-/**\r
- * Alignment.java\r
- *\r
- * This file was auto-generated from WSDL\r
- * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
- */\r
-\r
-/*\r
- * Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
- *\r
- * This program is free software; you can redistribute it and/or\r
- * modify it under the terms of the GNU General Public License\r
- * as published by the Free Software Foundation; either version 2\r
- * of the License, or (at your option) any later version.\r
- *\r
- * This program is distributed in the hope that it will be useful,\r
- * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\r
- * GNU General Public License for more details.\r
- *\r
- * You should have received a copy of the GNU General Public License\r
- * along with this program; if not, write to the Free Software\r
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA\r
- */\r
-package vamsas.objects.simple;\r
-\r
-public class Alignment\r
- extends vamsas.objects.simple.Object implements java.io.Serializable\r
-{\r
- private java.lang.String gapchar;\r
- private java.lang.String[] method;\r
- private vamsas.objects.simple.SequenceSet seqs;\r
- private java.lang.Object __equalsCalc = null;\r
- private boolean __hashCodeCalc = false;\r
-\r
- public Alignment()\r
- {\r
- }\r
-\r
- public Alignment(java.lang.String gapchar, java.lang.String[] method,\r
- vamsas.objects.simple.SequenceSet seqs)\r
- {\r
- this.gapchar = gapchar;\r
- this.method = method;\r
- this.seqs = seqs;\r
- }\r
-\r
- /**\r
- * Gets the gapchar value for this Alignment.\r
- *\r
- * @return gapchar\r
- */\r
- public java.lang.String getGapchar()\r
- {\r
- return gapchar;\r
- }\r
-\r
- /**\r
- * Sets the gapchar value for this Alignment.\r
- *\r
- * @param gapchar\r
- */\r
- public void setGapchar(java.lang.String gapchar)\r
- {\r
- this.gapchar = gapchar;\r
- }\r
-\r
- /**\r
- * Gets the method value for this Alignment.\r
- *\r
- * @return method\r
- */\r
- public java.lang.String[] getMethod()\r
- {\r
- return method;\r
- }\r
-\r
- /**\r
- * Sets the method value for this Alignment.\r
- *\r
- * @param method\r
- */\r
- public void setMethod(java.lang.String[] method)\r
- {\r
- this.method = method;\r
- }\r
-\r
- /**\r
- * Gets the seqs value for this Alignment.\r
- *\r
- * @return seqs\r
- */\r
- public vamsas.objects.simple.SequenceSet getSeqs()\r
- {\r
- return seqs;\r
- }\r
-\r
- /**\r
- * Sets the seqs value for this Alignment.\r
- *\r
- * @param seqs\r
- */\r
- public void setSeqs(vamsas.objects.simple.SequenceSet seqs)\r
- {\r
- this.seqs = seqs;\r
- }\r
-\r
- public synchronized boolean equals(java.lang.Object obj)\r
- {\r
- if (! (obj instanceof Alignment))\r
- {\r
- return false;\r
- }\r
-\r
- Alignment other = (Alignment) obj;\r
-\r
- if (obj == null)\r
- {\r
- return false;\r
- }\r
-\r
- if (this == obj)\r
- {\r
- return true;\r
- }\r
-\r
- if (__equalsCalc != null)\r
- {\r
- return (__equalsCalc == obj);\r
- }\r
-\r
- __equalsCalc = obj;\r
-\r
- boolean _equals;\r
- _equals = super.equals(obj) &&\r
- ( ( (this.gapchar == null) && (other.getGapchar() == null)) ||\r
- ( (this.gapchar != null) && this.gapchar.equals(other.getGapchar()))) &&\r
- ( ( (this.method == null) && (other.getMethod() == null)) ||\r
- ( (this.method != null) &&\r
- java.util.Arrays.equals(this.method, other.getMethod()))) &&\r
- ( ( (this.seqs == null) && (other.getSeqs() == null)) ||\r
- ( (this.seqs != null) && this.seqs.equals(other.getSeqs())));\r
- __equalsCalc = null;\r
-\r
- return _equals;\r
- }\r
-\r
- public synchronized int hashCode()\r
- {\r
- if (__hashCodeCalc)\r
- {\r
- return 0;\r
- }\r
-\r
- __hashCodeCalc = true;\r
-\r
- int _hashCode = super.hashCode();\r
-\r
- if (getGapchar() != null)\r
- {\r
- _hashCode += getGapchar().hashCode();\r
- }\r
-\r
- if (getMethod() != null)\r
- {\r
- for (int i = 0; i < java.lang.reflect.Array.getLength(getMethod());\r
- i++)\r
- {\r
- java.lang.Object obj = java.lang.reflect.Array.get(getMethod(),\r
- i);\r
-\r
- if ( (obj != null) && !obj.getClass().isArray())\r
- {\r
- _hashCode += obj.hashCode();\r
- }\r
- }\r
- }\r
-\r
- if (getSeqs() != null)\r
- {\r
- _hashCode += getSeqs().hashCode();\r
- }\r
-\r
- __hashCodeCalc = false;\r
-\r
- return _hashCode;\r
- }\r
-}\r
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview 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 3 of the License, or (at your option) any later version.
