-/**
+/*
+ * This file is part of the Vamsas Client version 0.1.
+ * Copyright 2009 by Jim Procter, Iain Milne, Pierre Marguerite,
+ * Andrew Waterhouse and Dominik Lindner.
+ *
+ * Earlier versions have also been incorporated into Jalview version 2.4
+ * since 2008, and TOPALi version 2 since 2007.
*
+ * The Vamsas Client is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * The Vamsas Client 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 Lesser General Public License for more details.
+ *
+ * You should have received a copy of the GNU Lesser General Public License
+ * along with the Vamsas Client. If not, see <http://www.gnu.org/licenses/>.
*/
package uk.ac.vamsas.client;
*/
public abstract class Vobject {
static Log log = LogFactory.getLog(Vobject.class);
-
+
/**
- * true if Vobject was stored in a vamsas Document or has been retrieved from it
+ * true if Vobject was stored in a vamsas Document or has been retrieved from
+ * it
*/
protected boolean __stored_in_document = false;
+
/**
- * true if Vobject was updated since the vamsas library last read a Vobj with the same VorbaId from a document.
+ * true if Vobject was updated since the vamsas library last read a Vobj with
+ * the same VorbaId from a document.
*/
protected boolean __updated_since_last_read = false;
+
/**
- * true if Vobject appeared in the document after the last access by this vamsas library instance
+ * true if Vobject appeared in the document after the last access by this
+ * vamsas library instance
*/
protected boolean __added_since_last_read = false;
+
/**
- * memory of the last doHash() value computed for the Vobject
+ * memory of the last doHash() value computed for the Vobject
+ *
* @see doHash()
*/
- protected int __last_hash = 0;
+ protected int __last_hash = 0;
+
/**
* set by testInstanceForIdField() if Vobject should have a VorbaId
*/
- protected boolean registerable = false;
+ protected boolean registerable = false;
+
protected boolean __visited = false;
+
/**
* reference to containing object for this Vobject.
*/
- protected Vobject V_parent=null;
+ protected Vobject V_parent = null;
+
/**
* unique id for all vamsas objects allows unambiguous referencing to any
* Vobject in the vamsas document
* the source of unique VorbaIds.
*/
protected IVorbaIdFactory __vorba = null;
-
- /* (non-Javadoc)
+
+ /*
+ * (non-Javadoc)
+ *
* @see java.lang.Object#finalize()
*/
protected void finalize() throws Throwable {
- V_parent=null;
- __vorba=null;
- vorbaId=null;
+ V_parent = null;
+ __vorba = null;
+ vorbaId = null;
super.finalize();
}
super();
testInstanceForIdField();
}
+
/**
- * Override Object.hashCode with base value for castor generated object hashcodes.
+ * Override Object.hashCode with base value for castor generated object
+ * hashcodes.
*/
public int hashCode() {
return 17;
}
- java.lang.reflect.Field ___id_field=null; // set to ease pain of reflection
+
+ java.lang.reflect.Field ___id_field = null; // set to ease pain of reflection
+
/**
- * set the isRegisterable flag based on the presence of a 'private String _id' field in
- * the reflected class instance.
+ * set the isRegisterable flag based on the presence of a 'private String _id'
+ * field in the reflected class instance.
*/
private void testInstanceForIdField() {
- // TODO: decide if 'id' is an appropriate reserved attribute name for the VorbaId
+ // TODO: decide if 'id' is an appropriate reserved attribute name for the
+ // VorbaId
// look for the id field in all castor classes (should be an NCName string)
-
- Class thisclass=this.getClass();
+
+ Class thisclass = this.getClass();
setRegisterable(false);
while (!thisclass.equals(Vobject.class)) {
try {
java.lang.reflect.Field fd = thisclass.getDeclaredField("_id");
if (String.class.isAssignableFrom(fd.getType())) {
- ___id_field=fd;
+ ___id_field = fd;
this.setRegisterable(true);
break;
}
} catch (SecurityException e) {
- log.error("Unexpected Security Exception whilst finding id fields to set!",e);
+ log
+ .error(
+ "Unexpected Security Exception whilst finding id fields to set!",
+ e);
} catch (NoSuchFieldException e) {
- thisclass=thisclass.getSuperclass();
+ thisclass = thisclass.getSuperclass();
}
}
}
+
// boolean __testedInstance=false;
/**
* update the Vobject instance's _id field, based on the contents of the
* VorbaId. Only call this if you mean to do it!
