterFlavour.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/PopulationSizeModelType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/PriorScaleType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/PriorType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/PriorType.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/PriorType.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/SequenceErrorType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/StartingTreeType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/TipDateSamplingType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/TreePriorParameterizationType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/types/TreePriorType.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BEAUTiImporter.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BEAUTiImporter.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BEAUTiImporter.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BEAUTiImporter.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BEAUTiImporter.java:558: TRE ==> TREE
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BEAUTiImporter.java:579: TRE ==> TREE
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/BeastImporter.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:121: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:137: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NexusApplicationImporter.java:250: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/NumberUtil.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/PanelUtils.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/PartitionNameDialog.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/TextUtil.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/TreeUtils.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/beauti/util/XMLWriter.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bfe/XMLViewer.java:141: refering ==> referring
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:90: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:170: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:171: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:171: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:177: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:200: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:201: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:202: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:206: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:217: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:218: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:219: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:223: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:235: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:236: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:236: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:241: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:252: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:253: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:253: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:258: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:292: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:294: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:295: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:295: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/AboutDialog.java:302: addres ==> address
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/BeagleSequenceSimulatorApp.java:49: neccessary ==> necessary
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/BeagleSequenceSimulatorConsoleApp.java:754: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/DefaultHelpMenuFactory.java:96: buss ==> bus
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/MainFrame.java:277: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/MainFrame.java:356: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/README.textile:1: BUSS ==> BUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/README.textile:23: BUSS ==> BUS
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/XMLExporter.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/bss/XMLGenerator.java:40: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/checkpoint/BeastCheckpointer.java:471: Coercable ==> Coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/app/coalgen/CoalGenFrame.java:131: accessable ==> accessible
data/beast-mcmc-1.10.4+dfsg/src/dr/app/coalgen/DataPanel.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/coalgen/DataPanel.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/coalgen/DataPanel.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/FileDrop.java:934: anyting ==> anything
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Axis.java:205: prefered ==> preferred
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Axis.java:415: neccessary ==> necessary
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Axis.java:446: HALFS ==> HALVES
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Axis.java:571: HALFS ==> HALVES
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:449: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:449: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:456: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:456: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:463: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:463: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:472: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/JChart.java:472: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:477: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:477: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:488: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:488: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:499: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:499: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:508: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:508: co-ordinate ==> coordinate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:517: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:555: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/Plot.java:567: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/ScatterPlot.java:100: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/chart/ScatterPlot.java:133: co-ordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/table/TableEditorStopper.java:60: transfered ==> transferred
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/table/TableSorter.java:53: recieved ==> received
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/table/TableSorter.java:449: succesive ==> successive
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/JTreeDisplay.java:116: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/JTreeDisplay.java:132: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:96: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:116: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:169: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:185: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:187: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:189: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:199: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:208: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:228: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:229: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:233: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:234: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:237: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:261: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:286: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:293: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:299: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:390: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:391: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:395: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:396: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/SquareTreePainter.java:520: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/TreePainter.java:41: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/gui/tree/TreePainter.java:51: hilight ==> highlight
