X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbinding%2FTree.java;h=04ea0a4ef06c4a4f4f40d9e60d0ad5cdd43a6a9d;hb=4d7f98a6dd54d9863ba449ec79dcd95d25ed863d;hp=f7679f1b014b5fbc9137a71deae1eb428561b4d1;hpb=506d60f0e188723ddc91c26824b41ac7034df3fe;p=jalview.git diff --git a/src/jalview/binding/Tree.java b/src/jalview/binding/Tree.java old mode 100755 new mode 100644 index f7679f1..04ea0a4 --- a/src/jalview/binding/Tree.java +++ b/src/jalview/binding/Tree.java @@ -1,26 +1,15 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4) - * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle - * - * 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, write to the Free Software - * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.binding; -// ---------------------------------/ -// - Imported classes and packages -/ -// ---------------------------------/ +//---------------------------------/ +//- Imported classes and packages -/ +//---------------------------------/ import org.exolab.castor.xml.Marshaller; import org.exolab.castor.xml.Unmarshaller; @@ -186,84 +175,84 @@ public class Tree implements java.io.Serializable // -----------/ /** - */ + */ public void deleteCurrentTree() { this._has_currentTree = false; } /** - */ + */ public void deleteFitToWindow() { this._has_fitToWindow = false; } /** - */ + */ public void deleteFontSize() { this._has_fontSize = false; } /** - */ + */ public void deleteFontStyle() { this._has_fontStyle = false; } /** - */ + */ public void deleteHeight() { this._has_height = false; } /** - */ + */ public void deleteMarkUnlinked() { this._has_markUnlinked = false; } /** - */ + */ public void deleteShowBootstrap() { this._has_showBootstrap = false; } /** - */ + */ public void deleteShowDistances() { this._has_showDistances = false; } /** - */ + */ public void deleteThreshold() { this._has_threshold = false; } /** - */ + */ public void deleteWidth() { this._has_width = false; } /** - */ + */ public void deleteXpos() { this._has_xpos = false; } /** - */ + */ public void deleteYpos() { this._has_ypos = false; @@ -611,11 +600,10 @@ public class Tree implements java.io.Serializable * * @param out * @throws org.exolab.castor.xml.MarshalException - * if object is null or if any SAXException is thrown during - * marshaling + * if object is null or if any SAXException is thrown during + * marshaling * @throws org.exolab.castor.xml.ValidationException - * if this object is an invalid instance according to the - * schema + * if this object is an invalid instance according to the schema */ public void marshal(final java.io.Writer out) throws org.exolab.castor.xml.MarshalException, @@ -629,13 +617,12 @@ public class Tree implements java.io.Serializable * * @param handler * @throws java.io.IOException - * if an IOException occurs during marshaling + * if an IOException occurs during marshaling * @throws org.exolab.castor.xml.ValidationException - * if this object is an invalid instance according to the - * schema + * if this object is an invalid instance according to the schema * @throws org.exolab.castor.xml.MarshalException - * if object is null or if any SAXException is thrown during - * marshaling + * if object is null or if any SAXException is thrown during + * marshaling */ public void marshal(final org.xml.sax.ContentHandler handler) throws java.io.IOException, @@ -649,7 +636,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'currentTree'. * * @param currentTree - * the value of field 'currentTree'. + * the value of field 'currentTree'. */ public void setCurrentTree(final boolean currentTree) { @@ -661,7 +648,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'fitToWindow'. * * @param fitToWindow - * the value of field 'fitToWindow'. + * the value of field 'fitToWindow'. */ public void setFitToWindow(final boolean fitToWindow) { @@ -673,7 +660,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'fontName'. * * @param fontName - * the value of field 'fontName'. + * the value of field 'fontName'. */ public void setFontName(final java.lang.String fontName) { @@ -684,7 +671,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'fontSize'. * * @param fontSize - * the value of field 'fontSize'. + * the value of field 'fontSize'. */ public void setFontSize(final int fontSize) { @@ -696,7 +683,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'fontStyle'. * * @param fontStyle - * the value of field 'fontStyle'. + * the value of field 'fontStyle'. */ public void setFontStyle(final int fontStyle) { @@ -708,7 +695,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'height'. * * @param height - * the value of field 'height'. + * the value of field 'height'. */ public void setHeight(final int height) { @@ -720,7 +707,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'markUnlinked'. * * @param markUnlinked - * the value of field 'markUnlinked'. + * the value of field 'markUnlinked'. */ public void setMarkUnlinked(final boolean markUnlinked) { @@ -732,7 +719,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'newick'. * * @param newick - * the value of field 'newick'. + * the value of field 'newick'. */ public void setNewick(final java.lang.String newick) { @@ -743,7 +730,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'showBootstrap'. * * @param showBootstrap - * the value of field 'showBootstrap'. + * the value of field 'showBootstrap'. */ public void setShowBootstrap(final boolean showBootstrap) { @@ -755,7 +742,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'showDistances'. * * @param showDistances - * the value of field 'showDistances'. + * the value of field 'showDistances'. */ public void setShowDistances(final boolean showDistances) { @@ -767,7 +754,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'threshold'. * * @param threshold - * the value of field 'threshold'. + * the value of field 'threshold'. */ public void setThreshold(final float threshold) { @@ -779,7 +766,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'title'. * * @param title - * the value of field 'title'. + * the value of field 'title'. */ public void setTitle(final java.lang.String title) { @@ -790,7 +777,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'width'. * * @param width - * the value of field 'width'. + * the value of field 'width'. */ public void setWidth(final int width) { @@ -802,7 +789,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'xpos'. * * @param xpos - * the value of field 'xpos'. + * the value of field 'xpos'. */ public void setXpos(final int xpos) { @@ -814,7 +801,7 @@ public class Tree implements java.io.Serializable * Sets the value of field 'ypos'. * * @param ypos - * the value of field 'ypos'. + * the value of field 'ypos'. */ public void setYpos(final int ypos) { @@ -827,11 +814,10 @@ public class Tree implements java.io.Serializable * * @param reader * @throws org.exolab.castor.xml.MarshalException - * if object is null or if any SAXException is thrown during - * marshaling + * if object is null or if any SAXException is thrown during + * marshaling * @throws org.exolab.castor.xml.ValidationException - * if this object is an invalid instance according to the - * schema + * if this object is an invalid instance according to the schema * @return the unmarshaled jalview.binding.Tree */ public static jalview.binding.Tree unmarshal(final java.io.Reader reader) @@ -846,8 +832,7 @@ public class Tree implements java.io.Serializable * * * @throws org.exolab.castor.xml.ValidationException - * if this object is an invalid instance according to the - * schema + * if this object is an invalid instance according to the schema */ public void validate() throws org.exolab.castor.xml.ValidationException {