/** Recursively save all child elements and then call ObjBase to save itself. */
@Override
public synchronized boolean save(ClothoConnection conn) {
System.out.println("============ Starting plasmidSample save");
if (!isChanged()) {
System.out.println("plasmidSample didn't require saving");
return true;
}
if (Collector.isLocal(_pSampleDatum._plasmidUUID)) {
Plasmid plas = getPlasmid();
if (!plas.isInDatabase()) {
if (!plas.save(conn)) {
return false;
}
}
}
if (Collector.isLocal(_pSampleDatum._sourceStrainUUID)) {
Strain st = getSourceStrain();
if (!st.isInDatabase()) {
if (!st.save(conn)) {
return false;
}
}
}
return super.save(conn);
}
/**
* Private Constructor for a new Sample generated from scratch, use factory method
* generatePlasmidSample
*
* @param myplasmid the Plasmid ("DNA") within the Sample
* @param mycell the Strain from which the Plasmid is derived
* @param mycontainer the Container the Sample is being put in
* @param myvolume how many uL of liquid are in the new Sample
* @param author who is creating the Sample
*/
private PlasmidSample(Plasmid myplasmid, Strain mycell, double myvolume, Person author) {
super(myplasmid.getName(), myvolume, author);
_pSampleDatum._plasmidUUID = myplasmid.getUUID();
if (mycell != null) {
_pSampleDatum._sourceStrainUUID = mycell.getUUID();
}
}
public void changePlasmid(Plasmid newplas) {
// DO A CHECK OF WHETHER THIS STRAIN IS LOCKED OR NOT
if (newplas == null) {
fireData(new RefreshEvent(this, RefreshEvent.Condition.PLASMID_CHANGED));
return;
}
_pSampleDatum._plasmidUUID = newplas.getUUID();
setChanged(org.clothocore.api.dnd.RefreshEvent.Condition.PLASMID_CHANGED);
}
private static Entry infoToPlasmidForField(Entry entry, String value, EntryField field) {
if (!entry.getRecordType().equalsIgnoreCase(EntryType.PLASMID.toString())) return entry;
Plasmid plasmid = (Plasmid) entry;
switch (field) {
case BACKBONE:
plasmid.setBackbone(value);
return plasmid;
case PROMOTERS:
plasmid.setPromoters(value);
return plasmid;
case REPLICATES_IN:
plasmid.setReplicatesIn(value);
return plasmid;
case CIRCULAR:
plasmid.setCircular(
"yes".equalsIgnoreCase(value)
|| "true".equalsIgnoreCase(value)
|| "circular".equalsIgnoreCase(value));
return plasmid;
case ORIGIN_OF_REPLICATION:
plasmid.setOriginOfReplication(value);
return plasmid;
default:
return plasmid;
}
}
protected static Entry setPlasmidFields(PlasmidData plasmidData, Entry entry) {
if (plasmidData == null) return entry;
Plasmid plasmid = (Plasmid) entry;
if (plasmidData.getBackbone() != null) plasmid.setBackbone(plasmidData.getBackbone());
if (plasmidData.getOriginOfReplication() != null)
plasmid.setOriginOfReplication(plasmidData.getOriginOfReplication());
if (plasmidData.getPromoters() != null) plasmid.setPromoters(plasmidData.getPromoters());
if (plasmidData.getReplicatesIn() != null)
plasmid.setReplicatesIn(plasmidData.getReplicatesIn());
if (plasmidData.getCircular() != null) plasmid.setCircular(plasmidData.getCircular());
return entry;
}