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrame.java:293: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrame.java:297: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrame.java:359: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrame.java:363: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrameOld.java:642: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrameOld.java:646: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrameOld.java:708: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/MapperFrameOld.java:712: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/StrainsPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/StrainsPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/mapper/application/StrainsPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/RootToTip.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/SamplesPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/SamplesPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/SamplesPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:440: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:441: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:450: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:451: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:453: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:459: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:460: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:460: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:460: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:462: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/pathogen/TemporalRooting.java:462: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/ContinuousKML.java:86: carribean ==> caribbean
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/ContinuousKML.java:766: precentage ==> percentage
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/ContinuousTreeToKML.java:59: tre ==> tree
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteKMLString.java:118: overides ==> overrides
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteKMLString.java:149: overides ==> overrides
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteKMLString.java:185: overides ==> overrides
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteKMLString.java:297: mulitplier ==> multiplier
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteKMLString.java:420: dissapear ==> disappear
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteRatePriorGenerator.java:519: devision ==> division
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteRatePriorGenerator.java:529: devision ==> division
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteRatePriorGenerator.java:589: lenght ==> length
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteTreeToKML.java:92: tre ==> tree
data/beast-mcmc-1.10.4+dfsg/src/dr/app/phylogeography/tools/DiscreteTreeToKML.java:224: outputed ==> outputted
data/beast-mcmc-1.10.4+dfsg/src/dr/app/plugin/PluginLoader.java:100: isnt ==> isn't
data/beast-mcmc-1.10.4+dfsg/src/dr/app/realtime/CheckPointModifier.java:209: Coercable ==> Coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/RootToTip.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/SamplesPanel.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/SamplesPanel.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/SamplesPanel.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:440: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:441: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:450: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:451: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:453: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:459: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:460: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:460: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:460: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:462: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tempest/TemporalRooting.java:462: Nd ==> And, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/Branch2dRateToGrid.java:789: accomodate ==> accommodate
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/GenerateRelaxedClockXMLByData.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/GenerateRelaxedClockXMLByData.java:44: Hsa ==> Has
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/GenerateRelaxedClockXMLByData.java:383: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/GetDateFromTree.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/GetDateFromTree.java:811: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/GetNSCountsFromTrees.java:482: subtitutions ==> substitutions
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/MixtureModelLogAnalyser.java:211: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/MixtureModelLogAnalyser.java:212: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/SpliceBeastFiles.java:32: containting ==> containing
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TimeSlicer.java:63: imput ==> input
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TimeSlicer.java:2704: devide ==> divide
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:984: CORDINATE ==> COORDINATE
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:984: cordinates ==> coordinates
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1040: CORDINATE ==> COORDINATE
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1079: CORDINATE ==> COORDINATE
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1418: seperated ==> separated
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1556: ths ==> the, this
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1576: ths ==> the, this
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1589: ths ==> the, this
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeAnnotator.java:1591: ths ==> the, this
data/beast-mcmc-1.10.4+dfsg/src/dr/app/tools/TreeLogAnalyser.java:97: tre ==> tree
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treespace/TreeLineages.java:123: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treespace/TreeLineages.java:261: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treespace/TreeLineages.java:262: currentY ==> currently
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treespace/TreeSpaceApp.java:48: overriden ==> overridden
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treespace/TreeSpaceFrame.java:160: tre ==> tree
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treestat/TableSorter.java:49: recieved ==> received
data/beast-mcmc-1.10.4+dfsg/src/dr/app/treestat/TableSorter.java:438: succesive ==> successive
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/alignment/CharSetAlignment.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/coalescent/CoalescentSimulator.java:208: numver ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/coalescent/ConstantPopulation.java:79: unecessary ==> unnecessary
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/coalescent/EmpiricalPiecewiseConstant.java:101: substracted ==> subtracted
