Examples with ConfidenceIntervalPlotPanel org.vcell.optimization.gui.ConfidenceIntervalPlotPanel used on opensource projects

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Example 1 with ConfidenceIntervalPlotPanel

use of org.vcell.optimization.gui.ConfidenceIntervalPlotPanel in project vcell by virtualcell.

the class FRAPDiffOneParamPanel method showParameterEvaluation.

public void showParameterEvaluation() {
    AsynchClientTask evaluateTask = new AsynchClientTask("Prepare to evaluate parameters ...", AsynchClientTask.TASKTYPE_NONSWING_BLOCKING) {

        public void run(Hashtable<String, Object> hashTable) throws Exception {
            String errorStr = checkParameters();
            if (!errorStr.equals("")) {
                throw new IllegalArgumentException(errorStr);
            }
        }
    };
    AsynchClientTask showResultTask = new AsynchClientTask("Showing profile likelihood and confidence intervals ...", AsynchClientTask.TASKTYPE_SWING_BLOCKING) {

        public void run(Hashtable<String, Object> hashTable) throws Exception {
            ProfileData[] profileData = frapOptData.getExpFrapStudy().getProfileData_oneDiffComponent();
            if (profileData != null && profileData.length > 0) {
                // put plotpanes of different parameters' profile likelihoods into a base panel
                JPanel basePanel = new JPanel();
                basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
                for (int i = 0; i < profileData.length; i++) {
                    ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
                    plotPanel.setProfileSummaryData(FRAPOptimizationUtils.getSummaryFromProfileData(profileData[i]));
                    plotPanel.setBorder(new EtchedBorder());
                    String paramName = "";
                    if (profileData[i].getProfileDataElements().size() > 0) {
                        paramName = profileData[i].getProfileDataElements().get(0).getParamName();
                    }
                    ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
                    basePanel.add(profileDataPanel);
                }
                JScrollPane scrollPane = new JScrollPane(basePanel);
                scrollPane.setAutoscrolls(true);
                scrollPane.setPreferredSize(new Dimension(620, 600));
                scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
                scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
                // show plots in a dialog
                DialogUtils.showComponentCloseDialog(FRAPDiffOneParamPanel.this, scrollPane, "Profile Likelihood of Parameters");
            }
        }
    };
    // dispatch
    ClientTaskDispatcher.dispatch(FRAPDiffOneParamPanel.this, new Hashtable<String, Object>(), new AsynchClientTask[] { evaluateTask, showResultTask }, false, true, null, true);
}
Also used : JScrollPane(javax.swing.JScrollPane) JPanel(javax.swing.JPanel) AsynchClientTask(cbit.vcell.client.task.AsynchClientTask) Hashtable(java.util.Hashtable) BoxLayout(javax.swing.BoxLayout) ProfileData(org.vcell.optimization.ProfileData) Dimension(java.awt.Dimension) EtchedBorder(javax.swing.border.EtchedBorder) ConfidenceIntervalPlotPanel(org.vcell.optimization.gui.ConfidenceIntervalPlotPanel) ProfileDataPanel(org.vcell.optimization.gui.ProfileDataPanel)

Example 2 with ConfidenceIntervalPlotPanel

use of org.vcell.optimization.gui.ConfidenceIntervalPlotPanel in project vcell by virtualcell.

the class FRAPDiffTwoParamPanel method showParameterEvaluation.

public void showParameterEvaluation() {
    AsynchClientTask evaluateTask = new AsynchClientTask("Prepare to evaluate parameters ...", AsynchClientTask.TASKTYPE_NONSWING_BLOCKING) {

        public void run(Hashtable<String, Object> hashTable) throws Exception {
            String errorStr = checkParameters();
            if (!errorStr.equals("")) {
                throw new IllegalArgumentException(errorStr);
            }
        }
    };
    AsynchClientTask showResultTask = new AsynchClientTask("Showing profile likelihood and confidence intervals ...", AsynchClientTask.TASKTYPE_SWING_BLOCKING) {