*/
protected void setInstanceIdField() {
- /*if (!registerable && !__testedInstance) {
- testInstanceForIdField();
- __testedInstance=true;
- }*/
+ /*
+ * if (!registerable && !__testedInstance) { testInstanceForIdField();
+ * __testedInstance=true; }
+ */
if (registerable) {
if (__vorba != null)
try {
- Method fd = this.getClass().getMethod("setId", new Class[] { String.class });
- fd.invoke((Object) this, new Object[] {new String(this.getVorbaId().id)});
- log.debug(this.getClass().getName()+" called setInstanceIdField!");
- } catch (InvocationTargetException e) {
- log.error("SourceGeneration of "
- + this.getClass().toString()
- + "\n has resulted in an inaccessible 'setId' method!\nCannot set ID from the vorbaId Vobject.", e);
- }
- catch (IllegalAccessException e) {
- log.error("SourceGeneration of "
- + this.getClass().toString()
- + "\n has resulted in an inaccessible 'setId' method!\nCannot set ID from the vorbaId Vobject.", e);
+ Method fd = this.getClass().getMethod("setId",
+ new Class[] { String.class });
+ fd.invoke((Object) this, new Object[] { new String(
+ this.getVorbaId().id) });
+ log.debug(this.getClass().getName() + " called setInstanceIdField!");
+ } catch (InvocationTargetException e) {
+ log
+ .error(
+ "SourceGeneration of "
+ + this.getClass().toString()
+ + "\n has resulted in an inaccessible 'setId' method!\nCannot set ID from the vorbaId Vobject.",
+ e);
+ } catch (IllegalAccessException e) {
+ log
+ .error(
+ "SourceGeneration of "
+ + this.getClass().toString()
+ + "\n has resulted in an inaccessible 'setId' method!\nCannot set ID from the vorbaId Vobject.",
+ e);
} catch (SecurityException e) {
- log.error("Security access violation for "+this.getClass().toString(),e);
+ log.error("Security access violation for "
+ + this.getClass().toString(), e);
} catch (NoSuchMethodException e) {
- log.warn(this.getClass().toString()+" was erroneously marked as a Vorba Vobject class (Implementation error?)");
+ log
+ .warn(this.getClass().toString()
+ + " was erroneously marked as a Vorba Vobject class (Implementation error?)");
this.setRegisterable(false);
}
} else {
+ this.getClass().toString() + " (which cannot be given a vorbaId)");
}
}
-
+
protected String __getInstanceIdField() {
- /*if (!registerable && !__testedInstance) {
- testInstanceForIdField();
- __testedInstance=true;
- }*/
+ /*
+ * if (!registerable && !__testedInstance) { testInstanceForIdField();
+ * __testedInstance=true; }
+ */
if (registerable) {
if (__vorba != null)
try {
Method fd = this.getClass().getMethod("getId", (Class[]) null);
Object idstring = fd.invoke((Object) this, (Object[]) null);
- log.debug(this.getClass().getName()+" called getInstanceIdField!");
- if (idstring!=null && idstring instanceof String) {
- if (((String) idstring).length()>0)
+ log.debug(this.getClass().getName() + " called getInstanceIdField!");
+ if (idstring != null && idstring instanceof String) {
+ if (((String) idstring).length() > 0)
return (String) idstring;
}
- } catch (InvocationTargetException e) {
- log.error("SourceGeneration of "
- + this.getClass().toString()
- + "\n has resulted in an inaccessible 'getId' method!\nCannot set ID from the vorbaId Vobject.", e);
- }
- catch (IllegalAccessException e) {
- log.error("SourceGeneration of "
- + this.getClass().toString()
- + "\n has resulted in an inaccessible 'getId' method!\nCannot set ID from the vorbaId Vobject.", e);
+ } catch (InvocationTargetException e) {
+ log
+ .error(
+ "SourceGeneration of "
+ + this.getClass().toString()
+ + "\n has resulted in an inaccessible 'getId' method!\nCannot set ID from the vorbaId Vobject.",
+ e);
+ } catch (IllegalAccessException e) {
+ log