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/coalescent/IntervalList.java:31: intevals ==> intervals
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/coalescent/Skyline.java:411: cummulative ==> cumulative
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/datatype/AminoAcids.java:93: Ser ==> Set
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/datatype/GeneralDataType.java:46: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/datatype/MutationDeathType.java:59: extention ==> extension
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/datatype/P2P.java:62: ND ==> AND, 2ND
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/datatype/P2P.java:76: TE ==> THE, BE, WE
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/io/MicroSatImporter.java:122: invaild ==> invalid
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/io/NexusImporter.java:1269: suppored ==> supported
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/MutableTree.java:71: replacment ==> replacement
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/RankedForest.java:125: wih ==> with
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SimpleNode.java:276: replacment ==> replacement
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SimpleNode.java:279: replacment ==> replacement
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SimpleNode.java:280: replacment ==> replacement
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SimpleTree.java:308: interator ==> iterator
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SplitUtils.java:112: alway ==> always
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SubtreeSlide.java:34: rearrangments ==> rearrangements
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/SubtreeSlide.java:53: probablistic ==> probabilistic
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/Tree.java:132: interator ==> iterator
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/TreeUtils.java:116: fo ==> of, for
data/beast-mcmc-1.10.4+dfsg/src/dr/evolution/tree/TreeUtils.java:913: overide ==> override
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/operators/MulTreeNodeSlide.java:44: ist ==> is, it, its, it's, sit, list
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/operators/MulTreeNodeSlide.java:44: ist ==> is, it, its, it's, sit, list
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/operators/MulTreeNodeSlide.java:168: swaping ==> swapping
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/AlloppDiploidHistory.java:117: constuctor ==> constructor
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/AlloppLeggedTree.java:102: constuctor ==> constructor
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/AlloppMulLabTree.java:129: constuctor ==> constructor
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/AlloppMulLabTree.java:342: hist ==> heist, his
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/AlloppSpeciesNetworkModel.java:742: restuarant ==> restaurant
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/AlloppSpeciesNetworkModel.java:841: Delgations ==> Delegations
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:203: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:205: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:205: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:210: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:211: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:240: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:246: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulMSCoalescent.java:257: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/speciation/MulSpeciesTreeModel.java:225: disply ==> display
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/alloppnet/tree/SlidableTree.java:90: Larget ==> Larger, largest, target
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/TreeClusteringVirusesPrior.java:1434: Atribute ==> Attribute
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/misc/mergeAdjacencyMatrixPlots.java:255: cant ==> can't
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/misc/simulateClusters.java:655: Atribute ==> Attribute
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/misc/obsolete/ClusterViruses.java:599: Atribute ==> Attribute
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/operators/TreeClusterAlgorithmOperator.java:2669: everytime ==> every time
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/operators/TreeClusterAlgorithmOperator.java:3071: acccepted ==> accepted
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/antigenic/phyloclustering/operators/TreeClusterAlgorithmOperator.java:3108: acccepted ==> accepted
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/ARGModel.java:677: Attemping ==> Attempting
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:314: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:315: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:343: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:388: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:391: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:396: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/coalescent/VeryOldCoalescentLikelihood.java:406: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/likelihood/ARGLikelihood.java:240: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/operators/ARGAddRemoveEventOperator.java:1210: IMPLENTED ==> IMPLEMENTED
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/arg/operators/ARGSubtreeSlideOperator.java:113: probablistic ==> probabilistic
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/branchmodel/lineagespecific/DirichletProcessPriorLogger.java:122: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/branchmodel/lineagespecific/DirichletProcessPriorLogger.java:123: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/branchmodel/lineagespecific/LineageSpecificBranchModel.java:127: neccessary ==> necessary
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/branchratemodel/ContinuousEpochBranchRateModel.java:37: paramters ==> parameters
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/branchratemodel/RateEpochBranchRateModel.java:49: paramters ==> parameters
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/BMPriorLikelihood.java:93: coeffcient ==> coefficient
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/CoalescentSimulator.java:114: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/CoalescentSimulator.java:117: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/CoalescentSimulator.java:120: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:427: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:433: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:436: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:439: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:444: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:455: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:477: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:478: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/OldAbstractCoalescentLikelihood.java:500: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:222: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:224: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:225: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:225: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:253: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:292: nd ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:316: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:324: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:326: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:408: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:409: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:411: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VDdemographicFunction.java:412: ot ==> to, of, or
