@Test
public void testSpeciesAttributeValueByName() throws Exception {
login("admin", "password", new String[] {Role.ADMIN});
request.setMethod("POST");
request.setRequestURI(request.getContextPath() + TrackerController.EDIT_URL);
request.setParameter(BdrsWebConstants.PARAM_SURVEY_ID, survey.getId().toString());
request.setParameter(
WebFormAttributeParser.getParamKey("", attr), this.dropBear.getScientificName());
ModelAndView mav = handle(request, response);
Map<String, String> errorMap =
(Map<String, String>) mav.getModel().get(TrackerController.MV_ERROR_MAP);
Assert.assertNull("error map should be null", errorMap);
Integer recId = (Integer) mav.getModel().get(RecordWebFormContext.MODEL_RECORD_ID);
Assert.assertNotNull("rec id should not be null", recId);
Record record = recordDAO.getRecord(recId);
Assert.assertNotNull("record should not be null", record);
Assert.assertEquals("wrong attribute value count", 1, record.getAttributes().size());
AttributeValue av = (AttributeValue) record.getAttributes().toArray()[0];
Assert.assertNotNull("species should not be null", av.getSpecies());
Assert.assertEquals("wrong species id", av.getSpecies().getId(), this.dropBear.getId());
}
public static void writeRecordsToKML(
String contextPath,
String placemarkColorHex,
List<Record> recordList,
OutputStream outputStream)
throws JAXBException {
JsonService jsonService = AppContext.getBean(JsonService.class);
KMLWriter writer = new KMLWriter();
String placemark = contextPath + GET_RECORD_PLACEMARK_PNG_URL + "?color=";
placemarkColorHex = placemarkColorHex == null ? "EE9900" : placemarkColorHex;
placemark = placemark + placemarkColorHex;
writer.createStyleIcon(KML_POINT_ICON_ID, placemark, 16, 16);
writer.createFolder(KML_RECORD_FOLDER);
String label;
String description;
for (Record record : recordList) {
label = String.format("Record #%d", record.getId());
description = jsonService.toJson(record).toString();
if (record.getPoint() != null) {
writer.createPlacemark(
KML_RECORD_FOLDER, label, description, record.getPoint(), KML_POINT_ICON_ID);
} else if (record.getLocation() != null && record.getLocation().getLocation() != null) {
writer.createPlacemark(
KML_RECORD_FOLDER,
label,
description,
record.getLocation().getLocation(),
KML_POINT_ICON_ID);
} else {
log.info("Cannot find coordinate for record");
}
}
writer.write(false, outputStream);
}
public void testSaveRecord(String intWithRangeValue) throws Exception {
login("admin", "password", new String[] {Role.ADMIN});
request.setMethod("POST");
request.setRequestURI("/bdrs/user/singleSiteMultiTaxa.htm");
DateFormat dateFormat = new SimpleDateFormat("dd MMM yyyy");
dateFormat.setLenient(false);
GregorianCalendar cal = new GregorianCalendar();
cal.set(2010, 10, 12, 15, 30);
cal.set(Calendar.SECOND, 0);
cal.set(Calendar.MILLISECOND, 0);
Date sightingDate = cal.getTime();
Map<String, String> params = new HashMap<String, String>();
params.put("surveyId", survey.getId().toString());
params.put("latitude", "-36.879620605027");
params.put("longitude", "126.650390625");
params.put("date", dateFormat.format(sightingDate));
params.put("time_hour", new Integer(cal.get(Calendar.HOUR_OF_DAY)).toString());
params.put("time_minute", new Integer(cal.get(Calendar.MINUTE)).toString());
params.put("notes", "This is a test record");
params.put("sightingIndex", "2");
Map<Attribute, Object> surveyScopeAttributeValueMapping = new HashMap<Attribute, Object>();
Map<IndicatorSpecies, Map<Attribute, Object>> recordScopeAttributeValueMapping =
new HashMap<IndicatorSpecies, Map<Attribute, Object>>(2);
Map<Attribute, Object> attributeValueMapping;
// We have 2 species set up so lets save them both
int sightingIndex = 0;
String surveyPrefix = "";
for (IndicatorSpecies taxon : new IndicatorSpecies[] {speciesA, speciesB}) {
params.put(
String.format("%d_survey_species_search", sightingIndex), taxon.getScientificName());
params.put(String.format("%d_species", sightingIndex), taxon.getId().toString());
params.put(
String.format("%d_number", sightingIndex), new Integer(sightingIndex + 21).toString());
String recordPrefix = String.format("%d_", sightingIndex);