        public void run(Hashtable<String, Object> hashTable) throws Exception {
            ProfileData[] profileData = frapOptData.getExpFrapStudy().getProfileData_twoDiffComponents();
            if (profileData != null && profileData.length > 0) {
                JPanel basePanel = new JPanel();
                // put plotpanes of different parameters' profile likelihoods into a base panel
                basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
                for (int i = 0; i < profileData.length; i++) {
                    ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
                    plotPanel.setProfileSummaryData(FRAPOptimizationUtils.getSummaryFromProfileData(profileData[i]));
                    plotPanel.setBorder(new EtchedBorder());
                    String paramName = "";
                    if (profileData[i].getProfileDataElements().size() > 0) {
                        paramName = profileData[i].getProfileDataElements().get(0).getParamName();
                    }
                    ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
                    basePanel.add(profileDataPanel);
                }
                JScrollPane scrollPane = new JScrollPane(basePanel);
                scrollPane.setAutoscrolls(true);
                scrollPane.setPreferredSize(new Dimension(620, 600));
                scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
                scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
                // show plots in a dialog
                DialogUtils.showComponentCloseDialog(FRAPDiffTwoParamPanel.this, scrollPane, "Profile Likelihood of Parameters");
            }
        }
    };
    // dispatch
    ClientTaskDispatcher.dispatch(FRAPDiffTwoParamPanel.this, new Hashtable<String, Object>(), new AsynchClientTask[] { evaluateTask, showResultTask }, false, true, null, true);
}
Also used : JScrollPane(javax.swing.JScrollPane) JPanel(javax.swing.JPanel) AsynchClientTask(cbit.vcell.client.task.AsynchClientTask) Hashtable(java.util.Hashtable) BoxLayout(javax.swing.BoxLayout) ProfileData(org.vcell.optimization.ProfileData) Dimension(java.awt.Dimension) EtchedBorder(javax.swing.border.EtchedBorder) ConfidenceIntervalPlotPanel(org.vcell.optimization.gui.ConfidenceIntervalPlotPanel) ProfileDataPanel(org.vcell.optimization.gui.ProfileDataPanel)

Example 3 with ConfidenceIntervalPlotPanel

use of org.vcell.optimization.gui.ConfidenceIntervalPlotPanel in project vcell by virtualcell.

the class FRAPReacOffRateParametersPanel method showParameterEvaluation.

public void showParameterEvaluation() {
    AsynchClientTask evaluateTask = new AsynchClientTask("Prepare to evaluate parameters ...", AsynchClientTask.TASKTYPE_NONSWING_BLOCKING) {

        public void run(Hashtable<String, Object> hashTable) throws Exception {
            String errorStr = checkParameters();
            if (!errorStr.equals("")) {
                throw new IllegalArgumentException(errorStr);
            }
        }
    };
    AsynchClientTask showResultTask = new AsynchClientTask("Showing profile likelihood and confidence intervals ...", AsynchClientTask.TASKTYPE_SWING_BLOCKING) {

        public void run(Hashtable<String, Object> hashTable) throws Exception {
            ProfileData[] profileData = frapWorkspace.getWorkingFrapStudy().getProfileData_reactionOffRate();
            if (profileData != null && profileData.length > 0) {
                // put plotpanes of different parameters' profile likelihoods into a base panel
                JPanel basePanel = new JPanel();
                basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
                for (int i = 0; i < profileData.length; i++) {
                    ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
                    plotPanel.setProfileSummaryData(FRAPOptimizationUtils.getSummaryFromProfileData(profileData[i]));
                    plotPanel.setBorder(new EtchedBorder());
                    String paramName = "";
                    if (profileData[i].getProfileDataElements().size() > 0) {
                        paramName = profileData[i].getProfileDataElements().get(0).getParamName();
                    }
                    ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
                    basePanel.add(profileDataPanel);
                }
                JScrollPane scrollPane = new JScrollPane(basePanel);
                scrollPane.setAutoscrolls(true);
                scrollPane.setPreferredSize(new Dimension(620, 600));
                scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
                scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
                // show plots in a dialog
                DialogUtils.showComponentCloseDialog(FRAPReacOffRateParametersPanel.this, scrollPane, "Profile Likelihood of Parameters");
            }
        }
    };
    // dispatch
    ClientTaskDispatcher.dispatch(FRAPReacOffRateParametersPanel.this, new Hashtable<String, Object>(), new AsynchClientTask[] { evaluateTask, showResultTask }, false, true, null, true);
}
Also used : JScrollPane(javax.swing.JScrollPane) JPanel(javax.swing.JPanel) AsynchClientTask(cbit.vcell.client.task.AsynchClientTask) Hashtable(java.util.Hashtable) BoxLayout(javax.swing.BoxLayout) ProfileData(org.vcell.optimization.ProfileData) Dimension(java.awt.Dimension) EtchedBorder(javax.swing.border.EtchedBorder) ConfidenceIntervalPlotPanel(org.vcell.optimization.gui.ConfidenceIntervalPlotPanel) ProfileDataPanel(org.vcell.optimization.gui.ProfileDataPanel)

Example 4 with ConfidenceIntervalPlotPanel

use of org.vcell.optimization.gui.ConfidenceIntervalPlotPanel in project vcell by virtualcell.

the class AnalysisResultsTablePanel method propertyChange.