+ *
+ * Jalview 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 Jalview. If not, see <http://www.gnu.org/licenses/>.
+ */
+package vamsas.objects.simple;
+
+public class Alignment extends vamsas.objects.simple.Object implements
+ java.io.Serializable
+{
+ private java.lang.String gapchar;
+
+ private java.lang.String[] method;
+
+ private vamsas.objects.simple.SequenceSet seqs;
+
+ public Alignment()
+ {
+ }
+
+ public Alignment(java.lang.String gapchar, java.lang.String[] method,
+ vamsas.objects.simple.SequenceSet seqs)
+ {
+ this.gapchar = gapchar;
+ this.method = method;
+ this.seqs = seqs;
+ }
+
+ /**
+ * Gets the gapchar value for this Alignment.
+ *
+ * @return gapchar
+ */
+ public java.lang.String getGapchar()
+ {
+ return gapchar;
+ }
+
+ /**
+ * Sets the gapchar value for this Alignment.
+ *
+ * @param gapchar
+ */
+ public void setGapchar(java.lang.String gapchar)
+ {
+ this.gapchar = gapchar;
+ }
+
+ /**
+ * Gets the method value for this Alignment.
+ *
+ * @return method
+ */
+ public java.lang.String[] getMethod()
+ {
+ return method;
+ }
+
+ /**
+ * Sets the method value for this Alignment.
+ *
+ * @param method
+ */
+ public void setMethod(java.lang.String[] method)
+ {
+ this.method = method;
+ }
+
+ /**
+ * Gets the seqs value for this Alignment.
+ *
+ * @return seqs
+ */
+ public vamsas.objects.simple.SequenceSet getSeqs()
+ {
+ return seqs;
+ }
+
+ /**
+ * Sets the seqs value for this Alignment.
+ *
+ * @param seqs
+ */
+ public void setSeqs(vamsas.objects.simple.SequenceSet seqs)
+ {
+ this.seqs = seqs;
+ }
+
+ private java.lang.Object __equalsCalc = null;
+
+ public synchronized boolean equals(java.lang.Object obj)
+ {
+ if (!(obj instanceof Alignment))
+ return false;
+ Alignment other = (Alignment) obj;
+ if (obj == null)
+ return false;
+ if (this == obj)
+ return true;
+ if (__equalsCalc != null)
+ {
+ return (__equalsCalc == obj);
+ }
+ __equalsCalc = obj;
+ boolean _equals;
+ _equals = super.equals(obj)
+ && ((this.gapchar == null && other.getGapchar() == null) || (this.gapchar != null && this.gapchar
+ .equals(other.getGapchar())))
+ && ((this.method == null && other.getMethod() == null) || (this.method != null && java.util.Arrays
+ .equals(this.method, other.getMethod())))
+ && ((this.seqs == null && other.getSeqs() == null) || (this.seqs != null && this.seqs
+ .equals(other.getSeqs())));
+ __equalsCalc = null;
+ return _equals;
+ }
+
+ private boolean __hashCodeCalc = false;
+
+ public synchronized int hashCode()
+ {
+ if (__hashCodeCalc)
+ {
+ return 0;
+ }
+ __hashCodeCalc = true;
+ int _hashCode = super.hashCode();
+ if (getGapchar() != null)
+ {
+ _hashCode += getGapchar().hashCode();
+ }
+ if (getMethod() != null)
+ {
+ for (int i = 0; i < java.lang.reflect.Array.getLength(getMethod()); i++)
+ {
+ java.lang.Object obj = java.lang.reflect.Array.get(getMethod(), i);
+ if (obj != null && !obj.getClass().isArray())
+ {
+ _hashCode += obj.hashCode();
+ }
+ }
+ }
+ if (getSeqs() != null)
+ {
+ _hashCode += getSeqs().hashCode();
+ }
+ __hashCodeCalc = false;
+ return _hashCode;
+ }
+
+}
git://source.jalview.org / jalview.git / blobdiff