Examples with Parameter cbit.vcell.model.Parameter used on opensource projects

Example 31 with Parameter

use of cbit.vcell.model.Parameter in project vcell by virtualcell.

the class SpatialProcessParameterTableModel method setValueAt.

public void setValueAt(Object aValue, int rowIndex, int columnIndex) {
    Parameter parameter = getValueAt(rowIndex);
    switch(columnIndex) {
        case COLUMN_NAME:
            {
                try {
                    if (aValue instanceof String) {
                        String newName = (String) aValue;
                        if (!parameter.getName().equals(newName)) {
                            parameter.setName(newName);
                        }
                    }
                } catch (java.beans.PropertyVetoException e) {
                    e.printStackTrace(System.out);
                    PopupGenerator.showErrorDialog(ownerTable, "error changing parameter name\n" + e.getMessage());
                }
                break;
            }
        case COLUMN_VALUE:
            {
                try {
                    if (aValue instanceof String) {
                        String newExpressionString = (String) aValue;
                        Expression newExp = null;
                        if (newExpressionString == null || newExpressionString.trim().length() == 0) {
                            newExp = new Expression(0.0);
                        } else {
                            newExp = new Expression(newExpressionString);
                        }
                        parameter.setExpression(newExp);
                    }
                } catch (ExpressionException e) {
                    e.printStackTrace(System.out);
                    PopupGenerator.showErrorDialog(ownerTable, "expression error\n" + e.getMessage());
                }
                break;
            }
    }
}

Example 32 with Parameter

use of cbit.vcell.model.Parameter in project vcell by virtualcell.

the class SpeciesContextSpecParameterTableModel method setValueAt.

public void setValueAt(Object aValue, int rowIndex, int columnIndex) {
    Parameter parameter = getValueAt(rowIndex);
    switch(columnIndex) {
        case COLUMN_NAME:
            {
                try {
                    if (aValue instanceof String) {
                        String newName = (String) aValue;
                        if (!parameter.getName().equals(newName)) {
                            if (parameter instanceof SpeciesContextSpec.SpeciesContextSpecParameter) {
                                SpeciesContextSpec.SpeciesContextSpecParameter scsParm = (SpeciesContextSpec.SpeciesContextSpecParameter) parameter;
                                scsParm.setName(newName);
                            }
                        }
                    }
                } catch (java.beans.PropertyVetoException e) {
                    e.printStackTrace(System.out);
                    PopupGenerator.showErrorDialog(ownerTable, "error changing parameter name\n" + e.getMessage());
                }
                break;
            }
        case COLUMN_VALUE:
            {
                try {
                    if (aValue instanceof String) {
                        String newExpressionString = (String) aValue;
                        if (parameter instanceof SpeciesContextSpec.SpeciesContextSpecParameter) {
                            SpeciesContextSpec.SpeciesContextSpecParameter scsParm = (SpeciesContextSpec.SpeciesContextSpecParameter) parameter;
                            Expression newExp = null;
                            if (newExpressionString == null || newExpressionString.trim().length() == 0) {
                                if (scsParm.getRole() == SpeciesContextSpec.ROLE_InitialConcentration || scsParm.getRole() == SpeciesContextSpec.ROLE_DiffusionRate || scsParm.getRole() == SpeciesContextSpec.ROLE_InitialCount) {
                                    newExp = new Expression(0.0);
                                }
                            } else {
                                newExp = new Expression(newExpressionString);
                            }
                            scsParm.setExpression(newExp);
                        }
                    }
                } catch (ExpressionException e) {
                    e.printStackTrace(System.out);
                    PopupGenerator.showErrorDialog(ownerTable, "expression error\n" + e.getMessage());
                }
                break;
            }
    }
}

Example 33 with Parameter

use of cbit.vcell.model.Parameter in project vcell by virtualcell.

the class StructureMappingTableModel method getColumnCount.

