repo reorg. mostly, move matlab code into matlab/

kristinbranson · Oct 9, 2019 · 0cfdfec · 0cfdfec
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diff --git a/Labeler.m.orig b/Labeler.m.orig
diff --git a/...chData/PlotLabeledReachOutliersPerMouse.m → ...chData/PlotLabeledReachOutliersPerMouse.m b/...chData/PlotLabeledReachOutliersPerMouse.m → ...chData/PlotLabeledReachOutliersPerMouse.m
diff --git a/...achData/PlotLabeledReachPosXStdPerMouse.m → ...achData/PlotLabeledReachPosXStdPerMouse.m b/...achData/PlotLabeledReachPosXStdPerMouse.m → ...achData/PlotLabeledReachPosXStdPerMouse.m
diff --git a/PlotReachData/PlotLabeledReachesPerMouse.m → ...lotReachData/PlotLabeledReachesPerMouse.m b/PlotReachData/PlotLabeledReachesPerMouse.m → ...lotReachData/PlotLabeledReachesPerMouse.m
diff --git a/PlotReachData/SaveFigLotsOfWays.m → anls/PlotReachData/SaveFigLotsOfWays.m b/PlotReachData/SaveFigLotsOfWays.m → anls/PlotReachData/SaveFigLotsOfWays.m
diff --git a/...Data/ScriptCompareLabeledPoints20160226.m → ...Data/ScriptCompareLabeledPoints20160226.m b/...Data/ScriptCompareLabeledPoints20160226.m → ...Data/ScriptCompareLabeledPoints20160226.m
diff --git a/...achData/ScriptPlotLabeledPoints20151215.m → ...achData/ScriptPlotLabeledPoints20151215.m b/...achData/ScriptPlotLabeledPoints20151215.m → ...achData/ScriptPlotLabeledPoints20151215.m
diff --git a/PlotReachData/drawcov.m → anls/PlotReachData/drawcov.m b/PlotReachData/drawcov.m → anls/PlotReachData/drawcov.m
diff --git a/PlotReachData/parseExpName.m → anls/PlotReachData/parseExpName.m b/PlotReachData/parseExpName.m → anls/PlotReachData/parseExpName.m
diff --git a/gt/AddCPRGTData.m → anls/gt/AddCPRGTData.m b/gt/AddCPRGTData.m → anls/gt/AddCPRGTData.m
diff --git a/gt/ClusterTrackRCPR.m → anls/gt/ClusterTrackRCPR.m b/gt/ClusterTrackRCPR.m → anls/gt/ClusterTrackRCPR.m
diff --git a/gt/ClusterTrainRCPR_cv.m → anls/gt/ClusterTrainRCPR_cv.m b/gt/ClusterTrainRCPR_cv.m → anls/gt/ClusterTrainRCPR_cv.m
diff --git a/gt/ComputeOKS.m → anls/gt/ComputeOKS.m b/gt/ComputeOKS.m → anls/gt/ComputeOKS.m
diff --git a/gt/ComputeOKSPrecisionTable.m → anls/gt/ComputeOKSPrecisionTable.m b/gt/ComputeOKSPrecisionTable.m → anls/gt/ComputeOKSPrecisionTable.m
diff --git a/gt/ComputeOKSStats.m → anls/gt/ComputeOKSStats.m b/gt/ComputeOKSStats.m → anls/gt/ComputeOKSStats.m
diff --git a/gt/ComputePixelPrecisionTable.m → anls/gt/ComputePixelPrecisionTable.m b/gt/ComputePixelPrecisionTable.m → anls/gt/ComputePixelPrecisionTable.m
diff --git a/gt/ConvertMayanklocs2CPRphisPr.m → anls/gt/ConvertMayanklocs2CPRphisPr.m b/gt/ConvertMayanklocs2CPRphisPr.m → anls/gt/ConvertMayanklocs2CPRphisPr.m
diff --git a/gt/GT3DReconstruct.m → anls/gt/GT3DReconstruct.m b/gt/GT3DReconstruct.m → anls/gt/GT3DReconstruct.m
