-/**
- * Alignment.java
- *
- * This file was auto-generated from WSDL
- * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * 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/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
-
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;
- private vamsas.objects.simple.Sequence[] seqsAsArray;
-
- public Alignment() {
- }
-
- public Alignment(
- java.lang.String gapchar,
- java.lang.String[] method,
- vamsas.objects.simple.SequenceSet seqs,
- vamsas.objects.simple.Sequence[] seqsAsArray) {
- this.gapchar = gapchar;
- this.method = method;
- this.seqs = seqs;
- this.seqsAsArray = seqsAsArray;
+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;
+
+ @Override
+ public synchronized boolean equals(java.lang.Object obj)
+ {
+ if (obj == null)
+ {
+ return false;
}
-
-
- /**
- * 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;
+ if (!(obj instanceof Alignment))
+ {
+ return false;
}
-
-
- /**
- * Gets the seqs value for this Alignment.
- *
- * @return seqs
- */
- public vamsas.objects.simple.SequenceSet getSeqs() {
- return seqs;
+ Alignment other = (Alignment) obj;
+ if (this == obj)
+ {
+ return true;
}
-
-
- /**
- * Sets the seqs value for this Alignment.
- *
- * @param seqs
- */
- public void setSeqs(vamsas.objects.simple.SequenceSet seqs) {
- this.seqs = seqs;
+ if (__equalsCalc != null)
+ {
+ return (__equalsCalc == obj);
}
-
-
- /**
- * Gets the seqsAsArray value for this Alignment.
- *
- * @return seqsAsArray
- */
- public vamsas.objects.simple.Sequence[] getSeqsAsArray() {
- return seqsAsArray;
+ __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;
+
+ @Override
+ public synchronized int hashCode()
+ {
+ if (__hashCodeCalc)
+ {
+ return 0;
}
-
-
- /**
- * Sets the seqsAsArray value for this Alignment.
- *
- * @param seqsAsArray
- */
- public void setSeqsAsArray(vamsas.objects.simple.Sequence[] seqsAsArray) {
- this.seqsAsArray = seqsAsArray;
+ __hashCodeCalc = true;
+ int _hashCode = super.hashCode();
+ if (getGapchar() != null)
+ {
+ _hashCode += getGapchar().hashCode();
}
-
- 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);
+ 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();
}
- __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()))) &&
- ((this.seqsAsArray==null && other.getSeqsAsArray()==null) ||
- (this.seqsAsArray!=null &&
- java.util.Arrays.equals(this.seqsAsArray, other.getSeqsAsArray())));
- __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();
- }
- if (getSeqsAsArray() != null) {
- for (int i=0;
- i<java.lang.reflect.Array.getLength(getSeqsAsArray());
- i++) {
- java.lang.Object obj = java.lang.reflect.Array.get(getSeqsAsArray(), i);
- if (obj != null &&
- !obj.getClass().isArray()) {
- _hashCode += obj.hashCode();
- }
- }
- }
- __hashCodeCalc = false;
- return _hashCode;
+ if (getSeqs() != null)
+ {
+ _hashCode += getSeqs().hashCode();
}
+ __hashCodeCalc = false;
+ return _hashCode;
+ }
}
git://source.jalview.org / jalview.git / blobdiff