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/VariableDemographicModel.java:193: parm ==> param, pram, parma
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackBlockUpdateOperator.java:1084: intevals ==> intervals
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackBlockUpdateOperator.java:1411: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackBlockUpdateOperator.java:1412: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackBlockUpdateOperator.java:1523: coercable ==> coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:107: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:110: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:115: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:126: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:178: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:179: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:181: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/operators/GaussianProcessSkytrackTreeOperator.java:210: childs ==> children, child's
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/coalescent/structure/StructuredCoalescentLikelihood.java:39: structered ==> structured
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/BinaryLatentLiabilityLikelihood.java:73: continous ==> continuous
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/ContinuousDiffusionStatistic.java:84: brnach ==> branch
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/IntegratedMultivariateTraitLikelihood.java:357: cach ==> catch, cache
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/MultinomialLatentLiabilityLikelihood.java:65: continous ==> continuous
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/MultinomialLatentLiabilityLikelihood.java:303: dimention ==> dimension
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/MultivariateTDiffusionModel.java:60: truely ==> truly
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/OrderedLatentLiabilityLikelihood.java:75: continous ==> continuous
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/continuous/OrderedLatentLiabilityLikelihood.java:481: dimention ==> dimension
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/SIRModel.java:284: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/SIRModel.java:286: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/AbstractOutbreak.java:85: arbitary ==> arbitrary
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/CaseToCaseTransmissionLikelihood.java:586: distibution ==> distribution
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/CategoryOutbreak.java:503: probabilty ==> probability
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/SpatialKernel.java:153: kernal ==> kernel
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/SpatialKernel.java:196: kernal ==> kernel
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/SpatialKernel.java:253: kernal ==> kernel
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/SpatialKernel.java:310: kernal ==> kernel
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/epidemiology/casetocase/operators/TransmissionSubtreeSlideB.java:90: probablistic ==> probabilistic
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/ExchangeOperator.java:71: Unknow ==> Unknown
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/FNPR.java:38: explicitely ==> explicitly
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:91: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:97: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:98: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:103: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:104: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:109: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:110: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteFullAncestryImportanceSamplingOperator.java:110: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:91: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:98: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:99: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:106: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:107: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:111: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:112: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/MicrosatelliteSingleAncestralStateGibbsOperator.java:112: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/NNI.java:38: explicitely ==> explicitly
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/RateExchangeOperator.java:63: probablistic ==> probabilistic
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/SubtreeSlideOperator.java:83: probablistic ==> probabilistic
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/TreeNodeSlide.java:44: ist ==> is, it, its, it's, sit, list
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/TreeNodeSlide.java:44: ist ==> is, it, its, it's, sit, list
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/operators/TreeNodeSlide.java:402: swaping ==> swapping
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/BirthDeathSerialSamplingModel.java:294: Orign ==> Origin
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:184: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:186: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:186: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:191: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:192: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:221: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:227: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/MultiSpeciesCoalescent.java:238: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:79: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:82: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:85: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:87: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:89: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:100: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/speciation/SpeciesTreeSimplePrior.java:100: demog ==> demo
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/substmodel/ProductChainSubstitutionModel.java:144: Propogate ==> Propagate
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/substmodel/aminoacid/Dayhoff.java:40: Structur ==> Structure
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/substmodel/aminoacid/Dayhoff.java:218: Structur ==> Structure
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/substmodel/aminoacid/LG.java:285: Ser ==> Set
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/ConditionalCladeFrequency.java:69: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/ConditionalCladeFrequency.java:84: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/ConditionalCladeFrequency.java:329: wont ==> won't
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/ConditionalCladeFrequency.java:533: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/ConditionalCladeFrequency.java:602: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/MicrosatelliteSamplerTreeModel.java:39: probabilites ==> probabilities
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/MicrosatelliteSamplerTreeModel.java:66: patten ==> pattern, patent
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/RateStatistic.java:36: coefficent ==> coefficient
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:53: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:102: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:105: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:155: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:157: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:159: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:162: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:194: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeSpaceLogger.java:198: pathes ==> paths
