Java tutorial
/* * #%L * Bio-Formats Plugins for ImageJ: a collection of ImageJ plugins including the * Bio-Formats Importer, Bio-Formats Exporter, Bio-Formats Macro Extensions, * Data Browser and Stack Slicer. * %% * Copyright (C) 2006 - 2015 Open Microscopy Environment: * - Board of Regents of the University of Wisconsin-Madison * - Glencoe Software, Inc. * - University of Dundee * %% * This program is free software: you can redistribute it and/or modify * it under the terms of the GNU General Public License as * published by the Free Software Foundation, either version 2 of the * License, or (at your option) any later version. * * This program is distributed in the hope that it will be useful, * but WITHOUT ANY WARRANTY; without even the implied warranty of * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * GNU General Public License for more details. * * You should have received a copy of the GNU General Public * License along with this program. If not, see * <http://www.gnu.org/licenses/gpl-2.0.html>. * #L% */ package loci.plugins.in; import com.jgoodies.forms.builder.PanelBuilder; import com.jgoodies.forms.layout.CellConstraints; import com.jgoodies.forms.layout.FormLayout; import java.awt.Checkbox; import java.awt.Color; import java.awt.Component; import java.awt.Dimension; import java.awt.GridBagConstraints; import java.awt.GridBagLayout; import java.awt.Insets; import java.awt.Label; import java.awt.Panel; import java.awt.event.ItemEvent; import java.io.File; import java.math.BigInteger; import java.util.ArrayList; import java.util.Vector; import javax.swing.Box; import javax.swing.JPanel; import ij.IJ; import ij.gui.GenericDialog; import loci.common.Location; import loci.formats.FilePattern; import loci.formats.FilePatternBlock; /** * Bio-Formats Importer file pattern dialog box. */ public class FilePatternDialog extends ImporterDialog { // -- Fields -- private FilePattern fp; private String originalID; private int[] paddingZeros; // -- Constructor -- /** Creates a file pattern dialog for the Bio-Formats Importer. */ public FilePatternDialog(ImportProcess process) { super(process); } // -- ImporterDialog methods -- @Override protected boolean needPrompt() { return !process.isWindowless() && options.isGroupFiles(); } @Override protected GenericDialog constructDialog() { // CTR - CHECK Location idLoc = new Location(options.getId()); String id = FilePattern.findPattern(idLoc); if (id == null) { if (!options.isQuiet()) { IJ.showMessage("Bio-Formats", "Warning: Bio-Formats was unable to determine a grouping that\n" + "includes the file you chose. The most common reason for this\n" + "situation is that the folder contains extraneous files with\n" + "similar names and numbers that confuse the detection algorithm.\n" + " \n" + "For example, if you have multiple datasets in the same folder\n" + "named series1_z*_c*.tif, series2_z*_c*.tif, etc., Bio-Formats\n" + "may try to group all such files into a single series.\n" + " \n" + "For best results, put each image series's files in their own\n" + "folder, or type in a file pattern manually.\n"); } id = idLoc.getAbsolutePath(); } // construct dialog GenericDialog gd = new GenericDialog("Bio-Formats File Stitching") { @Override public void itemStateChanged(ItemEvent e) { super.itemStateChanged(e); Object source = e.getSource(); if (!(source instanceof Checkbox)) { return; } boolean selected = e.getStateChange() == ItemEvent.SELECTED; Vector checkboxes = getCheckboxes(); for (Object checkbox : checkboxes) { if (!checkbox.equals(source)) { if (selected) { ((Checkbox) checkbox).setState(false); } } else if (!selected && checkbox.equals(source)) { ((Checkbox) checkbox).setState(true); } } } }; gd.addMessage("The list of files to be grouped can be specified in one of the following ways:"); // option one int len = id.length() + 1; if (len > 80) len = 80; originalID = id; fp = new FilePattern(id); String[] prefixes = fp.getPrefixes(); if (prefixes.length > 0) { gd.addCheckbox("Dimensions", true); int[] counts = fp.getCount(); paddingZeros = new int[counts.length]; String[][] elements = fp.getElements(); BigInteger[] first = fp.getFirst(); BigInteger[] step = fp.getStep(); for (int i = 0; i < prefixes.length; i++) { String prefix = "Axis_" + (i + 1); gd.addStringField(prefix + "_number_of_images", "" + counts[i]); gd.addStringField(prefix + "_axis_first_image", first[i].toString()); gd.addStringField(prefix + "_axis_increment", step[i].toString()); try { paddingZeros[i] = elements[i][0].length() - String.valueOf(Integer.parseInt(elements[i][0])).length(); } catch (NumberFormatException e) { } } } // option two gd.addCheckbox("File_name", false); gd.addStringField("contains", ""); // option three gd.addCheckbox("Pattern", false); gd.addStringField("name", id, len); rebuild(gd); return gd; } @Override protected boolean harvestResults(GenericDialog gd) { String[] counts = new String[fp.getPrefixes().length]; String[] firsts = new String[counts.length]; String[] increments = new String[counts.length]; int[] count = fp.getCount(); boolean useRanges = counts.length > 0 ? gd.getNextBoolean() : false; boolean useRegex = gd.getNextBoolean(); for (int i = 0; i < counts.length; i++) { counts[i] = gd.getNextString(); firsts[i] = gd.getNextString(); increments[i] = gd.getNextString(); } String contains = gd.getNextString(); String id = gd.getNextString(); if (useRegex) { if (contains.trim().length() > 0) { String dir = originalID.substring(0, originalID.lastIndexOf(File.separator) + 1); id = dir + ".*" + contains + ".*"; } } else if (useRanges) { String pattern = originalID.substring(0, originalID.lastIndexOf(File.separator) + 1); for (int i = 0; i < counts.length; i++) { BigInteger first = new BigInteger(firsts[i]); BigInteger fileCount = new BigInteger(counts[i]); BigInteger increment = new BigInteger(increments[i]); FilePatternBlock block = new FilePatternBlock(fp.getBlock(i)); fileCount = fileCount.subtract(BigInteger.ONE).multiply(increment); pattern += fp.getPrefix(i); pattern += "<"; int firstPadding = paddingZeros[i] - first.toString().length() + 1; for (int zero = 0; zero < firstPadding; zero++) { pattern += "0"; } pattern += first; pattern += "-"; int lastPadding = paddingZeros[i] - fileCount.toString().length() + 1; for (int zero = 0; zero < lastPadding; zero++) { pattern += "0"; } pattern += fileCount; pattern += ":"; pattern += increment; pattern += ">"; } id = pattern + fp.getSuffix(); } options.setId(id); return true; } private void rebuild(GenericDialog gd) { // rebuild dialog to organize things more nicely Vector checkboxes = gd.getCheckboxes(); Vector fields = gd.getStringFields(); final ArrayList<Label> labels = new ArrayList<Label>(); for (Component c : gd.getComponents()) { if (c instanceof Label) { labels.add((Label) c); } } final String cols = "pref, 3dlu, pref, 3dlu, pref"; final StringBuilder sb = new StringBuilder("pref, 3dlu, pref"); for (int s = 1; s < fields.size(); s++) { sb.append(", 3dlu, pref"); } final String rows = sb.toString(); final PanelBuilder builder = new PanelBuilder(new FormLayout(cols, rows)); final CellConstraints cc = new CellConstraints(); int row = 1; if (checkboxes.size() > 2 && fields.size() > 2) { builder.add((Component) labels.get(0), cc.xyw(1, row, 5)); row += 2; builder.add((Component) checkboxes.get(0), cc.xy(1, row)); for (int i = 0; i < fields.size() - 2; i++) { builder.add((Component) labels.get(i + 1), cc.xy(3, row)); builder.add((Component) fields.get(i), cc.xy(5, row)); row += 2; } } builder.add((Component) checkboxes.get(checkboxes.size() - 2), cc.xy(1, row)); builder.add((Component) labels.get(labels.size() - 2), cc.xy(3, row)); builder.add((Component) fields.get(fields.size() - 2), cc.xy(5, row)); row += 2; builder.add((Component) checkboxes.get(checkboxes.size() - 1), cc.xy(1, row)); builder.add((Component) labels.get(labels.size() - 1), cc.xy(3, row)); builder.add((Component) fields.get(fields.size() - 1), cc.xy(5, row)); row += 2; final JPanel masterPanel = builder.getPanel(); gd.removeAll(); GridBagLayout gdl = (GridBagLayout) gd.getLayout(); GridBagConstraints gbc = new GridBagConstraints(); gbc.gridx = 0; gbc.gridy = 0; gbc.gridwidth = 3; gbc.gridheight = fields.size(); gdl.setConstraints(masterPanel, gbc); gd.add(masterPanel); gd.setBackground(Color.white); // HACK: workaround for JPanel in a Dialog } }