+ .error(
+ "SourceGeneration of "
+ + this.getClass().toString()
+ + "\n has resulted in an inaccessible 'getId' method!\nCannot set ID from the vorbaId Vobject.",
+ e);
} catch (SecurityException e) {
- log.error("Security access violation for "+this.getClass().toString(),e);
+ log.error("Security access violation for "
+ + this.getClass().toString(), e);
} catch (NoSuchMethodException e) {
- log.warn(this.getClass().toString()+" was erroneously marked as a Vorba Vobject class (Implementation error?)");
+ log
+ .warn(this.getClass().toString()
+ + " was erroneously marked as a Vorba Vobject class (Implementation error?)");
this.setRegisterable(false);
}
} else {
}
return null;
}
+
/**
* calls the castor-generated hashCode() method
+ *
* @return
*/
protected int __callHash() {
Method fd = this.getClass().getMethod("hashCode", (Class[]) null);
Object hashvalue = fd.invoke((Object) this, (Object[]) null);
if (log.isDebugEnabled())
- log.debug(this.getClass().getName()+" called hashCode()!");
- if (hashvalue!=null && hashvalue instanceof Integer) {
+ log.debug(this.getClass().getName() + " called hashCode()!");
+ if (hashvalue != null && hashvalue instanceof Integer) {
return ((Integer) hashvalue).intValue();
}
- } catch (InvocationTargetException e) {
- log.error("SourceGeneration of "
- + this.getClass().toString()
- + "\n has resulted in an inaccessible 'hashCode' method!\nHave you set org.exolab.castor.builder.equalsmethod=true in castorbuilder.properties ?.", e);
- }
- catch (IllegalAccessException e) {
- log.error("SourceGeneration of "
- + this.getClass().toString()
- + "\n has resulted in an inaccessible 'hashCode' method!\nHave you set org.exolab.castor.builder.equalsmethod=true in castorbuilder.properties ?.", e);
+ } catch (InvocationTargetException e) {
+ log
+ .error(
+ "SourceGeneration of "
+ + this.getClass().toString()
+ + "\n has resulted in an inaccessible 'hashCode' method!\nHave you set org.exolab.castor.builder.equalsmethod=true in castorbuilder.properties ?.",
+ e);
+ } catch (IllegalAccessException e) {
+ log
+ .error(
+ "SourceGeneration of "
+ + this.getClass().toString()
+ + "\n has resulted in an inaccessible 'hashCode' method!\nHave you set org.exolab.castor.builder.equalsmethod=true in castorbuilder.properties ?.",
+ e);
} catch (SecurityException e) {
- log.error("Security access violation for "+this.getClass().toString(),e);
+ log.error("Security access violation for " + this.getClass().toString(),
+ e);
} catch (NoSuchMethodException e) {
- log.warn(this.getClass().toString()+" was erroneously extending from a Vorba Vobject class (Implementation error? no hashCode() method)" +
- "\nHave you set org.exolab.castor.builder.equalsmethod=true in castorbuilder.properties ?.", e);
+ log
+ .warn(
+ this.getClass().toString()
+ + " was erroneously extending from a Vorba Vobject class (Implementation error? no hashCode() method)"
+ + "\nHave you set org.exolab.castor.builder.equalsmethod=true in castorbuilder.properties ?.",
+ e);
}
return 0;
}
+
/**
* calculate a hash for the Vobject with all housekeeping fields at standard
- * values. (isRegisterable is an immutable attribute property)
- * TODO: LATER: make this hash function compute a hash that truly reflects changes in Vobject attributes for benefit of update mechanism
- * @return true if new hash different to last hash (or first time its been computed)
+ * values. (isRegisterable is an immutable attribute property) TODO: LATER:
+ * make this hash function compute a hash that truly reflects changes in
+ * Vobject attributes for benefit of update mechanism
+ *
+ * @return true if new hash different to last hash (or first time its been
