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Summary Period: 2005-06-02 to 2005-05-23 (Commits 17-66 of 266)

schmidt 2005-06-02 19:32

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40 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/util: DynamicLoading.java (+1 -1)
• studioBase/src/examples: ExAADistribution.java (+3 -1), ExAADistributionDiffPlot.java (+3 -1), ExAADistributionHist.java (+3 -1), ExAAFrequency.java (+3 -1), ExAaDistributionAndFrequences.java (+2 -1), ExAaDistributionAndFrequences2.java (+2 -1), ExLengthAgainstHyphob.java (+2 -1), ExMannWhitneyApp.java (+3 -1), ExPIAbsHist.java (+3 -2), ExPedantXMLCompare.java (+2 -1), ExShapiroApp.java (+3 -1), ExSwissProt.java (+3 -1), LoadFasta.java (+2 -1), Proteomics.java (+2 -2), ProteomicsTest.java (+3 -3)

schmidt 2005-06-02 19:07

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206 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/gui: Engine1Thread.java (+102 -101), Engine2Thread.java (+78 -76), VisualisationThread.java (+6 -1), WindowMain.java (+11 -1)
• studioBase/src/de/tum/binfo/proj/util: DynamicLoading.java (+9 -15)

schmidt 2005-06-02 18:47

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3 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/gui: WindowMain.java (+3 -1)

schmidt 2005-06-02 18:41

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35 lines of code changed in:

• studioBase/src/examples: TestTripletDistributions.java (+35 -23)

schmidt 2005-06-02 18:35

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364 lines of code changed in:

• studioBase/src/de/tum/binfo/proj: Definitions.java (+2 -1)
• studioBase/src/de/tum/binfo/proj/engine: AaDistribution.java (+2 -1), AaDistributionDimer.java (+2 -1), AaDistributionTriplets.java (+2 -1), AaFrequences.java (+1 -1), CompareNumericDistributions.java (+1), DigestTryptic.java (+1 -1), DigestTrypticNoDoubles.java (+1 -1), Engine.java (+1), Engine1.java (+1 -1), Engine2.java (+2 -1), EngineResults.java (+1 -1), FrequencyPlotAndMannWhitneyTest.java (+1 -1), HydrophobicityCompare.java (+1 -1), IEngine.java (+1 -1), IEngine1.java (+1 -1), IEngine2.java (+1 -1), IEngineN.java (+1 -1), IEngineResults.java (+2 -1), LengthAgainstHyphob.java (+1 -1), LengthCompare.java (+1 -1), MassCompare.java (+1 -1), PICompare.java (+1 -1), PIabs.java (+1 -1), PedantXMLCompare.java (+2 -1), ScopClassDistribution.java (+2 -1)
• studioBase/src/de/tum/binfo/proj/input: IDataFile.java (+1 -1), IFlatFile.java (+1 -1), IGenericXMLFile.java (+1 -1), IInput.java (+1 -1), IJobTemplate.java (+1), IPedant.java (+1 -1), IPedantWithFilter.java (+1 -1), ISeqProperties.java (+1 -1), ISequenceSet.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/input/classes: DataFile.java (+1 -1), Filter.java (+1 -1), FlatFile.java (+1 -1), GenericXMLFile.java (+1 -1), Input.java (+1 -1), Pedant.java (+142 -152), PedantFilter.java (+1 -1), PedantWithFilter.java (+1 -1), SeqProperties.java (+1 -1), SequenceSet.java (+1 -1), XMLFile.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/rinterface: RException.java (+1 -1), RExceptionNotEnoughData.java (+1 -1), RParser.java (+1 -1), RPiper.java (+2 -1), Rtest.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/rinterface/vis: Barplot.java (+1 -1), Hist.java (+1 -1), IPlotSettings.java (+1 -1), Par.java (+1 -1), PlotSettingsHull.java (+1 -1), PlotWithLim.java (+1 -1), Title.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/statistic: Ansari.java (+2 -1), Bartlett.java (+1), Binom.java (+1), Box.java (+2 -1), ChiSq.java (+1 -1), Fisher.java (+1 -1), Fligner.java (+1 -1), Friedman.java (+1 -1), ITest.java (+2), KS.java (+1 -1), Kruskal.java (+1 -1), MannWhitney.java (+1 -1), MantelHaen.java (+1 -1), McNemar.java (+1 -1), Mood.java (+1 -1), OneWay.java (+1 -1), PP.java (+1 -1), PairwiseProp.java (+1 -1), PairwiseTTest.java (+1 -1), PairwiseWilcox.java (+1 -1), PearsonCorTest.java (+1 -1), PowerTTest.java (+1 -1), Prop.java (+1 -1), PropTrend.java (+1 -1), Quade.java (+1 -1), ShapiroTest.java (+1 -1), TTest.java (+1 -1), Test.java (+1), Wilcoxon.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/statistic/ext: Compare2Distributions.java (+2), MannWhitneyApp.java (+1), ShapiroTestApp.java (+1 -1), TTestApp.java (+2 -1)
• studioBase/src/de/tum/binfo/proj/statistic/pdef: Checkbox.java (+1 -1), Radiobutton.java (+1 -1), Spinner.java (+1 -1), Textarea.java (+1 -1), Textfield.java (+1 -1)
• studioBase/src/examples: TestDimerDistributions.java (+35 -32), TestDimerDistributionsGenome.java (+78 -73)

