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Open Source Chemistry Library
/*
* Copyright (c) 1997 - 2016
* Actelion Pharmaceuticals Ltd.
* Gewerbestrasse 16
* CH-4123 Allschwil, Switzerland
*
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions are met:
*
* 1. Redistributions of source code must retain the above copyright notice, this
* list of conditions and the following disclaimer.
* 2. Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
* 3. Neither the name of the the copyright holder nor the
* names of its contributors may be used to endorse or promote products
* derived from this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
* ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
* WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
* DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
* ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
* (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
* LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
* ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
* (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
* SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*/
package com.actelion.research.jfx.gui.misc;
import com.actelion.research.chem.*;
import com.actelion.research.jfx.dataformat.MoleculeDataFormats;
import javafx.scene.input.Clipboard;
import javafx.scene.input.ClipboardContent;
import javafx.scene.input.DataFormat;
import java.util.ArrayList;
import java.util.List;
import java.util.Set;
/**
* Created by baerr on 7/28/14.
*/
public class ClipboardHelper {
private ClipboardHelper() {
}
public static ClipboardContent writeContent(StereoMolecule mol) {
return writeContent(mol, null);
}
public static ClipboardContent writeContent(StereoMolecule mol, ClipboardContent content) {
if(content==null)
content = new ClipboardContent();
// JavaFx/awt clipboard
content.put(MoleculeDataFormats.DF_SERIALIZEDMOLECULE, mol);
MolfileV3Creator molfileV3Creator = new MolfileV3Creator(mol);
content.put(MoleculeDataFormats.DF_MDLMOLFILEV3, molfileV3Creator.getMolfile());
MolfileCreator molfileCreator = new MolfileCreator(mol);
content.put(MoleculeDataFormats.DF_MDLMOLFILE, molfileCreator.getMolfile());
Canonizer can = new Canonizer(mol);
String idcode = String.format("%s %s", can.getIDCode(), can.getEncodedCoordinates(true));
content.putString(idcode);
IsomericSmilesCreator smilesCreator = new IsomericSmilesCreator(mol);
content.put(MoleculeDataFormats.DF_SMILES, smilesCreator.getSmiles());
return content;
}
public static void copy(StereoMolecule mol) {
// JavaFx clipboard
// final Clipboard clipboard = Clipboard.getSystemClipboard();
// clipboard.setContent(writeContent(mol));
// Native clipboard
// ClipboardHandler handler = new ClipboardHandler();
// handler.copyMolecule(mol);
}
public static StereoMolecule readContent(Clipboard clipboard) {
StereoMolecule mol = null;
List formats = getAcceptedFormats(clipboard);
int i = -1;
while (mol == null && ++i < formats.size()) {
DataFormat format = formats.get(i);
if (format.equals(MoleculeDataFormats.DF_SERIALIZEDMOLECULE)) {
System.out.println("Put molecule using " + format);
try {
mol = (StereoMolecule) clipboard.getContent(format);
} catch (Exception e) {
System.err.println("Cannot parse serialized data for molecule");
}
} else if (format.equals(MoleculeDataFormats.DF_MDLMOLFILEV3) || format.equals(MoleculeDataFormats.DF_MDLMOLFILE)) {
System.out.println("Put molecule using " + format);
try {
MolfileParser p = new MolfileParser();
p.parse(mol, clipboard.getContent(format).toString());
} catch (Exception e) {
System.err.println("Cannot parse molfile/molfilev3 data for molecule");
}
} else if (format.equals(DataFormat.PLAIN_TEXT)) {
System.out.println("Put molecule using " + format);
try {
IDCodeParser p = new IDCodeParser(true);
p.parse(mol, clipboard.getString());
} catch (Exception e) {
System.err.println("Cannot parse idcode data for molecule");
}
} else if (format.equals(MoleculeDataFormats.DF_SMILES)) {
System.out.println("Put molecule using " + format);
try {
SmilesParser p = new SmilesParser();
p.parse(mol, clipboard.getContent(format).toString());
} catch (Exception e) {
System.err.println("Cannot parse smiles data for molecule");
}
}
}
return mol;
}
public static StereoMolecule paste() {
StereoMolecule mol = null;
// Native clipboard
// ClipboardHandler handler = new ClipboardHandler();
// mol = handler.pasteMolecule();
if(mol!=null) {
System.out.println("Got molecule from native clipboard");
} else {
// JavaFx clipboard
final Clipboard clipboard = Clipboard.getSystemClipboard();
mol = readContent(clipboard);
if(mol!=null) {
System.out.println("Got molecule from standard clipboard");
}
}
return mol;
}
public static List getAcceptedFormats(Clipboard clipboard)
{
Set formats = clipboard.getContentTypes();
List res = new ArrayList();
for (DataFormat dataFormat : MoleculeDataFormats.DATA_FORMATS) {
for (DataFormat f : formats) {
if (f.equals(dataFormat)) {
res.add(f);
break;
}
}
}
return res;
}
}