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CommentSurgery.java
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CommentSurgery.java
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/*
* #%L
* OME Bio-Formats package for reading and converting biological file formats.
* %%
* Copyright (C) 2005 - 2017 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%
*/
import loci.common.RandomAccessInputStream;
import loci.formats.tiff.TiffParser;
import loci.formats.tiff.TiffSaver;
/**
* Performs "surgery" on a TIFF ImageDescription comment, particularly the
* OME-XML comment found in OME-TIFF files. Note that this code must be
* tailored to a specific need by editing the commented out code below to
* make desired alterations to the comment.
*/
public class CommentSurgery {
public static void main(String[] args) throws Exception {
// the -test flag will print proposed changes to stdout
// rather than actually changing the comment
boolean test = args[0].equals("-test");
for (int i=0; i<args.length; i++) {
String id = args[i];
if (!test) System.out.println(id + ": ");
String xml = new TiffParser(id).getComment();
if (xml == null) {
System.out.println("ERROR: No OME-XML comment.");
return;
}
int len = xml.length();
// do something to the comment; e.g.:
//xml = xml.replaceAll("LogicalChannel:OWS", "LogicalChannel:OWS347-");
if (test) System.out.println(xml);
else {
System.out.println(len + " -> " + xml.length());
TiffSaver saver = new TiffSaver(id);
RandomAccessInputStream in = new RandomAccessInputStream(id);
saver.overwriteComment(in, xml);
in.close();
saver.close();
}
}
}
}