+ * computed)
*/
synchronized protected boolean doHash() {
boolean stored = __stored_in_document;
- __stored_in_document=false;
+ __stored_in_document = false;
boolean updated = __updated_since_last_read;
- __updated_since_last_read=false;
- boolean added_since=__added_since_last_read;
- __added_since_last_read=false;
+ __updated_since_last_read = false;
+ boolean added_since = __added_since_last_read;
+ __added_since_last_read = false;
long __old_hash = __last_hash;
__last_hash = 0;
// leave registerable - doesn't change
boolean visited = __visited;
- __visited=false;
- Vobject _V_parent=V_parent;
- V_parent=null;
+ __visited = false;
+ Vobject _V_parent = V_parent;
+ V_parent = null;
VorbaId thisid = vorbaId;
vorbaId = null;
IVorbaIdFactory factory = __vorba;
__vorba = null;
java.lang.reflect.Field idfield = ___id_field;
- ___id_field=null;
+ ___id_field = null;
long l_hash = __l_hash;
__l_hash = 0;
// compute hash
__last_hash = __callHash();
// reset houseskeeping variables
- ___id_field=idfield;
+ ___id_field = idfield;
vorbaId = thisid;
__vorba = factory;
__stored_in_document = stored;
- __updated_since_last_read=updated;
- V_parent=_V_parent;
- __visited=visited;
- __added_since_last_read=added_since;
+ __updated_since_last_read = updated;
+ V_parent = _V_parent;
+ __visited = visited;
+ __added_since_last_read = added_since;
__l_hash = l_hash;
// return true if first time hash was computed or if hash has changed
- return (__old_hash==0) || (__old_hash != __last_hash);
+ return (__old_hash == 0) || (__old_hash != __last_hash);
}
/**
* @return
*/
protected boolean merge(Vobject laterCopy) {
- log.warn(this.getClass().getName()+".merge() not implemented.");
+ log.warn(this.getClass().getName() + ".merge() not implemented.");
return true;
}
public VorbaId getVorbaId() {
if (registerable && vorbaId == null) {
if (this.__stored_in_document) {
- if (__vorba!=null)
- vorbaId=uk.ac.vamsas.client.VorbaId.newId(this.__getInstanceIdField());
+ if (__vorba != null)
+ vorbaId = uk.ac.vamsas.client.VorbaId.newId(this
+ .__getInstanceIdField());
}
// Try to use the associated factory.
if (__vorba != null)
}
/**
- * @return true if this object has been updated in the currently stored document since the last time a Vobject with the same ID was read from a Vamsas Document
+ * @return true if this object has been updated in the currently stored
+ * document since the last time a Vobject with the same ID was read
+ * from a Vamsas Document
*/
public boolean isUpdated() {
return __updated_since_last_read;
}
+
/**
*
- * @return true if this object was added to the document after the last time the vamsas library acessed the session document
+ * @return true if this object was added to the document after the last time
+ * the vamsas library acessed the session document
*/
public boolean isNewInDocument() {
return __added_since_last_read;
}
+
/**
- * Set internal flag to indicate this object was updated since the last document read
- * @param __updated_since_last_read the __updated_since_last_read to set
+ * Set internal flag to indicate this object was updated since the last
+ * document read
+ *
+ * @param __updated_since_last_read
+ * the __updated_since_last_read to set
*/
protected void set__updated_since_last_read(boolean __updated_since_last_read) {
this.__updated_since_last_read = __updated_since_last_read;
- if(__updated_since_last_read && log.isDebugEnabled())
- log.debug("Registered update for "+this.getVorbaId());
+ if (__updated_since_last_read && log.isDebugEnabled())
+ log.debug("Registered update for " + this.getVorbaId());
}
/**
* for use by Vorba agent to reflect state of vamsas Vobject to client
- * application.
