private void deleteAssessment(
Request request,
Response response,
final String assessmentID,
final String assessmentType,
final String username) {
try {
AssessmentData assessment =
AssessmentIO.readAssessment(vfs, assessmentID, assessmentType, username);
boolean deleted = AssessmentIO.trashAssessment(vfs, assessment, username);
if (deleted) {
String log = "<assessment user=\"" + username;
log += "\" status=\"" + assessmentType.toLowerCase().replace("_status", "");
log +=
"\" date=\""
+ new Date().toString()
+ "\" node=\""
+ assessment.getSpeciesName()
+ "\">"
+ assessmentID
+ "</assessment>";
trashBuffer.addEvent(DocumentUtils.createDocumentFromString(log));
trashBuffer.flush();
// remove from recent
final Request req =
new Request(
Method.DELETE,
"riap://host/recentAssessments/" + username + assessmentType + "/" + assessmentID);
Response resp = getContext().getClientDispatcher().handle(req);
if (!(resp.getStatus()).isSuccess()) {
System.out.println("Unable to delete assessment from recent.");
} else {
// node.removeAssessment(pubAssessments.get(i));
System.out.println("Assessment deleted from recent.");
}
response.setStatus(Status.SUCCESS_OK);
} else response.setStatus(Status.CLIENT_ERROR_LOCKED);
} catch (Exception e) {
SysDebugger.getInstance().println("Could not find assessment " + assessmentID);
e.printStackTrace();
response.setStatus(Status.CLIENT_ERROR_NOT_FOUND);
}
}
private AssessmentData doCreateAssessmentForBatch(
String user, AssessmentFilter filter, boolean useTemplate, TaxonNode taxon) {
AssessmentFilter draftFilter = filter.deepCopy();
draftFilter.setDraft(false);
draftFilter.setRecentPublished(true);
draftFilter.setAllPublished(false);
AssessmentFilterHelper helper = new AssessmentFilterHelper(draftFilter);
AssessmentData curAss = null;
if (useTemplate) {
List<AssessmentData> assessments = helper.getAssessments(taxon.getId() + "", vfs);
if (assessments.size() == 0) {
draftFilter.getRegions().clear();
draftFilter.getRegions().add(AssessmentData.GLOBAL_ID);
assessments = helper.getAssessments(taxon.getId() + "", vfs);
}
if (assessments.size() == 0) {
System.out.println("No template exists for species " + taxon.getFullName());
curAss = new AssessmentData(); // No template exists...
} else {
curAss = assessments.get(0).deepCopy();
}
} else curAss = new AssessmentData();
curAss.setRegionIDs(filter.getRegions());
if (!filter.getRegions().contains("-1")) curAss.setEndemic(false);
curAss.setType(AssessmentData.DRAFT_ASSESSMENT_STATUS);
curAss.setAssessmentID("new");
curAss.setSpeciesID(taxon.getId() + "");
curAss.setSpeciesName(taxon.getFullName());
return curAss;
}
private void deleteAssessmentsForTaxon(
String taxonID, String type, String user, Request request, Response response) {
List<AssessmentData> assessments = AssessmentIO.readAllAssessmentsForTaxon(vfs, taxonID, user);
for (AssessmentData cur : assessments) {
deleteAssessment(request, response, cur.getAssessmentID(), cur.getType(), user);
// If it's locked, force the release and delete again. Taxomatic operations are almighty.
if (response.getStatus() == Status.CLIENT_ERROR_LOCKED) {
Lock lock =
FileLocker.impl.getAssessmentPersistentLock(cur.getAssessmentID(), cur.getType());
FileLocker.impl.persistentEagerRelease(
cur.getAssessmentID(), cur.getType(), lock.getUsername());
deleteAssessment(request, response, cur.getAssessmentID(), cur.getType(), user);
}
}
}
/**
* @param assessment
* @param username
* @param speciesID
* @param displayName
* @return
*/
private AssessmentIOWriteResult assignIDAndSave(AssessmentData assessment, String username)
throws RegionConflictException {
if (assessment.getAssessmentID().equals("new")) {
if (assessment.getType().equals(BaseAssessment.DRAFT_ASSESSMENT_STATUS))
assessment.setAssessmentID(getNextDraftID(vfs, assessment.getSpeciesID()));
else if (assessment.getType().equals(BaseAssessment.PUBLISHED_ASSESSMENT_STATUS))
assessment.setAssessmentID(pubIDFactory.getNextIDAsString());
else // TODO: Figure out if we're going to need multiple user assessments per species.