String prefix;
String key;
String value; // The value in the post dict
attributeValueMapping = new HashMap<Attribute, Object>();
Map<Attribute, Object> valueMap;
recordScopeAttributeValueMapping.put(taxon, attributeValueMapping);
for (Attribute attr : survey.getAttributes()) {
if (AttributeScope.SURVEY.equals(attr.getScope())) {
prefix = surveyPrefix;
valueMap = surveyScopeAttributeValueMapping;
} else {
prefix = recordPrefix;
valueMap = attributeValueMapping;
}
key = String.format(AttributeParser.ATTRIBUTE_NAME_TEMPLATE, prefix, attr.getId());
value = "";
switch (attr.getType()) {
case INTEGER:
Integer val = new Integer(sightingIndex + 30);
value = val.toString();
valueMap.put(attr, val);
break;
case INTEGER_WITH_RANGE:
valueMap.put(attr, intWithRangeValue);
break;
case DECIMAL:
value = String.format("50.%d", sightingIndex);
valueMap.put(attr, Double.parseDouble(value));
break;
case DATE:
Date date = new Date(System.currentTimeMillis());
value = dateFormat.format(date);
// Reparsing the date strips out the hours, minutes and seconds
valueMap.put(attr, dateFormat.parse(value));
break;
case STRING_AUTOCOMPLETE:
case STRING:
value = String.format("String %d", sightingIndex);
valueMap.put(attr, value);
break;
case TEXT:
value = String.format("Text %d", sightingIndex);
valueMap.put(attr, value);
break;
case STRING_WITH_VALID_VALUES:
value = attr.getOptions().get(sightingIndex).getValue();
valueMap.put(attr, value);
break;
case FILE:
String file_filename = String.format("attribute_%d", attr.getId());
MockMultipartFile mockFileFile =
new MockMultipartFile(key, file_filename, "audio/mpeg", file_filename.getBytes());
((MockMultipartHttpServletRequest) request).addFile(mockFileFile);
valueMap.put(attr, mockFileFile);
break;
case IMAGE:
String image_filename = String.format("attribute_%d", attr.getId());
MockMultipartFile mockImageFile =
new MockMultipartFile(key, image_filename, "image/png", image_filename.getBytes());
((MockMultipartHttpServletRequest) request).addFile(mockImageFile);
valueMap.put(attr, mockImageFile);
break;
default:
Assert.assertTrue("Unknown Attribute Type: " + attr.getType().toString(), false);
break;
}
params.put(key, value);
}
sightingIndex += 1;
}
request.setParameters(params);
ModelAndView mv = handle(request, response);
Assert.assertEquals(2, recordDAO.countAllRecords().intValue());
Assert.assertTrue(mv.getView() instanceof RedirectView);
RedirectView redirect = (RedirectView) mv.getView();
Assert.assertEquals(redirectionService.getMySightingsUrl(survey), redirect.getUrl());
sightingIndex = 0;
for (IndicatorSpecies taxon : new IndicatorSpecies[] {speciesA, speciesB}) {
List<Record> records = recordDAO.getRecords(taxon);
Assert.assertEquals(1, records.size());
Record record = records.get(0);
Assert.assertEquals(survey.getId(), record.getSurvey().getId());
// Coordinates are truncates to 6 decimal points
Assert.assertEquals(
new Double(params.get("latitude")).doubleValue(),
record.getPoint().getY(),
Math.pow(10, -6));
Assert.assertEquals(
new Double(params.get("longitude")).doubleValue(),
record.getPoint().getX(),
Math.pow(10, -6));
Assert.assertEquals(sightingDate, record.getWhen());
Assert.assertEquals(sightingDate.getTime(), record.getTime().longValue());
Assert.assertEquals(params.get("notes"), record.getNotes());
Assert.assertEquals(taxon, record.getSpecies());
Assert.assertEquals(sightingIndex + 21, record.getNumber().intValue());
Map<Attribute, Object> attributeValueMap = recordScopeAttributeValueMapping.get(taxon);
Object expected;
for (TypedAttributeValue recAttr : record.getAttributes()) {
if (AttributeScope.SURVEY.equals(recAttr.getAttribute().getScope())) {
expected = surveyScopeAttributeValueMapping.get(recAttr.getAttribute());
} else {
expected = attributeValueMap.get(recAttr.getAttribute());
}
switch (recAttr.getAttribute().getType()) {
case INTEGER:
case INTEGER_WITH_RANGE:
Assert.assertEquals(expected, recAttr.getNumericValue().intValue());
break;
case DECIMAL:
Assert.assertEquals(expected, recAttr.getNumericValue().doubleValue());
break;
case DATE:
Assert.assertEquals(expected, recAttr.getDateValue());