- * Setting stored_in_document on a registerable Vobject without a
- * vorbaId will mean is will *never* get a vorbaId and
- * horrible things will happen.
- * @param __stored_in_document true if Vobject has been marshalled into current document.
+ * application. Setting stored_in_document on a registerable Vobject without a
+ * vorbaId will mean is will *never* get a vorbaId and horrible things will
+ * happen.
+ *
+ * @param __stored_in_document
+ * true if Vobject has been marshalled into current document.
*/
protected void set__stored_in_document(boolean __stored_in_document) {
this.__stored_in_document = __stored_in_document;
- if(__stored_in_document && log.isDebugEnabled())
- log.debug("Retrieved document object: "+this.getVorbaId());
+ if (__stored_in_document && log.isDebugEnabled())
+ log.debug("Retrieved document object: " + this.getVorbaId());
}
/**
- * @param __added_since_last_read the __added_since_last_read to set
+ * @param __added_since_last_read
+ * the __added_since_last_read to set
*/
protected void set__added_since_last_read(boolean __added_since_last_read) {
this.__added_since_last_read = __added_since_last_read;
- if(__added_since_last_read && log.isDebugEnabled())
- log.debug("New object in document: "+this.getVorbaId());
+ if (__added_since_last_read && log.isDebugEnabled())
+ log.debug("New object in document: " + this.getVorbaId());
}
/**
}
/**
- * Called by __testInstanceForidField and the post-unmarshalling handler
- * to indicate if Vobject will have a vorbaId.
- * @param registerable
+ * Called by __testInstanceForidField and the post-unmarshalling handler to
+ * indicate if Vobject will have a vorbaId.
+ *
+ * @param registerable
*/
protected void setRegisterable(boolean registerable) {
this.registerable = registerable;
}
+
/**
- * ensure's internal id field corresponds to vorbaId and
- * cascade through all fields referring to an instance of Vobject
- * calling the same method on them.
- * TODO: LATER: properly apply castors own field mechanisms to get at accessors
- * TODO: FIX CYCLIC __ensure+instance_ids
- * Implementation note for the todo:
- * this works like a depth-first search over all vamsas objects in an vamsasDocument.
- * __visited is the visited flag, any Vobj who's flag is of a different parity
- * to the visited argument will be recursed on.
- * note - the doHash() function used to be used as the 'visited' flag -
- * this *is not* a valid heuristic, although it will work "most of the time".
- * TODO: LATER? Add another method for setDefaultProvenanceField (in the spirit of setInstanceIdField) using the info from the __vorba.getClient/User/Session methods
+ * ensure's internal id field corresponds to vorbaId and cascade through all
+ * fields referring to an instance of Vobject calling the same method on them.
+ * TODO: LATER: properly apply castors own field mechanisms to get at
+ * accessors TODO: FIX CYCLIC __ensure+instance_ids Implementation note for
+ * the todo: this works like a depth-first search over all vamsas objects in
+ * an vamsasDocument. __visited is the visited flag, any Vobj who's flag is of
+ * a different parity to the visited argument will be recursed on. note - the
+ * doHash() function used to be used as the 'visited' flag - this *is not* a
+ * valid heuristic, although it will work "most of the time". TODO: LATER? Add
+ * another method for setDefaultProvenanceField (in the spirit of
+ * setInstanceIdField) using the info from the __vorba.getClient/User/Session
+ * methods
*/
protected void __ensure_instance_ids() {
__ensure_instance_ids(!__visited);
}
+
protected void __ensure_instance_ids(boolean visited) {
- if (__vorba==null)
