public void parse(NativeElement rootTag) {
NativeNodeList orgs = rootTag.getElementsByTagName("organization");
for (int i = 0; i < orgs.getLength(); i++) {
NativeElement curTag = orgs.elementAt(i);
Organization organization =
new Organization(
curTag.getAttribute("title"), curTag.getAttribute("shortTitle"), curTag, true);
organizations.add(organization);
}
}
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;
}
}