/**
* Adds an executable plan t2flow to the parent.
*
* @param t2flow the t2flow to add
* @param parent the parent element of the element to create
* @return the newly created element or null if none was created
* @throws TavernaParserException if the workflow could not be parsed
* @throws StorageException if the data could not be loaded
*/
private Element addPreservationActionPlanT2flow(DigitalObject t2flow, Element parent)
throws TavernaParserException, StorageException {
Element executablePlan = null;
if (t2flow != null && t2flow.isDataExistent()) {
executablePlan = parent.addElement("executablePlan").addAttribute("type", "t2flow");
if (!addDigitalObjectData) {
// Add only DigitalObject ID, it can be replaced later
executablePlan.setText(String.valueOf(t2flow.getId()));
} else {
DigitalObject t2flowObject = t2flow;
try {
if (t2flowObject.getData().getData() == null
|| t2flowObject.getData().getData().length == 0) {
t2flowObject = digitalObjectManager.getCopyOfDataFilledDigitalObject(t2flowObject);
}
T2FlowParser parser =
T2FlowParser.createParser(new ByteArrayInputStream(t2flowObject.getData().getData()));
Document doc = parser.getDoc();
executablePlan.add(doc.getRootElement());
} finally {
t2flowObject = null;
}
}
}
return executablePlan;
}
/** Characterises results for all alternatives. */
public void characteriseResults() {
List<Alternative> runnableAlternatives = getRunnableAlternatives();
List<SampleObject> allRecords = plan.getSampleRecordsDefinition().getRecords();
for (Alternative alternative : runnableAlternatives) {
Experiment exp = alternative.getExperiment();
for (SampleObject record : allRecords) {
DigitalObject u = exp.getResults().get(record);
if (u.isDataExistent() && (u.getFitsXMLString() == null)) {
characteriseFits(u);
}
}
}
}
/**
* Adds data for the preservation action plan to the parent element.
*
* @param collectionProfile source of the data
* @param parent the parent element of the element to create
* @return the newly created element or null if none was created
* @throws ParserException if the collection profile could not be parsed
* @throws StorageException if the data could not be loaded
*/
private Element addPreservationActionPlanData(CollectionProfile collectionProfile, Element parent)
throws ParserException, StorageException {
Element collection = null;
if (collectionProfile != null) {
collection = parent.addElement("collection");
collection.addAttribute("uid", collectionProfile.getCollectionID());
// TODO: Collection has no name
// collection.addAttribute("name",
// p.getSampleRecordsDefinition().getCollectionProfile().getCollectionID());
// Objects
Element objects = parent.addElement("objects");
DigitalObject profileObject = collectionProfile.getProfile();
try {
if (profileObject != null && profileObject.isDataExistent()) {
if (!addDigitalObjectData) {
objects.setText(String.valueOf(profileObject.getId()));
} else {
if (profileObject.getData().getData() == null
|| profileObject.getData().getData().length == 0) {
profileObject = digitalObjectManager.getCopyOfDataFilledDigitalObject(profileObject);
}
C3POProfileParser parser = new C3POProfileParser();
parser.read(new ByteArrayInputStream(profileObject.getData().getData()), false);
List<String> objectIdentifiers = parser.getObjectIdentifiers();
for (String objectIdentifier : objectIdentifiers) {
objects.addElement("object").addAttribute("uid", objectIdentifier);
}
}
}
} finally {
profileObject = null;
}
}
return collection;
}