assessment.setAssessmentID(assessment.getSpeciesID());
}
return saveAssessment(assessment, username);
}
private void putAssessment(Request request, Response response, String username) {
try {
NativeDocument doc = NativeDocumentFactory.newNativeDocument();
doc.parse(request.getEntity().getText());
AssessmentParser parser = new AssessmentParser(doc);
AssessmentData assessment = parser.getAssessment();
AssessmentIOWriteResult result = assignIDAndSave(assessment, username);
if (result.status.isSuccess()) {
response.setEntity(assessment.getAssessmentID(), MediaType.TEXT_PLAIN);
response.setStatus(Status.SUCCESS_OK);
} else {
response.setStatus(Status.CLIENT_ERROR_EXPECTATION_FAILED);
}
} catch (RegionConflictException e) {
response.setStatus(Status.CLIENT_ERROR_CONFLICT);
} catch (Exception e) {
response.setStatus(Status.SERVER_ERROR_INTERNAL);
}
}
private AssessmentIOWriteResult saveAssessment(AssessmentData assessment, String username)
throws RegionConflictException {
if (assessment.getType().equals(BaseAssessment.DRAFT_ASSESSMENT_STATUS)) {
List<AssessmentData> compareTo =
AssessmentIO.readAllDraftAssessments(vfs, assessment.getSpeciesID());
for (AssessmentData cur : compareTo) {
if (cur.getRegionIDs().containsAll(assessment.getRegionIDs())
|| cur.isGlobal() && assessment.isGlobal()) {
if (!cur.getAssessmentID().equals(assessment.getAssessmentID()))
throw new RegionConflictException();
}
}
}
return AssessmentIO.writeAssessment(assessment, username, vfs, true);
}
private void postAssessment(Request request, Response response, String username) {
try {
String entity = request.getEntity().getText();
NativeDocument doc = NativeDocumentFactory.newNativeDocument();
doc.parse(entity);
AssessmentParser parser = new AssessmentParser(doc);
AssessmentData assessment = parser.getAssessment();
VFSPath assessmentUrl = new VFSPath(ServerPaths.getPathForAssessment(assessment, username));
if (vfs.exists(assessmentUrl)) {
Status status =
FileLocker.impl.persistentLockAssessment(
assessment.getAssessmentID(),
BaseAssessment.DRAFT_ASSESSMENT_STATUS,
LockType.SAVE_LOCK,
username);
if (status.isSuccess()) {
AssessmentIOWriteResult result = saveAssessment(assessment, username);
if (result.status.isSuccess()) {
response.setEntity(result.newLastModified + "", MediaType.TEXT_PLAIN);
response.setStatus(status);
} else {
response.setStatus(Status.CLIENT_ERROR_EXPECTATION_FAILED);
}
} else {
response.setStatus(status);
}
}
} catch (RegionConflictException e) {
response.setStatus(Status.CLIENT_ERROR_CONFLICT);
} catch (Exception e) {
e.printStackTrace();
response.setStatus(Status.CLIENT_ERROR_BAD_REQUEST);
}
}
public static void processAssessment(AssessmentData currentAssessment) {
FuzzyExpImpl expert = new FuzzyExpImpl();
ExpertResult expertResult = expert.doAnalysis(currentAssessment);
currentAssessment.setCategoryCriteria(expertResult.getCriteriaString());
currentAssessment.setCrCriteria(expertResult.getCriteriaStringCR());
currentAssessment.setEnCriteria(expertResult.getCriteriaStringEN());
currentAssessment.setVuCriteria(expertResult.getCriteriaStringVU());
if (expertResult.getResult() != null) {
currentAssessment.setCategoryFuzzyResult(
expertResult.getLeft() + "," + expertResult.getBest() + "," + expertResult.getRight());