diff --git a/gt/GetLabelMovieIdx.m → anls/gt/GetLabelMovieIdx.m b/gt/GetLabelMovieIdx.m → anls/gt/GetLabelMovieIdx.m
diff --git a/gt/IsLabeled.m → anls/gt/IsLabeled.m b/gt/IsLabeled.m → anls/gt/IsLabeled.m
diff --git a/gt/ParseAnimalIdFromFileNames.m → anls/gt/ParseAnimalIdFromFileNames.m b/gt/ParseAnimalIdFromFileNames.m → anls/gt/ParseAnimalIdFromFileNames.m
diff --git a/gt/PlotAPOverX.m → anls/gt/PlotAPOverX.m b/gt/PlotAPOverX.m → anls/gt/PlotAPOverX.m
diff --git a/gt/PlotAPOverX_CompareConditions.m → anls/gt/PlotAPOverX_CompareConditions.m b/gt/PlotAPOverX_CompareConditions.m → anls/gt/PlotAPOverX_CompareConditions.m
diff --git a/gt/PlotExampleLabelsAndPreds.m → anls/gt/PlotExampleLabelsAndPreds.m b/gt/PlotExampleLabelsAndPreds.m → anls/gt/PlotExampleLabelsAndPreds.m
diff --git a/gt/PlotExamplePredictions.m → anls/gt/PlotExamplePredictions.m b/gt/PlotExamplePredictions.m → anls/gt/PlotExamplePredictions.m
diff --git a/gt/PlotFracInliers.m → anls/gt/PlotFracInliers.m b/gt/PlotFracInliers.m → anls/gt/PlotFracInliers.m
diff --git a/gt/PlotOverlayedErrorPrctiles.m → anls/gt/PlotOverlayedErrorPrctiles.m b/gt/PlotOverlayedErrorPrctiles.m → anls/gt/PlotOverlayedErrorPrctiles.m
diff --git a/gt/PlotPerLandmarkErrorPrctiles.m → anls/gt/PlotPerLandmarkErrorPrctiles.m b/gt/PlotPerLandmarkErrorPrctiles.m → anls/gt/PlotPerLandmarkErrorPrctiles.m
diff --git a/gt/PlotPerLandmarkErrorPrctilesOverX.m → anls/gt/PlotPerLandmarkErrorPrctilesOverX.m b/gt/PlotPerLandmarkErrorPrctilesOverX.m → anls/gt/PlotPerLandmarkErrorPrctilesOverX.m
diff --git a/gt/PlotSortedWorstLandmarkError.m → anls/gt/PlotSortedWorstLandmarkError.m b/gt/PlotSortedWorstLandmarkError.m → anls/gt/PlotSortedWorstLandmarkError.m
diff --git a/gt/PlotWorstLandmarkErrorOverX.m → anls/gt/PlotWorstLandmarkErrorOverX.m b/gt/PlotWorstLandmarkErrorOverX.m → anls/gt/PlotWorstLandmarkErrorOverX.m
diff --git a/gt/PrintAllExpPrecisionTable.m → anls/gt/PrintAllExpPrecisionTable.m b/gt/PrintAllExpPrecisionTable.m → anls/gt/PrintAllExpPrecisionTable.m
diff --git a/gt/SHGTInfo2CondData.m → anls/gt/SHGTInfo2CondData.m b/gt/SHGTInfo2CondData.m → anls/gt/SHGTInfo2CondData.m
diff --git a/gt/ScriptAddMoreTrackingData20170419.m → anls/gt/ScriptAddMoreTrackingData20170419.m b/gt/ScriptAddMoreTrackingData20170419.m → anls/gt/ScriptAddMoreTrackingData20170419.m
diff --git a/gt/ScriptGT3DReconstruct_20190718.m → anls/gt/ScriptGT3DReconstruct_20190718.m b/gt/ScriptGT3DReconstruct_20190718.m → anls/gt/ScriptGT3DReconstruct_20190718.m
diff --git a/gt/ScriptGTDataSetParameters.m → anls/gt/ScriptGTDataSetParameters.m b/gt/ScriptGTDataSetParameters.m → anls/gt/ScriptGTDataSetParameters.m
diff --git a/gt/ScriptLoadNNGTData20170410.m → anls/gt/ScriptLoadNNGTData20170410.m b/gt/ScriptLoadNNGTData20170410.m → anls/gt/ScriptLoadNNGTData20170410.m
