org.intermine.model.bio.SequenceShadow Maven / Gradle / Ivy
package org.intermine.model.bio;
import org.intermine.objectstore.ObjectStore;
import org.intermine.objectstore.intermine.NotXmlParser;
import org.intermine.objectstore.intermine.NotXmlRenderer;
import org.intermine.model.StringConstructor;
import org.intermine.metadata.TypeUtil;
import org.intermine.util.DynamicUtil;
import org.intermine.model.ShadowClass;
public class SequenceShadow implements Sequence, ShadowClass
{
public static final Class shadowOf = Sequence.class;
// Attr: org.intermine.model.bio.Sequence.md5checksum
protected java.lang.String md5checksum;
public java.lang.String getMd5checksum() { return md5checksum; }
public void setMd5checksum(final java.lang.String md5checksum) { this.md5checksum = md5checksum; }
// Attr: org.intermine.model.bio.Sequence.residues
protected org.intermine.objectstore.query.ClobAccess residues;
public org.intermine.objectstore.query.ClobAccess getResidues() { return residues; }
public void setResidues(final org.intermine.objectstore.query.ClobAccess residues) { this.residues = residues; }
// Attr: org.intermine.model.bio.Sequence.length
protected int length;
public int getLength() { return length; }
public void setLength(final int length) { this.length = length; }
// Attr: org.intermine.model.InterMineObject.id
protected java.lang.Integer id;
public java.lang.Integer getId() { return id; }
public void setId(final java.lang.Integer id) { this.id = id; }
@Override public boolean equals(Object o) { return (o instanceof Sequence && id != null) ? id.equals(((Sequence)o).getId()) : this == o; }
@Override public int hashCode() { return (id != null) ? id.hashCode() : super.hashCode(); }
@Override public String toString() { return "Sequence [id=" + id + ", length=" + length + ", md5checksum=" + (md5checksum == null ? "null" : "\"" + md5checksum + "\"") + ", residues=" + (residues == null ? "null" : "\"" + residues + "\"") + "]"; }
public Object getFieldValue(final String fieldName) throws IllegalAccessException {
if ("md5checksum".equals(fieldName)) {
return md5checksum;
}
if ("residues".equals(fieldName)) {
return residues;
}
if ("length".equals(fieldName)) {
return Integer.valueOf(length);
}
if ("id".equals(fieldName)) {
return id;
}
if (!org.intermine.model.bio.Sequence.class.equals(getClass())) {
return TypeUtil.getFieldValue(this, fieldName);
}
throw new IllegalArgumentException("Unknown field " + fieldName);
}
public Object getFieldProxy(final String fieldName) throws IllegalAccessException {
if ("md5checksum".equals(fieldName)) {
return md5checksum;
}
if ("residues".equals(fieldName)) {
return residues;
}
if ("length".equals(fieldName)) {
return Integer.valueOf(length);
}
if ("id".equals(fieldName)) {
return id;
}
if (!org.intermine.model.bio.Sequence.class.equals(getClass())) {
return TypeUtil.getFieldProxy(this, fieldName);
}
throw new IllegalArgumentException("Unknown field " + fieldName);
}
public void setFieldValue(final String fieldName, final Object value) {
if ("md5checksum".equals(fieldName)) {
md5checksum = (java.lang.String) value;
} else if ("residues".equals(fieldName)) {
residues = (org.intermine.objectstore.query.ClobAccess) value;
} else if ("length".equals(fieldName)) {
length = ((Integer) value).intValue();
} else if ("id".equals(fieldName)) {
id = (java.lang.Integer) value;
} else {
if (!org.intermine.model.bio.Sequence.class.equals(getClass())) {
DynamicUtil.setFieldValue(this, fieldName, value);
return;
}
throw new IllegalArgumentException("Unknown field " + fieldName);
}
}
public Class getFieldType(final String fieldName) {
if ("md5checksum".equals(fieldName)) {
return java.lang.String.class;
}
if ("residues".equals(fieldName)) {
return org.intermine.objectstore.query.ClobAccess.class;
}
if ("length".equals(fieldName)) {
return Integer.TYPE;
}
if ("id".equals(fieldName)) {
return java.lang.Integer.class;
}
if (!org.intermine.model.bio.Sequence.class.equals(getClass())) {
return TypeUtil.getFieldType(org.intermine.model.bio.Sequence.class, fieldName);
}
throw new IllegalArgumentException("Unknown field " + fieldName);
}
public StringConstructor getoBJECT() {
if (!org.intermine.model.bio.SequenceShadow.class.equals(getClass())) {
return NotXmlRenderer.render(this);
}
StringConstructor sb = new StringConstructor();
sb.append("$_^org.intermine.model.bio.Sequence");
if (md5checksum != null) {
sb.append("$_^amd5checksum$_^");
String string = md5checksum;
while (string != null) {
int delimPosition = string.indexOf("$_^");
if (delimPosition == -1) {
sb.append(string);
string = null;
} else {
sb.append(string.substring(0, delimPosition + 3));
sb.append("d");
string = string.substring(delimPosition + 3);
}
}
}
if (residues != null) {
sb.append("$_^aresidues$_^" + residues.getDbDescription());
}
sb.append("$_^alength$_^").append(length);
if (id != null) {
sb.append("$_^aid$_^").append(id);
}
return sb;
}
public void setoBJECT(String notXml, ObjectStore os) {
setoBJECT(NotXmlParser.SPLITTER.split(notXml), os);
}
public void setoBJECT(final String[] notXml, final ObjectStore os) {
if (!org.intermine.model.bio.SequenceShadow.class.equals(getClass())) {
throw new IllegalStateException("Class " + getClass().getName() + " does not match code (org.intermine.model.bio.Sequence)");
}
for (int i = 2; i < notXml.length;) {
int startI = i;
if ((i < notXml.length) && "amd5checksum".equals(notXml[i])) {
i++;
StringBuilder string = null;
while ((i + 1 < notXml.length) && (notXml[i + 1].charAt(0) == 'd')) {
if (string == null) string = new StringBuilder(notXml[i]);
i++;
string.append("$_^").append(notXml[i].substring(1));
}
md5checksum = string == null ? notXml[i] : string.toString();
i++;
}
if ((i < notXml.length) && "aresidues".equals(notXml[i])) {
i++;
residues = org.intermine.objectstore.query.ClobAccess.decodeDbDescription(os, notXml[i]);
i++;
}
if ((i < notXml.length) && "alength".equals(notXml[i])) {
i++;
length = Integer.parseInt(notXml[i]);
i++;
}
if ((i < notXml.length) && "aid".equals(notXml[i])) {
i++;
id = Integer.valueOf(notXml[i]);
i++;
}
if (startI == i) {
throw new IllegalArgumentException("Unknown field " + notXml[i]);
}
}
}
public void addCollectionElement(final String fieldName, final org.intermine.model.InterMineObject element) {
{
if (!org.intermine.model.bio.Sequence.class.equals(getClass())) {
TypeUtil.addCollectionElement(this, fieldName, element);
return;
}
throw new IllegalArgumentException("Unknown collection " + fieldName);
}
}
public Class getElementType(final String fieldName) {
if (!org.intermine.model.bio.Sequence.class.equals(getClass())) {
return TypeUtil.getElementType(org.intermine.model.bio.Sequence.class, fieldName);
}
throw new IllegalArgumentException("Unknown field " + fieldName);
}
}