hager 2005-06-02 18:26

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19 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: PedantXMLCompare.java (+19 -56)

schmidt 2005-06-02 17:04

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16 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/gui: TestThread.java (+9 -3)
• studioBase/src/de/tum/binfo/proj/statistic: ITest.java (+2), Test.java (+5)

schmidt 2005-06-02 15:41

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37 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: PIabs.java (+6)
• studioBase/src/de/tum/binfo/proj/gui: Engine1Thread.java (+2 -1), Engine2Thread.java (+2 -1), TestThread.java (+3 -1), VisualisationThread.java (+2 -1), WindowMain.java (+13 -10)
• studioBase/src/de/tum/binfo/proj/util: DynamicLoading.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/visualisation: LengthAgainstHyphobPlot.java (+6 -2)
• studioBase/src/examples: ExLengthAgainstHyphob.java (+2 -1)

schmidt 2005-06-02 13:22

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4 lines of code changed in:

• studioBase/src/examples: ExPedantXMLCompare.java (+1 -2), Proteomics.java (+3 -3)

schmidt 2005-06-02 11:35

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2 lines of code changed in:

• studioBase/src/examples: ExAADistributionDiffPlot.java (-3), ExPedantXMLCompare.java (+2)

schmidt 2005-06-02 10:43

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2 lines of code changed in:

• studioBase/src/examples: ExPedantXMLCompare.java (+2 -14)

schmidt 2005-06-01 20:20

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1 lines of code changed in:

• studioBase/src/examples: ExAADistributionDiffPlot.java (+1 -1)

schmidt 2005-06-01 20:13

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22 lines of code changed in:

• studioBase/src/examples: ExAADistributionDiffPlot.java (new 4), ExMannWhitneyApp.java (+17 -4)

schmidt 2005-06-01 19:59

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15 lines of code changed in:

• studioBase/src/examples: ExShapiroApp.java (+2 -4), ProteomicsTest.java (+13 -10)

schmidt 2005-06-01 19:26

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74 lines of code changed in:

• studioBase/src/examples: ExAaDistributionAndFrequences2.java (+66 -69), ExMW.java (del), ExMannWhitneyApp.java (new 4), ExShapiro.java (del), ExShapiroApp.java (new 4)

schmidt 2005-06-01 19:12

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16 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine/old: HydrophobicityCompare.java (del), LengthCompare.java (del), MassCompareDB.java (del), MassCompareOld.java (del), PICompare.java (del), PIcompareDB.java (del), PIcompareWithoutTest.java (del)
• studioBase/src/de/tum/binfo/proj/util: DynamicLoading.java (+3 -3)
• studioBase/src/examples: ExReflections.java (+7 -5), ExReflections2.java (+6 -6)

schmidt 2005-06-01 19:03

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1 lines of code changed in:

• studioBase/src/examples: ExAADistribution.java (+1 -1)

schmidt 2005-06-01 18:22

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23 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/statistic/ext: Compare2Distributions.java (+20 -19)
• studioBase/src/examples: ExAADistribution.java (+3 -2)

schmidt 2005-06-01 18:10

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1 lines of code changed in:

• studioBase/src/examples: ExAADistribution.java (+1 -1)

schmidt 2005-06-01 18:03

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83 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/statistic: ITest.java (+1 -1), ShapiroTest.java (+31)
• studioBase/src/de/tum/binfo/proj/statistic/ext: Compare2Distributions.java (+2 -1)
• studioBase/src/de/tum/binfo/proj/util: DynamicLoading.java (+39 -30)
• studioBase/src/examples: ExAADistribution.java (+2 -2), Proteomics.java (+8 -4)

schmidt 2005-06-01 15:10

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8 lines of code changed in:

• studioBase/src/examples: Proteomics.java (+8 -3)

schmidt 2005-06-01 13:49

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599 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: CompareNumericDistributions.java (new 286), Engine.java (+6 -16), HydrophobicityCompare.java (+75 -106), IEngineResults.java (+4), LengthCompare.java (+72 -103), MassCompare.java (+70 -204), MassCompareDB.java (del), PICompare.java (+73 -208), PIcompareDB.java (del), PIcompareWithoutTest.java (del)
• studioBase/src/de/tum/binfo/proj/engine/old: HydrophobicityCompare.java (new), LengthCompare.java (new), MassCompareDB.java (new), MassCompareOld.java (new), PICompare.java (new), PIcompareDB.java (new), PIcompareWithoutTest.java (new)
• studioBase/src/de/tum/binfo/proj/statistic: MannWhitney.java (+6 -5)
• studioBase/src/de/tum/binfo/proj/util: ListTools.java (new)
• studioBase/src/examples: Proteomics.java (+7 -5)

schmidt 2005-05-31 20:22

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5 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/visualisation: PIComparePlot.java (+4 -5)
• studioBase/src/examples: Proteomics.java (+1 -1)

schmidt 2005-05-31 19:32

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24 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/visualisation: PIComparePlot.java (+7 -7)
• studioBase/src/examples: Proteomics.java (+17)

schmidt 2005-05-31 18:49

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336 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: MassCompare.java (+47 -20), PICompare.java (new 208), PIcompare.java (del), PIcompareWithoutTest.java (new)
• studioBase/src/de/tum/binfo/proj/rinterface: RExceptionNotEnoughData.java (new 1)
• studioBase/src/de/tum/binfo/proj/statistic: MannWhitney.java (+14)
• studioBase/src/de/tum/binfo/proj/visualisation: MassComparePlot.java (+6 -4), PIComparePlot.java (+57 -11)
• studioBase/src/examples: Proteomics.java (+3 -3)

schmidt 2005-05-31 14:10

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158 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: EngineResults.java (+12), IEngineResults.java (+4), MassCompare.java (+78 -13)
• studioBase/src/de/tum/binfo/proj/statistic: MannWhitney.java (+38 -9), Test.java (+6 -1)
• studioBase/src/de/tum/binfo/proj/visualisation: MassComparePlot.java (+6 -5), Visualisation.java (+2 -2)
• studioBase/src/examples: Proteomics.java (+4 -4), ProteomicsTest.java (+8 -83)

schmidt 2005-05-31 09:01

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110 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/rinterface: RPiper.java (+5)
• studioBase/src/de/tum/binfo/proj/statistic: ITest.java (+6), MannWhitney.java (+1), Test.java (+8)
• studioBase/src/examples: ExAaDistributionAndFrequences.java (+5 -3), ProteomicsTest.java (new 85)

schmidt 2005-05-27 18:04

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15 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: Engine.java (+1)
• studioBase/src/examples: ExPedantXMLCompare.java (+14 -4)

schmidt 2005-05-27 17:10

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4 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: IEngine1.java (+1 -2), IEngineN.java (new 1)
• studioBase/src/de/tum/binfo/proj/input: IInput.java (+2 -2), all.ucd (changed)

schmidt 2005-05-27 15:42

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26 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)
• studioBase/src/de/tum/binfo/proj/visualisation: IVisualisation.java (+26 -4)

hager 2005-05-27 14:51

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126 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: PedantXMLCompare.java (+61 -59)
• studioBase/src/de/tum/binfo/proj/input/classes: GenericXMLFile.java (+38 -27)
• studioBase/src/de/tum/binfo/proj/rinterface/vis: PlotSettingsHull.java (+14 -6)
• studioBase/src/de/tum/binfo/proj/visualisation: PedantXMLComparePlot.java (+7 -6), Viewer.java (+1 -1)
• studioBase/src/examples: ExAADistribution.java (+1 -1), ExPedantXMLCompare.java (new 4), PedantXMLCompare.java (del)