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/TreeTraceAnalysis.java:66: Defalt ==> Default
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/WeightedMultiplicativeBinary.java:62: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/WeightedMultiplicativeBinary.java:79: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/tree/WeightedMultiplicativeBinary.java:528: wont ==> won't
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/treedatalikelihood/MultiPartitionDataLikelihoodDelegate.java:885: homogenous ==> homogeneous
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/treelikelihood/ApproximatePoissonTreeLikelihood.java:178: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/treelikelihood/BeagleTreeLikelihood.java:765: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodel/treelikelihood/MultiPartitionTreeLikelihood.java:681: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/CSVExporterParser.java:43: qouting ==> quoting
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/ConditionalCladeFrequencyParser.java:152: evaulation ==> evaluation
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/ConditionalCladeFrequencyParser.java:153: occurences ==> occurrences
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/coalescent/CoalescentLikelihoodParser.java:120: modifing ==> modifying
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/coalescent/ExponentialSawtoothModelParser.java:74: succesive ==> successive
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/coalescent/OldCoalescentSimulatorParser.java:122: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/coalescent/OldCoalescentSimulatorParser.java:123: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/coalescent/OldCoalescentSimulatorParser.java:126: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/coalescent/OldCoalescentSimulatorParser.java:126: nIn ==> inn, min, bin, nine
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/operators/MicrosatelliteUpDownOperatorParser.java:78: multipled ==> multiplied
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/substmodel/GTRParser.java:109: specifed ==> specified
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/substmodel/GTRParser.java:129: parameterizes ==> parametrizes
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/substmodel/MG94CodonModelParser.java:114: specifed ==> specified
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/treelikelihood/ALSTreeLikelihoodParser.java:109: ALS ==> ALSO
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/treelikelihood/TreeTraitParserUtilities.java:406: continous ==> continuous
data/beast-mcmc-1.10.4+dfsg/src/dr/evomodelxml/treelikelihood/TreeTraitParserUtilities.java:414: missings ==> missing
data/beast-mcmc-1.10.4+dfsg/src/dr/evoxml/MutationDeathTypeParser.java:53: submision ==> submission
data/beast-mcmc-1.10.4+dfsg/src/dr/evoxml/RandomSubsetTaxaParser.java:72: atleast ==> at least
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/AbstractPolygon2D.java:465: seond ==> second, send
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/testLocations.xml:2717: Mor ==> More
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/cartogram/CartogramMapping.java:149: behavoir ==> behavior
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:63: Inconsistant ==> Inconsistent
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:146: invarient ==> invariant
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:147: invarient ==> invariant
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:147: occures ==> occurs
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:207: invarient ==> invariant
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:208: invarient ==> invariant
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:208: occures ==> occurs
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/ContourGenerator.java:860: intial ==> initial
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/contouring/SnyderContour.java:36: Fortan ==> Fortran
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/math/SphericalPolarCoordinates.java:156: inbetween ==> between, in between
data/beast-mcmc-1.10.4+dfsg/src/dr/geo/math/SphericalPolarCoordinates.java:158: inbetween ==> between, in between
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/distribution/EmpiricalDistributionLikelihood.java:115: begining ==> beginning
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/distribution/LogNormalDistributionModel.java:132: Unknow ==> Unknown
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/distribution/MixedDistributionLikelihood.java:49: likelyhood ==> likelihood
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/distribution/PoissonDistributionModel.java:123: depricated ==> deprecated
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/loggers/BooleanColumn.java:30: formating ==> formatting
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/loggers/MLLogger.java:74: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/loggers/MLLogger.java:76: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/loggers/MLLogger.java:78: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/loggers/MLLogger.java:85: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovchain/MarkovChain.java:550: coercable ==> coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:56: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:66: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:71: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:73: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:79: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:129: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:137: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:137: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:137: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:138: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:140: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:143: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:143: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:144: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:146: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/markovjumps/MarkovJumpsCore.java:150: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/mcmc/MCMCOptions.java:31: auxillary ==> auxiliary
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/mcmcmc/MCMCMC.java:150: alloted ==> allotted
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/mcmcmc/MCMCMCOptions.java:31: auxillary ==> auxiliary
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/Bounds.java:92: paramter ==> parameter
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:284: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:298: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:300: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:301: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:315: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:442: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:456: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:458: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundLikelihood.java:459: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundModel.java:71: compund ==> compound
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/CompoundModel.java:72: compund ==> compound