break;
case STRING_AUTOCOMPLETE:
case STRING:
case TEXT:
Assert.assertEquals(expected, recAttr.getStringValue());
break;
case STRING_WITH_VALID_VALUES:
Assert.assertEquals(expected, recAttr.getStringValue());
break;
case FILE:
case IMAGE:
String filename = ((MockMultipartFile) expected).getOriginalFilename();
Assert.assertEquals(filename, recAttr.getStringValue());
break;
default:
Assert.assertTrue(
"Unknown Attribute Type: " + recAttr.getAttribute().getType().toString(), false);
break;
}
}
sightingIndex += 1;
}
// Test Save and Add Another
request.setParameter("submitAndAddAnother", "submitAndAddAnother");
mv = handle(request, response);
Assert.assertEquals(4, recordDAO.countAllRecords().intValue());
Assert.assertTrue(mv.getView() instanceof RedirectView);
redirect = (RedirectView) mv.getView();
Assert.assertEquals("/bdrs/user/surveyRenderRedirect.htm", redirect.getUrl());
}
@RolesAllowed({Role.USER, Role.POWERUSER, Role.SUPERVISOR, Role.ADMIN})
@RequestMapping(value = "/bdrs/user/atlas.htm", method = RequestMethod.GET)
public ModelAndView addRecord(
HttpServletRequest request,
HttpServletResponse response,
@RequestParam(value = "surveyId", required = true) int surveyId,
@RequestParam(value = "taxonSearch", required = false) String taxonSearch,
@RequestParam(value = "recordId", required = false, defaultValue = "0") int recordId,
@RequestParam(value = "guid", required = false) String guid) {
Survey survey = surveyDAO.getSurvey(surveyId);
Record record = recordDAO.getRecord(recordId);
record = record == null ? new Record() : record;
IndicatorSpecies species = null;
if (guid != null && !guid.isEmpty()) {
species = taxaDAO.getIndicatorSpeciesByGuid(guid);
}
if (species == null && taxonSearch != null && !taxonSearch.isEmpty()) {
List<IndicatorSpecies> speciesList =
surveyDAO.getSpeciesForSurveySearch(surveyId, taxonSearch);
if (speciesList.isEmpty()) {
species = null;
} else if (speciesList.size() == 1) {
species = speciesList.get(0);
} else {
log.warn(
"Multiple species found for survey "
+ surveyId
+ " and taxon search \""
+ taxonSearch
+ "\". Using the first.");
species = speciesList.get(0);
}
}
if (species == null && record.getSpecies() != null) {
species = record.getSpecies();
}
ModelAndView mv;
if (species == null) {
InputStreamReader reader = null;
try {
Preference p = preferenceDAO.getPreferenceByKey("ala.species.short.url");
URL url;
if (p != null) {
url = new URL(p.getValue() + "/" + guid + ".json");
} else {
url =
new URL(
"http://bie.ala.org.au/species/shortProfile/"
+ guid
+ ".json"); // fallback to the BIE
}
URLConnection conn = url.openConnection();
reader = new InputStreamReader(conn.getInputStream());
StringBuffer buff = new StringBuffer();
int c;
while ((c = reader.read()) != -1) {
buff.append((char) c);
}
JSONObject ob = JSONObject.fromObject(buff.toString());
IndicatorSpecies taxon = new IndicatorSpecies();
log.debug("Found species information from the atlas : ");
log.debug(buff.toString());
// Scientific Name
taxon.setScientificName(ob.getString("scientificName"));
taxon.setAuthor(ob.getString("author"));
taxon.setScientificNameAndAuthor(
ob.getString("scientificName") + " " + ob.getString("scientificNameAuthorship"));
taxon.setYear(ob.getString("year"));
Metadata md = new Metadata();
md.setKey(Metadata.SCIENTIFIC_NAME_SOURCE_DATA_ID);
md.setValue(guid);
metadataDAO.save(md);
taxon.getMetadata().add(md);
// Rank
TaxonRank rank = TaxonRank.findByIdentifier(ob.getString("rank"));
taxon.setTaxonRank(rank);
// Common Name
taxon.setCommonName(ob.getString("commonName"));
md = new Metadata();
md.setKey(Metadata.COMMON_NAME_SOURCE_DATA_ID);
md.setValue(ob.getString("commonNameGUID"));
metadataDAO.save(md);
taxon.getMetadata().add(md);
// Group
String family = ob.getString("family");
if (family != null) {
TaxonGroup g = taxaDAO.getTaxonGroup(family);
if (g == null) {
g = taxaDAO.createTaxonGroup(family, false, false, false, false, false, true);
}
taxon.setTaxonGroup(g);
} else {
TaxonGroup g = taxaDAO.createTaxonGroup("Other", false, false, false, false, false, true);
taxon.setTaxonGroup(g);
}
// Images.