diff --git a/gt/ScriptLoadNNGTData_Stephen20170410.m → anls/gt/ScriptLoadNNGTData_Stephen20170410.m b/gt/ScriptLoadNNGTData_Stephen20170410.m → anls/gt/ScriptLoadNNGTData_Stephen20170410.m
diff --git a/gt/ScriptPlotAnnotatorError20190530.m → anls/gt/ScriptPlotAnnotatorError20190530.m b/gt/ScriptPlotAnnotatorError20190530.m → anls/gt/ScriptPlotAnnotatorError20190530.m
diff --git a/gt/ScriptPlotGTAccuracy20170410.m → anls/gt/ScriptPlotGTAccuracy20170410.m b/gt/ScriptPlotGTAccuracy20170410.m → anls/gt/ScriptPlotGTAccuracy20170410.m
diff --git a/gt/ScriptPlotGTAccuracy20190406.m → anls/gt/ScriptPlotGTAccuracy20190406.m b/gt/ScriptPlotGTAccuracy20190406.m → anls/gt/ScriptPlotGTAccuracy20190406.m
diff --git a/gt/ScriptPlotGTResults20190521.m → anls/gt/ScriptPlotGTResults20190521.m b/gt/ScriptPlotGTResults20190521.m → anls/gt/ScriptPlotGTResults20190521.m
diff --git a/...criptPlotStephenCalibrationInfo20180517.m → ...criptPlotStephenCalibrationInfo20180517.m b/...criptPlotStephenCalibrationInfo20180517.m → ...criptPlotStephenCalibrationInfo20180517.m
diff --git a/gt/ScriptPrintPrecisionTables20190716.m → anls/gt/ScriptPrintPrecisionTables20190716.m b/gt/ScriptPrintPrecisionTables20190716.m → anls/gt/ScriptPrintPrecisionTables20190716.m
diff --git a/gt/ScriptSelectGTData_StephenFlies20180603.m → ...ScriptSelectGTData_StephenFlies20180603.m b/gt/ScriptSelectGTData_StephenFlies20180603.m → ...ScriptSelectGTData_StephenFlies20180603.m
diff --git a/gt/ScriptTrainRCPR20170411.m → anls/gt/ScriptTrainRCPR20170411.m b/gt/ScriptTrainRCPR20170411.m → anls/gt/ScriptTrainRCPR20170411.m
diff --git a/gt/SelectRandomButSpacedFrames.m → anls/gt/SelectRandomButSpacedFrames.m b/gt/SelectRandomButSpacedFrames.m → anls/gt/SelectRandomButSpacedFrames.m
diff --git a/gt/StephenVideo2Identifier.m → anls/gt/StephenVideo2Identifier.m b/gt/StephenVideo2Identifier.m → anls/gt/StephenVideo2Identifier.m
diff --git a/gt/TuneOKSKappa.m → anls/gt/TuneOKSKappa.m b/gt/TuneOKSKappa.m → anls/gt/TuneOKSKappa.m
diff --git a/gt/VideoPath2Identifier.m → anls/gt/VideoPath2Identifier.m b/gt/VideoPath2Identifier.m → anls/gt/VideoPath2Identifier.m
diff --git a/gt/createSHGTproj20180606.m → anls/gt/createSHGTproj20180606.m b/gt/createSHGTproj20180606.m → anls/gt/createSHGTproj20180606.m
diff --git a/gt/endsWith_APT.m → anls/gt/endsWith_APT.m b/gt/endsWith_APT.m → anls/gt/endsWith_APT.m
diff --git a/gt/intraizeMovie.m → anls/gt/intraizeMovie.m b/gt/intraizeMovie.m → anls/gt/intraizeMovie.m
diff --git a/gt/isIntraMovie.m → anls/gt/isIntraMovie.m b/gt/isIntraMovie.m → anls/gt/isIntraMovie.m
diff --git a/gt/nbHistEqExperiment_Larva_201808.m → anls/gt/nbHistEqExperiment_Larva_201808.m b/gt/nbHistEqExperiment_Larva_201808.m → anls/gt/nbHistEqExperiment_Larva_201808.m