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:272: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:273: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:277: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:278: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:282: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:283: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:287: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/LatentFactorModel.java:288: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/Model.java:50: addeed ==> added
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/RPNcalculatorStatistic.java:33: whitspace ==> whitespace
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/RPNexpressionCalculator.java:42: Interfave ==> Interface
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:152: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:160: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:162: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:169: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:170: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:176: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:178: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TestThreadedCompoundLikelihood.java:182: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:217: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:225: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:227: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:234: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:235: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:241: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:243: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/ThreadedCompoundLikelihood.java:247: lik ==> like, lick, link
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/model/TransformedParameter.java:149: Propogate ==> Propagate
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/AdaptableMCMCOperator.java:64: coercable ==> coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/AdaptableMCMCOperator.java:64: coercable ==> coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/BitSwapOperator.java:121: faild ==> failed
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/HierarchicalBitFlipOperator.java:66: repete ==> repeat
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/HierarchicalBitFlipOperator.java:66: repete ==> repeat
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/HierarchicalBitFlipOperator.java:66: repete ==> repeat
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/LFMSplitMergeOperator.java:27: implment ==> implement
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/OperatorAnalysisPrinter.java:35: depricate ==> deprecate
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/RandomWalkIntegerOperator.java:129: accoding ==> according
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/RandomWalkOperator.java:131: tranlated ==> translated
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/Scalable.java:34: impelementation ==> implementation
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/Scalable.java:45: dimentions ==> dimensions
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/Scalable.java:117: dimesions ==> dimensions
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/Scalable.java:117: quitely ==> quite, quietly
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/ScaleOperator.java:38: dimentions ==> dimensions
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/ScaleOperator.java:38: dimention ==> dimension
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/ScaleOperator.java:39: dimentions ==> dimensions
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/ScaleOperator.java:40: dimentions ==> dimensions
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/ScaleOperator.java:186: initalize ==> initialize
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/SelectorOperator.java:38: definitly ==> definitely
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/SetOperator.java:73: implememented ==> implemented
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/hmc/BouncyParticleOperator.java:195: CHCEK ==> CHECK
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/hmc/HamiltonianMonteCarloOperator.java:149: coercable ==> coercible
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/hmc/HamiltonianMonteCarloOperator.java:149: paramter ==> parameter
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/hmc/NewBouncyParticleOperator.java:110: precison ==> precision
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/operators/hmc/NewBouncyParticleOperator.java:295: CHCEK ==> CHECK
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/trace/MarginalLikelihoodAnalysis.java:338: acessor ==> accessor
data/beast-mcmc-1.10.4+dfsg/src/dr/inference/trace/TraceDistribution.java:57: cant ==> can't
data/beast-mcmc-1.10.4+dfsg/src/dr/inferencexml/distribution/HierarchicalGraphLikelihoodParser.java:69: dimentions ==> dimensions
data/beast-mcmc-1.10.4+dfsg/src/dr/inferencexml/loggers/ColumnsParser.java:127: formating ==> formatting
data/beast-mcmc-1.10.4+dfsg/src/dr/inferencexml/model/DiagonalContrainedMatrixViewParser.java:52: Incompatiable ==> Incompatible
data/beast-mcmc-1.10.4+dfsg/src/dr/inferencexml/operators/CenteredScaleOperatorParser.java:60: perserve ==> preserve
data/beast-mcmc-1.10.4+dfsg/src/dr/inferencexml/operators/MVOUCovarianceOperatorParser.java:57: thatn ==> that, than
data/beast-mcmc-1.10.4+dfsg/src/dr/inferencexml/operators/UpDownOperatorParser.java:119: multipled ==> multiplied
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ConjugateDirectionSearch.java:120: vlarge ==> large
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ConjugateDirectionSearch.java:354: vlarge ==> large
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ConjugateDirectionSearch.java:410: vlarge ==> large
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ConjugateDirectionSearch.java:454: vlarge ==> large
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ConjugateGradientSearch.java:420: sufficent ==> sufficient
data/beast-mcmc-1.10.4+dfsg/src/dr/math/DifferentialEvolution.java:62: modul ==> module
data/beast-mcmc-1.10.4+dfsg/src/dr/math/DifferentialEvolution.java:77: modul ==> module
data/beast-mcmc-1.10.4+dfsg/src/dr/math/MersenneTwisterFast.java:111: inforce ==> enforce
data/beast-mcmc-1.10.4+dfsg/src/dr/math/MersenneTwisterFast.java:114: curernt ==> current
data/beast-mcmc-1.10.4+dfsg/src/dr/math/MersenneTwisterFast.java:144: Initalize ==> Initialize
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ModifiedBesselFirstKind.java:51: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ModifiedBesselFirstKind.java:57: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ModifiedBesselFirstKind.java:64: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ModifiedBesselFirstKind.java:68: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ModifiedBesselFirstKind.java:70: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/math/ModifiedBesselFirstKind.java:71: ans ==> and
data/beast-mcmc-1.10.4+dfsg/src/dr/math/MultivariateMinimum.java:165: succesful ==> successful
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Poisson.java:95: ser ==> set
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Poisson.java:102: ser ==> set
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Poisson.java:104: ser ==> set
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Poisson.java:106: ser ==> set
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Polynomial.java:370: Incompatiable ==> Incompatible
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Polynomial.java:461: Incompatiable ==> Incompatible