/**
 * getColumnCount method comment.
 */
public int getColumnCount() {
    if (getGeometryContext() == null) {
        return 0;
    }
    if (bNonSpatial) {
        StructureMapping[] sms = getGeometryContext().getStructureMappings();
        boolean bHasOldSizeRatio = false;
        for (StructureMapping sm : sms) {
            Parameter volFrac = sm.getParameterFromRole(StructureMapping.ROLE_VolumeFraction);
            if (volFrac != null && volFrac.getExpression() != null) {
                bHasOldSizeRatio = true;
                break;
            }
            Parameter surfVolFrac = sm.getParameterFromRole(StructureMapping.ROLE_SurfaceToVolumeRatio);
            if (surfVolFrac != null && surfVolFrac.getExpression() != null) {
                bHasOldSizeRatio = true;
                break;
            }
        }
        return bHasOldSizeRatio ? NONSPATIAL_LABELS.length : NONSPATIAL_LABELS.length - 2;
    } else {
        int dimension = getGeometryContext().getGeometry().getDimension();
        int count = SPATIAL_LABELS.length;
        if (dimension == 1) {
            return count - 4;
        }
        if (dimension == 2) {
            return count - 2;
        }
        return count;
    }
}

Example 34 with Parameter

use of cbit.vcell.model.Parameter in project vcell by virtualcell.

the class SpatialProcessParameterTableModel method propertyChange.

public void propertyChange(java.beans.PropertyChangeEvent evt) {
    try {
        if (evt.getSource() instanceof SpatialProcess) {
            refreshData();
        }
        if (evt.getSource() == this && evt.getPropertyName().equals(PROPERTY_NAME_SPATIALPROCESS)) {
            SpatialProcess oldValue = (SpatialProcess) evt.getOldValue();
            if (oldValue != null) {
                oldValue.removePropertyChangeListener(this);
                Parameter[] oldParameters = oldValue.getParameters();
                if (oldParameters != null) {
                    for (int i = 0; i < oldParameters.length; i++) {
                        oldParameters[i].removePropertyChangeListener(this);
                    }
                }
            }
            SpatialProcess newValue = (SpatialProcess) evt.getNewValue();
            if (newValue != null) {
                newValue.addPropertyChangeListener(this);
                Parameter[] newParameters = newValue.getParameters();
                if (newParameters != null) {
                    for (int i = 0; i < newParameters.length; i++) {
                        newParameters[i].addPropertyChangeListener(this);
                    }
                }
            }
            refreshData();
        }
        if (evt.getSource() instanceof SpatialProcess) {
            // if parameters changed must update listeners
            if (evt.getPropertyName().equals(SpatialProcess.PROPERTY_NAME_PARAMETERS)) {
                Parameter[] oldParameters = (Parameter[]) evt.getOldValue();
                if (oldParameters != null) {
                    for (int i = 0; i < oldParameters.length; i++) {
                        oldParameters[i].removePropertyChangeListener(this);
                    }
                }
                Parameter[] newParameters = (Parameter[]) evt.getNewValue();
                if (newParameters != null) {
                    for (int i = 0; i < newParameters.length; i++) {
                        newParameters[i].addPropertyChangeListener(this);
                    }
                }
            }
            if (!evt.getPropertyName().equals(SpeciesContextSpec.PARAMETER_NAME_PROXY_PARAMETERS)) {
                // for any change to the SpeciesContextSpec, want to update all.
                // proxy parameters don't affect table
                refreshData();
            }
        }
        if (evt.getSource() instanceof Parameter) {
            refreshData();
        }
    } catch (Exception e) {
        e.printStackTrace(System.out);
    }
}

Example 35 with Parameter

use of cbit.vcell.model.Parameter in project vcell by virtualcell.

the class SpeciesContextSpecParameterTableModel method propertyChange.