diff --git a/gt2sh/croproi.m → anls/gt2sh/croproi.m b/gt2sh/croproi.m → anls/gt2sh/croproi.m
diff --git a/gt2sh/cropsmart.m → anls/gt2sh/cropsmart.m b/gt2sh/cropsmart.m → anls/gt2sh/cropsmart.m
diff --git a/gt2sh/easymontage.m → anls/gt2sh/easymontage.m b/gt2sh/easymontage.m → anls/gt2sh/easymontage.m
diff --git a/gt2sh/findCat.m → anls/gt2sh/findCat.m b/gt2sh/findCat.m → anls/gt2sh/findCat.m
diff --git a/gt2sh/findMovDateCat.m → anls/gt2sh/findMovDateCat.m b/gt2sh/findMovDateCat.m → anls/gt2sh/findMovDateCat.m
diff --git a/gt2sh/finddups.m → anls/gt2sh/finddups.m b/gt2sh/finddups.m → anls/gt2sh/finddups.m
diff --git a/gt2sh/imageReadOddity.m → anls/gt2sh/imageReadOddity.m b/gt2sh/imageReadOddity.m → anls/gt2sh/imageReadOddity.m
diff --git a/gt2sh/kinematCompileSH.m → anls/gt2sh/kinematCompileSH.m b/gt2sh/kinematCompileSH.m → anls/gt2sh/kinematCompileSH.m
diff --git a/gt2sh/lblCompileSH.m → anls/gt2sh/lblCompileSH.m b/gt2sh/lblCompileSH.m → anls/gt2sh/lblCompileSH.m
diff --git a/gt2sh/loadStephensTrainingData16032016.m → .../gt2sh/loadStephensTrainingData16032016.m b/gt2sh/loadStephensTrainingData16032016.m → .../gt2sh/loadStephensTrainingData16032016.m
diff --git a/gt2sh/makeBBoxes.m → anls/gt2sh/makeBBoxes.m b/gt2sh/makeBBoxes.m → anls/gt2sh/makeBBoxes.m
diff --git a/gt2sh/movCrop.fig → anls/gt2sh/movCrop.fig b/gt2sh/movCrop.fig → anls/gt2sh/movCrop.fig
diff --git a/gt2sh/movCrop.m → anls/gt2sh/movCrop.m b/gt2sh/movCrop.m → anls/gt2sh/movCrop.m
diff --git a/gt2sh/nbAssembleTrainingData20180415.m → anls/gt2sh/nbAssembleTrainingData20180415.m b/gt2sh/nbAssembleTrainingData20180415.m → anls/gt2sh/nbAssembleTrainingData20180415.m
diff --git a/...bBrowseCleanReconciledTrainData20180416.m → ...bBrowseCleanReconciledTrainData20180416.m b/...bBrowseCleanReconciledTrainData20180416.m → ...bBrowseCleanReconciledTrainData20180416.m
diff --git a/gt2sh/nbCrop2.m → anls/gt2sh/nbCrop2.m b/gt2sh/nbCrop2.m → anls/gt2sh/nbCrop2.m
diff --git a/gt2sh/nbExp1.m → anls/gt2sh/nbExp1.m b/gt2sh/nbExp1.m → anls/gt2sh/nbExp1.m
diff --git a/gt2sh/nbExp2.m → anls/gt2sh/nbExp2.m b/gt2sh/nbExp2.m → anls/gt2sh/nbExp2.m
diff --git a/gt2sh/nbFlyLists.m → anls/gt2sh/nbFlyLists.m b/gt2sh/nbFlyLists.m → anls/gt2sh/nbFlyLists.m
diff --git a/gt2sh/nbGTDataPlan.m → anls/gt2sh/nbGTDataPlan.m b/gt2sh/nbGTDataPlan.m → anls/gt2sh/nbGTDataPlan.m
diff --git a/gt2sh/nbGT_20180726.m → anls/gt2sh/nbGT_20180726.m b/gt2sh/nbGT_20180726.m → anls/gt2sh/nbGT_20180726.m
diff --git a/gt2sh/nbGTmain20180611.m → anls/gt2sh/nbGTmain20180611.m b/gt2sh/nbGTmain20180611.m → anls/gt2sh/nbGTmain20180611.m
diff --git a/gt2sh/nbGTmain20180611_createMegaSHProj.m → ...gt2sh/nbGTmain20180611_createMegaSHProj.m b/gt2sh/nbGTmain20180611_createMegaSHProj.m → ...gt2sh/nbGTmain20180611_createMegaSHProj.m