public void propertyChange(PropertyChangeEvent evt) {
    if (evt.getPropertyName().equals(FRAPSingleWorkspace.PROPERTY_CHANGE_CONFIDENCEINTERVAL_DETAILS)) {
        if (((Integer) evt.getNewValue()).intValue() == AnalysisTableModel.COLUMN_DIFF_ONE_CI_PLOT && getTable().getSelectedRow() < FRAPModel.NUM_MODEL_PARAMETERS_ONE_DIFF) {
            if (frapWorkspace.getWorkingFrapStudy() != null && frapWorkspace.getWorkingFrapStudy().getProfileData_oneDiffComponent() != null) {
                int paramIdx = getTable().getSelectedRow();
                ProfileData[] profileData = frapWorkspace.getWorkingFrapStudy().getProfileData_oneDiffComponent();
                // put plotpanes of different parameters' profile likelihoods into a base panel
                JPanel basePanel = new JPanel();
                basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
                ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
                plotPanel.setProfileSummaryData(FRAPOptimizationUtils.getSummaryFromProfileData(profileData[paramIdx]));
                plotPanel.setBorder(new EtchedBorder());
                String paramName = "";
                if (profileData[paramIdx].getProfileDataElements().size() > 0) {
                    paramName = profileData[paramIdx].getProfileDataElements().get(0).getParamName();
                }
                ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
                profileDataPanel.setProfileDataPlotDetailsVisible(true);
                basePanel.add(profileDataPanel);
                JScrollPane scrollPane = new JScrollPane(basePanel);
                scrollPane.setAutoscrolls(true);
                scrollPane.setPreferredSize(new Dimension(600, 600));
                scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
                scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
                // show plots in a dialog
                DialogUtils.showComponentCloseDialog(parent, scrollPane, "Profile Likelihood of Parameters");
            } else {
                DialogUtils.showErrorDialog(parent, "Confidence Intervals haven't been evaluated.");
            }
        } else if (((Integer) evt.getNewValue()).intValue() == AnalysisTableModel.COLUMN_DIFF_TWO_CI_PLOT && getTable().getSelectedRow() < FRAPModel.NUM_MODEL_PARAMETERS_TWO_DIFF) {
            if (frapWorkspace.getWorkingFrapStudy() != null && frapWorkspace.getWorkingFrapStudy().getProfileData_twoDiffComponents() != null) {
                int paramIdx = getTable().getSelectedRow();
                ProfileData[] profileData = frapWorkspace.getWorkingFrapStudy().getProfileData_twoDiffComponents();
                // put plotpanes of different parameters' profile likelihoods into a base panel
                JPanel basePanel = new JPanel();
                basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
                ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
                plotPanel.setProfileSummaryData(FRAPOptimizationUtils.getSummaryFromProfileData(profileData[paramIdx]));
                plotPanel.setBorder(new EtchedBorder());
                String paramName = "";
                if (profileData[paramIdx].getProfileDataElements().size() > 0) {
                    paramName = profileData[paramIdx].getProfileDataElements().get(0).getParamName();
                }
                ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
                profileDataPanel.setProfileDataPlotDetailsVisible(true);
                basePanel.add(profileDataPanel);
                JScrollPane scrollPane = new JScrollPane(basePanel);
                scrollPane.setAutoscrolls(true);
                scrollPane.setPreferredSize(new Dimension(620, 600));
                scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
                scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
                // show plots in a dialog
                DialogUtils.showComponentCloseDialog(parent, scrollPane, "Profile Likelihood of Parameters");
            } else {
                DialogUtils.showErrorDialog(parent, "Confidence Intervals haven't been evaluated.");
            }
        } else if (((Integer) evt.getNewValue()).intValue() == AnalysisTableModel.COLUMN_KOFF_CI_PLOT) {
            if (frapWorkspace.getWorkingFrapStudy() != null && frapWorkspace.getWorkingFrapStudy().getProfileData_reactionOffRate() != null) {
                ProfileData[] profileData = frapWorkspace.getWorkingFrapStudy().getProfileData_reactionOffRate();
                ProfileData tempProfileData = null;
                if (getTable().getSelectedRow() == FRAPModel.INDEX_BLEACH_MONITOR_RATE) {
                    for (ProfileData pData : profileData) {
                        if (pData.getProfileDataElements().size() > 0 && pData.getProfileDataElements().get(0).getParamName().equals(FRAPModel.MODEL_PARAMETER_NAMES[FRAPModel.INDEX_BLEACH_MONITOR_RATE])) {
                            tempProfileData = pData;
                        }
                    }
                } else if (getTable().getSelectedRow() == FRAPModel.INDEX_OFF_RATE) {
                    for (ProfileData pData : profileData) {
                        if (pData.getProfileDataElements().size() > 0 && pData.getProfileDataElements().get(0).getParamName().equals(FRAPModel.MODEL_PARAMETER_NAMES[FRAPModel.INDEX_OFF_RATE])) {
                            tempProfileData = pData;
                        }
                    }
                }
                // put plotpanes of different parameters' profile likelihoods into a base panel
                JPanel basePanel = new JPanel();
                basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
                ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
                plotPanel.setProfileSummaryData(FRAPOptimizationUtils.getSummaryFromProfileData(tempProfileData));
                plotPanel.setBorder(new EtchedBorder());
                String paramName = "";
                if (tempProfileData.getProfileDataElements().size() > 0) {
                    paramName = tempProfileData.getProfileDataElements().get(0).getParamName();
                }
                ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
                profileDataPanel.setProfileDataPlotDetailsVisible(true);
                basePanel.add(profileDataPanel);
                JScrollPane scrollPane = new JScrollPane(basePanel);
                scrollPane.setAutoscrolls(true);
                scrollPane.setPreferredSize(new Dimension(600, 600));
                scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
                scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
                // show plots in a dialog
                DialogUtils.showComponentCloseDialog(parent, scrollPane, "Profile Likelihood of Parameters");
            } else {
                DialogUtils.showErrorDialog(parent, "Confidence Intervals haven't been evaluated.");
            }
        }
    }
}
Also used : JScrollPane(javax.swing.JScrollPane) JPanel(javax.swing.JPanel) EtchedBorder(javax.swing.border.EtchedBorder) ConfidenceIntervalPlotPanel(org.vcell.optimization.gui.ConfidenceIntervalPlotPanel) BoxLayout(javax.swing.BoxLayout) ProfileDataPanel(org.vcell.optimization.gui.ProfileDataPanel) ProfileData(org.vcell.optimization.ProfileData) Dimension(java.awt.Dimension)