- throw new Error("Improperly intialised uk.ac.vamsas.client.Vobject - no VorbaFactory given.");
- log.debug("doing "+this.getClass()+".__ensure_instance_ids()");
+ if (__vorba == null)
+ throw new Error(
+ "Improperly intialised uk.ac.vamsas.client.Vobject - no VorbaFactory given.");
+ log.debug("doing " + this.getClass() + ".__ensure_instance_ids()");
if (!__stored_in_document && registerable)
setInstanceIdField();
- if (__visited==visited)
+ if (__visited == visited)
return;
- __visited=visited;
- //__vorba.updateHashValue(this);
-
+ __visited = visited;
+ // __vorba.updateHashValue(this);
+
Class descriptor = null;
XMLClassDescriptorImpl descimpl = null;
try {
StringBuffer desname = new StringBuffer(this.getClass().getName());
desname.insert(desname.lastIndexOf("."), ".descriptors");
desname.append("Descriptor");
- descriptor = this.getClass().getClassLoader().loadClass(desname.toString());
- descimpl = (XMLClassDescriptorImpl) descriptor.getConstructor((Class[])null).newInstance((Object[])null);
+ descriptor = this.getClass().getClassLoader().loadClass(
+ desname.toString());
+ descimpl = (XMLClassDescriptorImpl) descriptor.getConstructor(
+ (Class[]) null).newInstance((Object[]) null);
} catch (Exception e) {
log.fatal("Source Generation Error!: Couldn't resolve descriptor for "
- +this.getClass().getName()
- +" was 'generate descriptors' set for castorbuilder.properties?");
+ + this.getClass().getName()
+ + " was 'generate descriptors' set for castorbuilder.properties?");
return;
}
FieldDescriptor fields[] = descimpl.getFields();
- for (int i=0,j=fields.length; i<j; i++) {
- Class type= fields[i].getFieldType();
+ for (int i = 0, j = fields.length; i < j; i++) {
+ Class type = fields[i].getFieldType();
if (type.isArray()) {
if (Vobject[].class.isAssignableFrom(type)) {
try {
Object val = fields[i].getHandler().getValue(this);
- if (val!=null) {
- Vobject vals[] = (Vobject[]) val;
- for (int k=0, l=vals.length; k<l; k++) {
- if (vals[k].__vorba==null)
+ if (val != null) {
+ Vobject vals[] = (Vobject[]) val;
+ for (int k = 0, l = vals.length; k < l; k++) {
+ if (vals[k].__vorba == null)
vals[k].__vorba = __vorba; // propagate IVorbaIdFactory
- if (vals[k].V_parent==null)
- vals[k].V_parent=this; // propagate parent reference to this element.
+ if (vals[k].V_parent == null)
+ vals[k].V_parent = this; // propagate parent reference to this
+ // element.
vals[k].__ensure_instance_ids(visited);
}
}
- }
- catch (Exception e) {
- log.error("Client error - could not access array "+type.getName()+" in "+this.getClass().getName(), e);
+ } catch (Exception e) {
+ log.error("Client error - could not access array " + type.getName()
+ + " in " + this.getClass().getName(), e);
}
}
- } else
- if (Vobject.class.isAssignableFrom(type)) {
- try {
- FieldHandler fh = fields[i].getHandler();
- Vobject rf = null;
- if (fh != null) {
- Object fval = fh.getValue(this);
- if (fval!=null) {
- if (fval.getClass().isArray()) {
- //if (Vobject[].class.isAssignableFrom(type)) {
- try {
- Vobject vals[] = (Vobject[]) fval;
- for (int k=0, l=vals.length; k<l; k++) {
- if (vals[k].__vorba==null)
- vals[k].__vorba = __vorba; // propagate IVorbaIdFactory
- if (vals[k].V_parent==null)
- vals[k].V_parent=this; // propagate parent reference to this field object
- vals[k].__ensure_instance_ids(visited);
- }
- }
- catch (Exception e) {
- log.error("Client error - could not access (fhval)array "+type.getName()+" in "+this.getClass().getName(), e);
- }
- //}
- } else {
- rf = (Vobject) fval;
- log.debug("Got value for "+fields[i].getFieldName());
- }
- }
- } else {
- // castor's mechanism doesn't work for this object... so...*/
- // fuck around, fuck around, jump up jump up and get down! */