diff --git a/gt2sh/nbGenHPOptimSplits20180713.m → anls/gt2sh/nbGenHPOptimSplits20180713.m b/gt2sh/nbGenHPOptimSplits20180713.m → anls/gt2sh/nbGenHPOptimSplits20180713.m
diff --git a/gt2sh/nbGenMayankTrainingData20180415.m → anls/gt2sh/nbGenMayankTrainingData20180415.m b/gt2sh/nbGenMayankTrainingData20180415.m → anls/gt2sh/nbGenMayankTrainingData20180415.m
diff --git a/gt2sh/nbGenSHTrainingData20180415.m → anls/gt2sh/nbGenSHTrainingData20180415.m b/gt2sh/nbGenSHTrainingData20180415.m → anls/gt2sh/nbGenSHTrainingData20180415.m
diff --git a/gt2sh/nbGenSplits20180416.m → anls/gt2sh/nbGenSplits20180416.m b/gt2sh/nbGenSplits20180416.m → anls/gt2sh/nbGenSplits20180416.m
diff --git a/gt2sh/nbReconcileSHvsMayank20180415.m → anls/gt2sh/nbReconcileSHvsMayank20180415.m b/gt2sh/nbReconcileSHvsMayank20180415.m → anls/gt2sh/nbReconcileSHvsMayank20180415.m
diff --git a/gt2sh/nb_hpo.m → anls/gt2sh/nb_hpo.m b/gt2sh/nb_hpo.m → anls/gt2sh/nb_hpo.m
diff --git a/gt2sh/nb_hpo_ar.m → anls/gt2sh/nb_hpo_ar.m b/gt2sh/nb_hpo_ar.m → anls/gt2sh/nb_hpo_ar.m
diff --git a/gt2sh/nb_hpo_trntrk.m → anls/gt2sh/nb_hpo_trntrk.m b/gt2sh/nb_hpo_trntrk.m → anls/gt2sh/nb_hpo_trntrk.m
diff --git a/gt2sh/numarr2trimcellstr.m → anls/gt2sh/numarr2trimcellstr.m b/gt2sh/numarr2trimcellstr.m → anls/gt2sh/numarr2trimcellstr.m
diff --git a/gt2sh/pLbl2xyvSH.m → anls/gt2sh/pLbl2xyvSH.m b/gt2sh/pLbl2xyvSH.m → anls/gt2sh/pLbl2xyvSH.m
diff --git a/gt2sh/parseSHfullmovie.m → anls/gt2sh/parseSHfullmovie.m b/gt2sh/parseSHfullmovie.m → anls/gt2sh/parseSHfullmovie.m
diff --git a/gt2sh/randntruncated.m → anls/gt2sh/randntruncated.m b/gt2sh/randntruncated.m → anls/gt2sh/randntruncated.m
diff --git a/gt2sh/readAllFrames.m → anls/gt2sh/readAllFrames.m b/gt2sh/readAllFrames.m → anls/gt2sh/readAllFrames.m
diff --git a/gt2sh/shcropx.m → anls/gt2sh/shcropx.m b/gt2sh/shcropx.m → anls/gt2sh/shcropx.m
diff --git a/gt2sh/shcropy.m → anls/gt2sh/shcropy.m b/gt2sh/shcropy.m → anls/gt2sh/shcropy.m
diff --git a/gt2sh/shmovieCat.m → anls/gt2sh/shmovieCat.m b/gt2sh/shmovieCat.m → anls/gt2sh/shmovieCat.m
diff --git a/gt2sh/simpletrack.m → anls/gt2sh/simpletrack.m b/gt2sh/simpletrack.m → anls/gt2sh/simpletrack.m
diff --git a/gt2sh/simpletrain.m → anls/gt2sh/simpletrain.m b/gt2sh/simpletrain.m → anls/gt2sh/simpletrain.m
diff --git a/gt2sh/simplexv.m → anls/gt2sh/simplexv.m b/gt2sh/simplexv.m → anls/gt2sh/simplexv.m
diff --git a/gt2sh/sortedsummary.m → anls/gt2sh/sortedsummary.m b/gt2sh/sortedsummary.m → anls/gt2sh/sortedsummary.m
diff --git a/gt2sh/stratifiedGroupSplit.m → anls/gt2sh/stratifiedGroupSplit.m b/gt2sh/stratifiedGroupSplit.m → anls/gt2sh/stratifiedGroupSplit.m
diff --git a/arc/LabelCoreErrorCorrect.m b/arc/LabelCoreErrorCorrect.m