// Thumbnail
if (ob.containsKey("thumbnail")) {
SpeciesProfile sp = new SpeciesProfile();
sp.setType(
SpeciesProfile
.SPECIES_PROFILE_THUMBNAIL); // this is a 100x100 image, might resize for the
// other ones.
sp.setHeader("Thumbnail");
sp.setDescription("Thumbnail for " + taxon.getScientificName());
String filename = ob.getString("thumbnail");
String ext = getExtension(filename);
ManagedFile mf = new ManagedFile();
mf.setContentType("");
mf.setCredit("");
mf.setLicense("");
mf.setDescription(taxon.getScientificName() + " - " + taxon.getCommonName());
mf.setFilename(mf.getUuid() + ext);
mf = managedFileDAO.save(mf);
fileService.createFile(
mf.getClass(), mf.getId(), mf.getFilename(), downloadFile(new URL(filename)));
mf.setContentType(fileService.getFile(mf, mf.getFilename()).getContentType());
managedFileDAO.save(mf);
sp.setContent(mf.getUuid());
speciesProfileDAO.save(sp);
taxon.getInfoItems().add(sp);
// Now thumbnail the thumbnail...
BufferedImage fortyXforty =
imageService.resizeImage(
fileService.getFile(mf, mf.getFilename()).getInputStream(), 40, 40);
ByteArrayOutputStream baos = new ByteArrayOutputStream();
ImageIO.write(fortyXforty, "png", baos);
baos.flush();
byte[] data = baos.toByteArray();
baos.close();
sp = new SpeciesProfile();
sp.setType(
SpeciesProfile
.SPECIES_PROFILE_IMAGE_40x40); // this is a 100x100 image, might resize for the
// other ones.
sp.setHeader("40x40 Thumbnail");
sp.setDescription("40x40 Thumbnail for " + taxon.getScientificName());
mf = new ManagedFile();
mf.setContentType("");
mf.setCredit("");
mf.setLicense("");
mf.setDescription(taxon.getScientificName() + " - " + taxon.getCommonName());
mf.setFilename(mf.getUuid() + ".png");
mf = managedFileDAO.save(mf);
fileService.createFile(mf.getClass(), mf.getId(), mf.getFilename(), data);
mf.setContentType(fileService.getFile(mf, mf.getFilename()).getContentType());
managedFileDAO.save(mf);
sp.setContent(mf.getUuid());
speciesProfileDAO.save(sp);
taxon.getInfoItems().add(sp);
}
// Main Image
if (ob.containsKey("imageURL")) {
SpeciesProfile sp = new SpeciesProfile();
sp.setType(SpeciesProfile.SPECIES_PROFILE_IMAGE);
sp.setHeader("Image");
sp.setDescription("Image for " + taxon.getScientificName());
String filename = ob.getString("imageURL");
String ext = getExtension(filename);
ManagedFile mf = new ManagedFile();
mf.setContentType("");
mf.setCredit("");
mf.setLicense("");
mf.setDescription(taxon.getScientificName() + " - " + taxon.getCommonName());
mf.setFilename(mf.getUuid() + ext);
mf = managedFileDAO.save(mf);
fileService.createFile(
mf.getClass(), mf.getId(), mf.getFilename(), downloadFile(new URL(filename)));
mf.setContentType(fileService.getFile(mf, mf.getFilename()).getContentType());
managedFileDAO.save(mf);
sp.setContent(mf.getUuid());
speciesProfileDAO.save(sp);
taxon.getInfoItems().add(sp);
}
// Save the Taxon
species = taxaDAO.save(taxon);
} catch (IOException ioe) {
log.error("Could not retrieve species profile from the Atlas", ioe);
species = null;
} finally {
if (reader != null) {
try {
reader.close();
} catch (IOException ioe) {
log.error("Error closing stream from Atlas webservice, possible network error", ioe);
}
}
}
}
if (species == null) {
log.debug("Could not determine species, reverting to tracker form");
// The atlas form relies upon a preconfigured species.