currentAssessment.setCategoryAbbreviation(expertResult.getAbbreviatedCategory());
if (currentAssessment.isRegional()
&& currentAssessment.getDataMap().containsKey(CanonicalNames.RegionExpertQuestions)) {
ArrayList<String> regionalExpString =
(ArrayList<String>)
currentAssessment.getDataMap().get(CanonicalNames.RegionExpertQuestions);
String[] regionalExpData = regionalExpString.get(0).split(",");
if (regionalExpData.length > 2) {
String upDown = regionalExpData[0];
String amount = regionalExpData[1];
String category = currentAssessment.getCategoryAbbreviation();
if (upDown.equals(RegionalExpertQuestions.UPGRADE)) {
int amountUp = Integer.valueOf(amount);
category = slideCategory(amountUp, category);
} else if (upDown.equals(RegionalExpertQuestions.DOWNGRADE)) {
int amountDown = Integer.valueOf(amount);
category = slideCategory(-1 * amountDown, category);
}
currentAssessment.setCategoryAbbreviation(category);
}
} else {
System.out.println("Couldn't find regional expert question data.");
}
} else {
currentAssessment.setCategoryFuzzyResult("-1,-1,-1");
currentAssessment.setCategoryAbbreviation("DD");
}
}
private String batchCreate(Request request, String username) {
NativeDocument doc = NativeDocumentFactory.newNativeDocument();
StringBuffer successfulIDs = new StringBuffer();
StringBuffer extantIDs = new StringBuffer();
StringBuffer unsuccessfulIDs = new StringBuffer();
try {
String text = request.getEntity().getText();
doc.parse(text);
AssessmentFilter filter =
AssessmentFilter.parseXML(
doc.getDocumentElement()
.getElementsByTagName(AssessmentFilter.HEAD_TAG)
.elementAt(0));
NativeNodeList nodes = doc.getDocumentElement().getElementsByTagName("taxon");
boolean useTemplate =
Boolean.parseBoolean(
doc.getDocumentElement()
.getElementsByTagName("useTemplate")
.elementAt(0)
.getTextContent());
System.out.println("Using template? " + useTemplate);
for (int i = 0; i < nodes.getLength(); i++) {
TaxonNode taxon = TaxaIO.readNode(nodes.elementAt(i).getTextContent(), vfs);
AssessmentData curAss = null;
curAss =
doCreateAssessmentForBatch(
request.getChallengeResponse().getIdentifier(), filter, useTemplate, taxon);
try {
AssessmentIOWriteResult result = assignIDAndSave(curAss, username);
if (result.status.isSuccess())
successfulIDs.append(
curAss.getSpeciesName() + (i == nodes.getLength() - 1 ? "" : ", "));
else
unsuccessfulIDs.append(
curAss.getSpeciesName() + (i == nodes.getLength() - 1 ? "" : ", "));
} catch (RegionConflictException e) {
extantIDs.append(curAss.getSpeciesName() + (i == nodes.getLength() - 1 ? "" : ", "));
}
}
StringBuilder ret = new StringBuilder();
if (unsuccessfulIDs.length() > 0)
ret.append(
"<div>Unable to create an assessment for the following species: "
+ unsuccessfulIDs
+ "</div>\r\n");
if (extantIDs.length() > 0)
ret.append(
"<div>The following species already have draft assessments with the specific locality: "
+ extantIDs
+ "</div>\r\n");
if (successfulIDs.length() > 0)
ret.append(
"<div>Successfully created an assessment for the following species: "
+ successfulIDs
+ "</div>\r\n");
return ret.toString();
} catch (IOException e) {
e.printStackTrace();
return null;
} catch (NullPointerException e) {
e.printStackTrace();
return null;
} catch (Exception e) {
e.printStackTrace();
return null;
}
}