- Object o = fields[i].getClassDescriptor();
- if (o!=null) {
- // XMLClassDescriptorImpl fclasdes = (XMLClassDescriptorImpl) o;
- String methname = "get"+fields[i].getFieldName();
- Method fgetmeth = this.getClass().getMethod(methname,(Class[])null);
- if (fgetmeth!=null) {
- Object fval = fgetmeth.invoke(this,(Object[])null);
- if (fval!=null)
- rf = (Vobject) fval;
- } else {
- log.warn("Couldn't find "+this.getClass().getName()+"."+methname);
+ } else if (Vobject.class.isAssignableFrom(type)) {
+ try {
+ FieldHandler fh = fields[i].getHandler();
+ Vobject rf = null;
+ if (fh != null) {
+ Object fval = fh.getValue(this);
+ if (fval != null) {
+ if (fval.getClass().isArray()) {
+ // if (Vobject[].class.isAssignableFrom(type)) {
+ try {
+ Vobject vals[] = (Vobject[]) fval;
+ for (int k = 0, l = vals.length; k < l; k++) {
+ if (vals[k].__vorba == null)
+ vals[k].__vorba = __vorba; // propagate IVorbaIdFactory
+ if (vals[k].V_parent == null)
+ vals[k].V_parent = this; // propagate parent reference to
+ // this field object
+ vals[k].__ensure_instance_ids(visited);
+ }
+ } catch (Exception e) {
+ log.error("Client error - could not access (fhval)array "
+ + type.getName() + " in " + this.getClass().getName(), e);
}
+ // }
+ } else {
+ rf = (Vobject) fval;
+ log.debug("Got value for " + fields[i].getFieldName());
}
}
- if (rf!=null) {
- if (rf.__vorba==null)
- rf.__vorba = __vorba; // propagate IVorbaIdFactory
- if (rf.V_parent==null)
- rf.V_parent=this; // propagate parent reference
- rf.__ensure_instance_ids(visited);
+ } else {
+ // castor's mechanism doesn't work for this object... so...*/
+ // fuck around, fuck around, jump up jump up and get down! */
+ Object o = fields[i].getClassDescriptor();
+ if (o != null) {
+ // XMLClassDescriptorImpl fclasdes = (XMLClassDescriptorImpl) o;
+ String methname = "get" + fields[i].getFieldName();
+ Method fgetmeth = this.getClass().getMethod(methname,
+ (Class[]) null);
+ if (fgetmeth != null) {
+ Object fval = fgetmeth.invoke(this, (Object[]) null);
+ if (fval != null)
+ rf = (Vobject) fval;
+ } else {
+ log.warn("Couldn't find " + this.getClass().getName() + "."
+ + methname);
+ }
}
}
- catch (Exception e) {
- log.error("Client error - could not access "+type.getName()+" in "+this.getClass().getName(), e);
+ if (rf != null) {
+ if (rf.__vorba == null)
+ rf.__vorba = __vorba; // propagate IVorbaIdFactory
+ if (rf.V_parent == null)
+ rf.V_parent = this; // propagate parent reference
+ rf.__ensure_instance_ids(visited);
}
+ } catch (Exception e) {
+ log.error("Client error - could not access " + type.getName()
+ + " in " + this.getClass().getName(), e);
}
+ }
}
-
+
}
/**
}
/**
- * @param __parent the __parent to set
+ * @param __parent
+ * the __parent to set
*/
protected void setV_parent(Vobject V_parent) {
this.V_parent = V_parent;
}
+
/**
* LhashValue - used for change detection between document updates.
*/
- private long __l_hash=0;
+ private long __l_hash = 0;
+
/**
* set the base LhashValue for this object
+ *
* @param checksum
*/
protected void __setInitHash(long checksum) {
__l_hash = checksum;
}
+
/**
- * compute the final LhashValue as a difference between checksum and the current base
+ * compute the final LhashValue as a difference between checksum and the
+ * current base
+ *
* @param checksum
*/
protected void __setFinalHash(long checksum) {
__l_hash = checksum - __l_hash;
}
+
/**
* get the LhashValue for this object
- * @return the difference in values passed to __setFinalHash less __setInitHash
+ *
+ * @return the difference in values passed to __setFinalHash less
+ * __setInitHash
*/
protected long __getLHash() {
return __l_hash;
git://source.jalview.org / vamsas.git / blobdiff