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:93: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:95: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:99: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:99: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:103: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:103: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:106: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/Procrustes.java:107: numer ==> number
data/beast-mcmc-1.10.4+dfsg/src/dr/math/UnivariateMinimum.java:56: neccessary ==> necessary
data/beast-mcmc-1.10.4+dfsg/src/dr/math/distributions/GammaDistribution.java:155: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/dr/math/distributions/LogTransformedNormalKDEDistribution.java:507: hist ==> heist, his
data/beast-mcmc-1.10.4+dfsg/src/dr/math/distributions/LogitTransformedNormalKDEDistribution.java:452: hist ==> heist, his
data/beast-mcmc-1.10.4+dfsg/src/dr/math/distributions/MultivariateNormalDistribution.java:204: precison ==> precision
data/beast-mcmc-1.10.4+dfsg/src/dr/math/distributions/MultivariatePolyaDistributionLikelihood.java:298: dimmension ==> dimension
data/beast-mcmc-1.10.4+dfsg/src/dr/math/iterations/IterativeProcess.java:78: interation ==> iteration, interaction
data/beast-mcmc-1.10.4+dfsg/src/dr/math/iterations/NewtonZeroFinder.java:69: interation ==> iteration, interaction
data/beast-mcmc-1.10.4+dfsg/src/dr/math/matrixAlgebra/RobustEigenDecomposition.java:751: nD ==> and, 2nd
data/beast-mcmc-1.10.4+dfsg/src/dr/math/matrixAlgebra/SymmetricMatrix.java:291: splitted ==> split
data/beast-mcmc-1.10.4+dfsg/src/dr/matrix/Matrix.java:29: inteface ==> interface
data/beast-mcmc-1.10.4+dfsg/src/dr/matrix/MutableMatrix.java:29: inteface ==> interface
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/indel/IstvansProposal.java:434: substract ==> subtract
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/indel/IstvansProposal.java:450: substract ==> subtract
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/indel/IstvansProposal.java:469: substract ==> subtract
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/indel/IstvansProposal.java:564: combinatorical ==> combinatorial
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/sitemodel/GammaSiteBMA.java:81: repectively ==> respectively
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/Dayhoff.java:38: Structur ==> Structure
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/Dayhoff.java:216: Structur ==> Structure
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/LG.java:283: Ser ==> Set
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/LinearBiasModel.java:226: paramters ==> parameters
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/MicrosatelliteModel.java:111: imaginery ==> imaginary, imagery
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/MicrosatelliteModel.java:113: imaginery ==> imaginary, imagery
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/substmodel/TwoPhaseModel.java:254: paramters ==> parameters
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/treelikelihood/AncestralStateTreeLikelihood.java:63: corrent ==> correct, current
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/treelikelihood/ArbitraryPrecisionLikelihoodCore.java:480: patten ==> pattern, patent
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/treelikelihood/GeneralLikelihoodCore.java:389: patten ==> pattern, patent
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/treelikelihood/MicrosatelliteSamplerTreeLikelihood.java:105: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/treelikelihood/PrecisionTestTreeLikelihood.java:177: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodel/treelikelihood/TreeLikelihood.java:252: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/MSSD/ALSTreeLikelihoodParser.java:109: ALS ==> ALSO
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/CovarionGTRParser.java:103: langauge ==> language
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/GTRParser.java:92: specifed ==> specified
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/GTRParser.java:110: parameterizes ==> parametrizes
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/LinearBiasModelParser.java:119: esitmate ==> estimate
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/MkModelParser.java:70: accomodate ==> accommodate
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/NtdBMAParser.java:35: subsitution ==> substitution
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/TwoPhaseModelParser.java:64: limitE ==> limit
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/TwoPhaseModelParser.java:66: limitE ==> limit
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/TwoPhaseModelParser.java:76: limitE ==> limit
data/beast-mcmc-1.10.4+dfsg/src/dr/oldevomodelxml/substmodel/TwoPhaseModelParser.java:94: esitmate ==> estimate
data/beast-mcmc-1.10.4+dfsg/src/dr/util/Author.java:29: infomation ==> information
data/beast-mcmc-1.10.4+dfsg/src/dr/util/CommonCitations.java:93: continous ==> continuous
data/beast-mcmc-1.10.4+dfsg/src/dr/util/CommonCitations.java:205: Lond ==> Long
data/beast-mcmc-1.10.4+dfsg/src/dr/util/CommonCitations.java:211: Lond ==> Long
data/beast-mcmc-1.10.4+dfsg/src/dr/util/CommonCitations.java:295: inferface ==> interface
data/beast-mcmc-1.10.4+dfsg/src/dr/util/FrequencyDistribution.java:46: frequncy ==> frequency
data/beast-mcmc-1.10.4+dfsg/src/dr/util/HeapSort.java:169: ingoring ==> ignoring
data/beast-mcmc-1.10.4+dfsg/src/dr/util/TIFFWriter.java:194: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/util/TIFFWriter.java:217: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/util/TIFFWriter.java:232: occured ==> occurred
data/beast-mcmc-1.10.4+dfsg/src/dr/xml/XMLObjectParser.java:34: retuned ==> returned
data/beast-mcmc-1.10.4+dfsg/src/dr/xml/XMLParser.java:170: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTester.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTester.java:28: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:59: COMMEND ==> COMMENT, COMMAND
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:61: commend ==> comment, command
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:62: COMMEND ==> COMMENT, COMMAND
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:62: commend ==> comment, command
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:268: COMMEND ==> COMMENT, COMMAND
data/beast-mcmc-1.10.4+dfsg/src/test/dr/app/beauti/BeautiTesterConfig.java:434: TRE ==> TREE
data/beast-mcmc-1.10.4+dfsg/src/test/dr/calibration/TestCalibratedYuleModel.java:47: auther ==> author
data/beast-mcmc-1.10.4+dfsg/src/test/dr/distibutions/BifractionalDiffusionDensityTest.java:1: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/src/test/dr/distibutions/GammaDistributionTest.java:1: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/src/test/dr/distibutions/InvGammaTest.java:1: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/src/test/dr/distibutions/InverseGaussianDistributionTest.java:1: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/src/test/dr/distibutions/LogNormalDistributionTest.java:1: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/src/test/dr/distibutions/NormalDistributionTest.java:1: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/operators/UniformIntegerOperatorTest.java:23: vaules ==> values
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/operators/UniformIntegerOperatorTest.java:39: vaules ==> values
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/BinaryCovarionModelTest.java:206: againt ==> against
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/CodonPartitionedRobustCountingTest.java:77: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/CodonPartitionedRobustCountingTest.java:100: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/CodonPartitionedRobustCountingTest.java:109: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/CodonPartitionedRobustCountingTest.java:181: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/CodonPartitionedRobustCountingTest.java:182: regist ==> register