/**
 * This method gets called when a bound property is changed.
 * @param evt A PropertyChangeEvent object describing the event source
 *   and the property that has changed.
 */
public void propertyChange(java.beans.PropertyChangeEvent evt) {
    // 
    try {
        // 
        if (fieldSpeciesContextSpec != null && evt.getSource() == fieldSpeciesContextSpec.getSimulationContext().getGeometryContext() && evt.getPropertyName().equals("geometry")) {
            refreshData();
        }
        // 
        if (fieldSpeciesContextSpec != null && evt.getSource() == fieldSpeciesContextSpec.getSimulationContext().getGeometryContext() && evt.getPropertyName().equals("structureMappings")) {
            StructureMapping[] oldStructureMappings = (StructureMapping[]) evt.getOldValue();
            for (int i = 0; oldStructureMappings != null && i < oldStructureMappings.length; i++) {
                oldStructureMappings[i].removePropertyChangeListener(this);
            }
            StructureMapping[] newStructureMappings = (StructureMapping[]) evt.getNewValue();
            for (int i = 0; newStructureMappings != null && i < newStructureMappings.length; i++) {
                newStructureMappings[i].addPropertyChangeListener(this);
            }
            refreshData();
        }
        // 
        if (evt.getSource() instanceof StructureMapping) {
            refreshData();
        }
        if (evt.getSource() == this && evt.getPropertyName().equals("speciesContextSpec")) {
            SpeciesContextSpec oldValue = (SpeciesContextSpec) evt.getOldValue();
            if (oldValue != null) {
                oldValue.removePropertyChangeListener(this);
                Parameter[] oldParameters = oldValue.getParameters();
                if (oldParameters != null) {
                    for (int i = 0; i < oldParameters.length; i++) {
                        oldParameters[i].removePropertyChangeListener(this);
                    }
                }
                SimulationContext oldSimContext = oldValue.getSimulationContext();
                if (oldSimContext != null) {
                    oldSimContext.getGeometryContext().removePropertyChangeListener(this);
                    StructureMapping[] oldStructureMappings = oldSimContext.getGeometryContext().getStructureMappings();
                    if (oldStructureMappings != null) {
                        for (int i = 0; i < oldStructureMappings.length; i++) {
                            oldStructureMappings[i].removePropertyChangeListener(this);
                        }
                    }
                }
            }
            SpeciesContextSpec newValue = (SpeciesContextSpec) evt.getNewValue();
            if (newValue != null) {
                newValue.addPropertyChangeListener(this);
                Parameter[] newParameters = newValue.getParameters();
                if (newParameters != null) {
                    for (int i = 0; i < newParameters.length; i++) {
                        newParameters[i].addPropertyChangeListener(this);
                    }
                }
                SimulationContext newSimContext = newValue.getSimulationContext();
                if (newSimContext != null) {
                    newSimContext.getGeometryContext().addPropertyChangeListener(this);
                    StructureMapping[] newStructureMappings = newSimContext.getGeometryContext().getStructureMappings();
                    if (newStructureMappings != null) {
                        for (int i = 0; i < newStructureMappings.length; i++) {
                            newStructureMappings[i].addPropertyChangeListener(this);
                        }
                    }
                }
            }
            refreshData();
        }
        if (evt.getSource() instanceof SpeciesContextSpec) {
            // if parameters changed must update listeners
            if (evt.getPropertyName().equals("parameters")) {
                Parameter[] oldParameters = (Parameter[]) evt.getOldValue();
                if (oldParameters != null) {
                    for (int i = 0; i < oldParameters.length; i++) {
                        oldParameters[i].removePropertyChangeListener(this);
                    }
                }
                Parameter[] newParameters = (Parameter[]) evt.getNewValue();
                if (newParameters != null) {
                    for (int i = 0; i < newParameters.length; i++) {
                        newParameters[i].addPropertyChangeListener(this);
                    }
                }
            }
            if (!evt.getPropertyName().equals(SpeciesContextSpec.PARAMETER_NAME_PROXY_PARAMETERS)) {
                // for any change to the SpeciesContextSpec, want to update all.
                // proxy parameters don't affect table
                refreshData();
            }
        }
        if (evt.getSource() instanceof Parameter) {
            refreshData();
        }
    } catch (Exception e) {
        e.printStackTrace(System.out);
    }
}