GT: Genotyping Comparison Analysis and Clustering/Heatmap

Value

Script

import javax.swing.JOptionPane;
String title = "Input Values";
String message = "Type in your input values:\n"+
	"COMMA delimited list with NO spaces in between\n"+
	"commas. Spaces in cNames are ok.\n";
	"New plate ex: 1\n"+
	"Existing plate(s) ex: 1,3,28\n"+
	"cName(s) ex: MCF-1,MCF 10A\n"+
	"CLID(s) ex: CL12345,CL65432,CL57890\n"+
	"Biospecimen ID(s) ex: BIO12345,BIO65432\n"+
	"All: leave the input value BLANK and press \"ok\"";
answer = JOptionPane.showInputDialog(null, (message == void ? null : message), (title == void ? null : title), JOptionPane.QUESTION_MESSAGE);

Script

import javax.swing.BoxLayout;
import javax.swing.ButtonGroup;
import javax.swing.JLabel;
import javax.swing.JOptionPane;
import javax.swing.JPanel;
import javax.swing.JRadioButton;

if ((selectionValues == void) || (selectionValues == null) || (selectionValues.isEmpty())) {
    throw new RuntimeException("selectionValues must be specified and non-empty");
}

ButtonGroup group = new ButtonGroup();
JPanel messagePanel = new JPanel();
messagePanel.setLayout(new BoxLayout(messagePanel,BoxLayout.Y_AXIS));

messagePanel.add(new JLabel((message == void ? null : message)));
		
JRadioButton[] buttonArray = new JRadioButton[selectionValues.size()];
for (int i = 0; i < buttonArray.length; i++) {			
	buttonArray[i] = new JRadioButton(selectionValues.get(i));
	if (i==0) buttonArray[i].setSelected(true);
	group.add(buttonArray[i]);
	messagePanel.add(buttonArray[i]);
}				

JOptionPane.showOptionDialog(null, messagePanel, (title == void ? null : title),
		JOptionPane.YES_NO_CANCEL_OPTION, JOptionPane.QUESTION_MESSAGE, null, new Object[]{"OK"}, null);
		
String answer="";
for (JRadioButton button : buttonArray) {
	if (button.isSelected()) {
		answer=button.getText();
	}
}

Script

List split = new ArrayList();
if (!string.equals("")) {
	String regexString = ",";
	if (regex != void) {
		regexString = regex;
	}
	String[] result = string.split(regexString);
	for (int i = 0; i < result.length; i++) {
		split.add(result[i]);
	}
}

Value

Value

Value

Value

Script

arg2 = "n";
if (type.equals("New plate (and load to database)")) {
	arg = "p";
	arg2 = "y";
} else if ( type.equals("New plate (don't load to database)")) {
	arg = "p";
	arg2 = "n";	
} else if (type.equals("Existing plate(s)")) {
	arg = "e";
} else if (type.equals("cName(s)")) {
	arg = "n";
} else if (type.equals("Biospecimen ID(s)")) {
	arg = "b";
} else if (type.equals("CLID(s)")) {
	arg = "c";
} else if (type.equals("All past plates")) {
	arg = "a";
} else {
	arg = "p";
} 

Script

import javax.swing.JOptionPane;

JOptionPane.showMessageDialog(null, (message == void ? null : message), (title == void ? null : title),	JOptionPane.INFORMATION_MESSAGE);

answer = "answer";

Value

Script

import javax.swing.JOptionPane;

JOptionPane.showMessageDialog(null, (message == void ? null : message), (title == void ? null : title),	JOptionPane.INFORMATION_MESSAGE);

answer = "answer";

Value

Value

Script

if (analysis_type.equals("cName(s)")) {
	answer_edited = answer.replace(' ', '_');	
} else {
	answer_edited = answer.replace(" ", "");
}