// If we do not have one, fall back to the tracker form.
mv = new ModelAndView(new RedirectView("tracker.htm"));
mv.addAllObjects(request.getParameterMap());
mv.addObject("surveyId", surveyId);
return mv;
} else {
// Add all attribute form fields
Map<String, FormField> formFieldMap = new HashMap<String, FormField>();
// Add all property form fields
for (String propertyName : RECORD_PROPERTY_NAMES) {
formFieldMap.put(
propertyName,
formFieldFactory.createRecordFormField(
survey, record, propertyName, species, Taxonomic.TAXONOMIC));
}
// Determine the file attribute to use for the form (if there is one)
// Sort the list of survey attributes by weight so that we can
// correctly select the first file attribute.
List<Attribute> attributeList = survey.getAttributes();
Collections.sort(attributeList, new ComparePersistentImplByWeight());
// Retrieve the first file attribute and if present, the associated
// record attribute.
Attribute fileAttr = null;
AttributeValue fileRecAttr = null;
for (Attribute attr : attributeList) {
if (fileAttr == null && AttributeType.FILE.equals(attr.getType())) {
// Attribute found.
fileAttr = attr;
// Try to locate matching record attribute
for (AttributeValue recAttr : record.getAttributes()) {
if (fileRecAttr == null && fileAttr.equals(recAttr.getAttribute())) {
fileRecAttr = recAttr;
}
}
}
}
// Map all the existing file attributes to record attributes.
Map<Attribute, AttributeValue> fileAttrToRecAttrMap =
new HashMap<Attribute, AttributeValue>();
FormField fileFormField =
formFieldFactory.createRecordFormField(survey, record, fileAttr, fileRecAttr);
Map<String, String> errorMap =
(Map<String, String>) getRequestContext().getSessionAttribute("errorMap");
getRequestContext().removeSessionAttribute("errorMap");
Map<String, String> valueMap =
(Map<String, String>) getRequestContext().getSessionAttribute("valueMap");
getRequestContext().removeSessionAttribute("valueMap");
Metadata predefinedLocationsMD = survey.getMetadataByKey(Metadata.PREDEFINED_LOCATIONS_ONLY);
boolean predefinedLocationsOnly =
predefinedLocationsMD != null && Boolean.parseBoolean(predefinedLocationsMD.getValue());
Set<Location> locations = new TreeSet<Location>(new LocationNameComparator());
locations.addAll(survey.getLocations());
if (!predefinedLocationsOnly) {
locations.addAll(locationDAO.getUserLocations(getRequestContext().getUser()));
}
Metadata defaultLocId =
getRequestContext().getUser().getMetadataObj(Metadata.DEFAULT_LOCATION_ID);
Location defaultLocation;
if (defaultLocId == null) {
defaultLocation = null;
} else {
int defaultLocPk = Integer.parseInt(defaultLocId.getValue());
defaultLocation = locationDAO.getLocation(defaultLocPk);
}
mv = new ModelAndView("atlas");
mv.addObject("record", record);
mv.addObject("taxon", species);
mv.addObject("survey", survey);
mv.addObject("locations", locations);
mv.addObject("formFieldMap", formFieldMap);
mv.addObject("fileFormField", fileFormField);
mv.addObject("preview", request.getParameter("preview") != null);
mv.addObject("defaultLocation", defaultLocation);
mv.addObject("errorMap", errorMap);
mv.addObject("valueMap", valueMap);
}
return mv;
}