Example 5 with ConfidenceIntervalPlotPanel

use of org.vcell.optimization.gui.ConfidenceIntervalPlotPanel in project vcell by virtualcell.

the class DisplayProfileLikelihoodPlotsOp method displayProfileLikelihoodPlots.

public void displayProfileLikelihoodPlots(ProfileData[] profileData, String title, WindowListener listener) {
    // put plotpanes of different parameters' profile likelihoods into a base panel
    JPanel basePanel = new JPanel();
    basePanel.setLayout(new BoxLayout(basePanel, BoxLayout.Y_AXIS));
    for (int i = 0; i < profileData.length; i++) {
        ConfidenceIntervalPlotPanel plotPanel = new ConfidenceIntervalPlotPanel();
        plotPanel.setProfileSummaryData(getSummaryFromProfileData(profileData[i]));
        plotPanel.setBorder(new EtchedBorder());
        String paramName = "";
        if (profileData[i].getProfileDataElements().size() > 0) {
            paramName = profileData[i].getProfileDataElements().get(0).getParamName();
        }
        ProfileDataPanel profileDataPanel = new ProfileDataPanel(plotPanel, paramName);
        basePanel.add(profileDataPanel);
    }
    JScrollPane scrollPane = new JScrollPane(basePanel);
    scrollPane.setAutoscrolls(true);
    scrollPane.setPreferredSize(new Dimension(620, 600));
    scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
    scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
    // show plots in a dialog
    JFrame jframe = new JFrame();
    jframe.setTitle(title);
    jframe.getContentPane().add(scrollPane);
    jframe.setSize(500, 500);
    if (listener != null) {
        jframe.addWindowListener(listener);
    }
    jframe.setVisible(true);
}
Also used : JScrollPane(javax.swing.JScrollPane) JPanel(javax.swing.JPanel) EtchedBorder(javax.swing.border.EtchedBorder) ConfidenceIntervalPlotPanel(org.vcell.optimization.gui.ConfidenceIntervalPlotPanel) JFrame(javax.swing.JFrame) BoxLayout(javax.swing.BoxLayout) ProfileDataPanel(org.vcell.optimization.gui.ProfileDataPanel) Dimension(java.awt.Dimension)

Aggregations

Dimension (java.awt.Dimension)5 BoxLayout (javax.swing.BoxLayout)5 JPanel (javax.swing.JPanel)5 JScrollPane (javax.swing.JScrollPane)5 EtchedBorder (javax.swing.border.EtchedBorder)5 ConfidenceIntervalPlotPanel (org.vcell.optimization.gui.ConfidenceIntervalPlotPanel)5 ProfileDataPanel (org.vcell.optimization.gui.ProfileDataPanel)5 ProfileData (org.vcell.optimization.ProfileData)4 AsynchClientTask (cbit.vcell.client.task.AsynchClientTask)3 Hashtable (java.util.Hashtable)3 JFrame (javax.swing.JFrame)1
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