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/EigendecompositionTest.java:142: successED ==> succeeded, success, successful
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/EigendecompositionTest.java:188: successED ==> succeeded, success, successful
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/EigendecompositionTest.java:192: successED ==> succeeded, success, successful
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/EigendecompositionTest.java:198: successED ==> succeeded, success, successful
data/beast-mcmc-1.10.4+dfsg/src/test/dr/evomodel/substmodel/EigendecompositionTest.java:201: successED ==> succeeded, success, successful
data/beast-mcmc-1.10.4+dfsg/src/test/dr/inference/trace/TraceCorrelationAssert.java:450: backwords ==> backwards
data/beast-mcmc-1.10.4+dfsg/src/test/dr/math/KDEDistributionTest.java:155: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/src/test/dr/math/KDEDistributionTest.java:156: te ==> the, be, we
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.1:22: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.1.xml:167: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.1.xml:293: alpabetical ==> alphabetical
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.1.xml:295: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.manifest:5: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.manifest:6: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.menu:12: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.menu:13: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beast-mcmc.menu:15: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:1: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:5: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:6: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:8: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:8: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:8: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:14: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:20: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:23: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:50: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:55: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:60: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1:67: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1.xml:22: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1.xml:23: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1.xml:24: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1.xml:25: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1.xml:140: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/beauti.1.xml:153: alpabetical ==> alphabetical
data/beast-mcmc-1.10.4+dfsg/debian/bin/beast-mcmc:8: explicitely ==> explicitly
data/beast-mcmc-1.10.4+dfsg/debian/bin/beauti:4: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/patches/fix_classpath_in_build_xml.patch:65: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/patches/fix_encoding.patch:5: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/debian/patches/fix_encoding.patch:6: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:43: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:78: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:113: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:114: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:127: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:177: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:178: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:185: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:267: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:269: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:295: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:332: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:354: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:378: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:388: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:390: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:449: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:473: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:483: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:547: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:570: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:572: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:584: manaully ==> manually
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:585: manaully ==> manually
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:596: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:618: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:665: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:668: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:675: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:676: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:677: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_classpath_in_build_xml.patch/build.xml:681: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:26: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:29: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:30: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:31: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:32: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:33: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/fix_encoding.patch/src/dr/app/beauti/components/discrete/DiscreteTraitsComponentGenerator.java:34: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:44: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:104: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:139: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:140: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:153: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:192: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:193: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:200: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:277: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:279: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:305: distibutions ==> distributions
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:342: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:364: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:388: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:398: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:400: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:459: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:483: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:493: BEAUTi ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:557: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:580: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:582: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:594: manaully ==> manually
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:595: manaully ==> manually
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:606: BEAUTI ==> BEAUTY
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:628: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:675: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:678: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:685: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:686: BEAUti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:687: beauti ==> beauty
data/beast-mcmc-1.10.4+dfsg/.pc/ignore_mac_install.patch/build.xml:691: beauti ==> beauty