schmidt 2005-05-27 13:58

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0 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)

schmidt 2005-05-27 13:48

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37 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: Engine.java (+16 -7), IEngine.java (+21 -1)
• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)

hager 2005-05-27 13:35

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471 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: PedantXMLCompare.java (new 447)
• studioBase/src/de/tum/binfo/proj/input: IGenericXMLFile.java (+1 -1), IXMLFile.java (del)
• studioBase/src/de/tum/binfo/proj/input/classes: XMLFile.java (new 2)
• studioBase/src/de/tum/binfo/proj/visualisation: PedantXMLComparePlot.java (new 21)

schmidt 2005-05-27 13:02

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8 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: EngineMeta1.java (del), EngineMeta2.java (del), IEngine.java (+8 -1), IEngineMeta1.java (del), IEngineMeta2.java (del)
• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)

hager 2005-05-27 13:00

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0 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: PedantXMLCompare.java (del)
• studioBase/src/de/tum/binfo/proj/input: XMLFile.java (del)
• studioBase/src/de/tum/binfo/proj/visualisation: PedantXMLComparePlot.java (del)

schmidt 2005-05-27 09:32

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0 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)

schmidt 2005-05-26 23:09

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3 lines of code changed in:

• studioBase/src/examples: ExPIAbsHist.java (new 3), TestDisease.java (del)

schmidt 2005-05-26 22:58

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4 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/visualisation: AaDistributionHistogram.java (+3)
• studioBase/src/examples: ExAADistributionHist.java (new 1)

schmidt 2005-05-26 22:37

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403 lines of code changed in:

• studioBase/src/atest: TestDisease.java (del), ThTest.java (del)
• studioBase/src/de/tum/binfo/proj/engine: LengthAgainstHyphob.java (+81 -89)
• studioBase/src/de/tum/binfo/proj/statistic: PearsonCorTest.java (+1 -1), Test.java (+9 -3)
• studioBase/src/de/tum/binfo/proj/statistic/ext: ShapiroTestApp.java (+11 -1)
• studioBase/src/examples: ExAADistribution.java (new 2), ExAAFrequency.java (new 1), ExAaDistributionAndFrequences.java (new 3), ExAaDistributionAndFrequences2.java (new 69), ExGui.java (new), ExLengthAgainstHyphob.java (new 1), ExMW.java (new), ExPedant.java (new 4), ExReflections.java (new 5), ExReflections2.java (new 6), ExScopClasses.java (new 3), ExShapiro.java (new), ExSwissProt.java (new 1), LoadFasta.java (new 1), PedantXMLCompare.java (new), Proteomics.java (new 77), TestDimerDistributions.java (new 32), TestDimerDistributionsGenome.java (new 73), TestDisease.java (new), TestTripletDistributions.java (new 23)

schmidt 2005-05-26 15:26

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29 lines of code changed in:

• studioBase/src/atest: ThTest.java (+10 -9)
• studioBase/src/de/tum/binfo/proj: Definitions.java (+1)
• studioBase/src/de/tum/binfo/proj/rinterface/vis: Barplot.java (+9 -1)
• studioBase/src/de/tum/binfo/proj/visualisation: HydrophobicityComparePlot.java (+4 -3), MassComparePlot.java (+2 -2), PIComparePlot.java (+3 -5)

schmidt 2005-05-25 16:45

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1 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: IEngineMeta2.java (+1)
• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)

schmidt 2005-05-25 16:36

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136 lines of code changed in:

• studioBase/src/atest: ThTest.java (+2 -2)
• studioBase/src/de/tum/binfo/proj/engine: Engine1.java (+1 -1), Engine2.java (+2 -2), EngineResults.java (+112 -60), FrequencyPlotAndMannWhitneyTest.java (+1 -1), IEngine1.java (+3 -1), IEngineMeta2.java (+3 -3)
• studioBase/src/de/tum/binfo/proj/input: IInput.java (+2 -2), XMLFile.java (+1 -1), all.ucd (changed)
• studioBase/src/de/tum/binfo/proj/input/classes: FlatFile.java (+1 -1), GenericXMLFile.java (+1 -1), Input.java (+2 -2), Pedant.java (+5 -5), classes-i.ucd (changed)

schmidt 2005-05-25 16:04

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9 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: Engine2.java (+1 -1), EngineMeta1.java (new), EngineMeta2.java (new), IEngineMeta1.java (new), IEngineMeta2.java (new 3), IEngineResults.java (+3 -1)
• studioBase/src/de/tum/binfo/proj/input: all.ucd (changed)
• studioBase/src/de/tum/binfo/proj/visualisation: HydrophobicityComparePlot.java (+1 -1), Visualisation.java (+1 -1)

schmidt 2005-05-24 18:38

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155 lines of code changed in:

• studioBase/src/atest: ThTest.java (+18 -2)
• studioBase/src/de/tum/binfo/proj/engine: HydrophobicityCompare.java (new 106), LengthAgainstHyphob.java (+28 -21)
• studioBase/src/de/tum/binfo/proj/visualisation: HydrophobicityComparePlot.java (new 3)

schmidt 2005-05-24 17:58

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330 lines of code changed in:

• studioBase/src/atest: ThTest.java (+223 -233)
• studioBase/src/de/tum/binfo/proj/engine: LengthCompare.java (new 103)
• studioBase/src/de/tum/binfo/proj/rinterface/vis: Par.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/visualisation: LengthComparePlot.java (new 3)

schmidt 2005-05-24 16:57

neu mit doc

55 lines of code changed in:

• studioBase/src/atest: TestDisease.java (new), TestPlotCfg.java (del), ThTest.java (+2 -1)
• studioBase/src/de/tum/binfo/proj/engine: PIabs.java (new)
• studioBase/src/de/tum/binfo/proj/rinterface: RException.java (new 1), RPiper.java (-1), Rtest.java (-1)
• studioBase/src/de/tum/binfo/proj/rinterface/vis: Barplot.java (new 1), Hist.java (new 1), IPlotSettings.java (new 1), Par.java (new 3), PlotSettingsHull.java (new 6), PlotWithLim.java (new 1), Title.java (new 1)
• studioBase/src/de/tum/binfo/proj/statistic: Ansari.java (+1 -1), Bartlett.java (+1 -1), Binom.java (+1 -1), MannWhitney.java (+1 -1), PearsonCorTest.java (+1 -1), ShapiroTest.java (+1 -1), TTest.java (+1 -1), Test.java (+1 -1), Wilcoxon.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/util/exception: RException.java (del)
• studioBase/src/de/tum/binfo/proj/visualisation: AaDistributionBoxPlot.java (+1 -1), AaDistributionHistogram.java (+1 -1), AaFrequencesDiffPlot.java (+1 -1), AaFrequencesPlot.java (+1 -1), AaStripChart.java (+1 -1), IVisualisation.java (+1 -1), LengthAgainstHyphobPlot.java (+1 -1), MassComparePlot.java (+16 -13), PIComparePlot.java (+2 -2), PIabsHist.java (new), PedantXMLComparePlot.java (+1 -1), Visualisation.java (+3 -3)
• studioBase/src/de/tum/binfo/proj/visualisation/cfg: IPlotSettings.java (del), Par.java (del), PlotSettings.java (del), PlotSettingsHull.java (del), Title.java (del)

schmidt 2005-05-24 12:10

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10 lines of code changed in:

• studioBase/src/atest: Binning.java (del), ThTest.java (+1)
• studioBase/src/de/tum/binfo/proj/engine: MassCompare.java (+1 -1), MassCompareDB.java (+4), PIcompareDB.java (+4)

schmidt 2005-05-23 22:22

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0 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/visualisation/cfg: BoxPlot.java (del)

schmidt 2005-05-23 22:17

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54 lines of code changed in:

• studioBase/src/de/tum/binfo/proj/engine: FrequencyPlotAndMannWhitneyTest.java (+1 -1)
• studioBase/src/de/tum/binfo/proj/visualisation: AaFrequencesDiffPlot.java (+1 -1), AaFrequencesPlot.java (+3 -3), MassComparePlot.java (+8 -3), PedantXMLComparePlot.java (+2 -2), ScopVisualisation.java (+3 -3), Visualisation.java (+21 -6)
• studioBase/src/de/tum/binfo/proj/visualisation/cfg: Par.java (+10 -11), Title.java (new)

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