Java tutorial
/* * The Shepherd Project - A Mark-Recapture Framework * Copyright (C) 2011 Jason Holmberg * * This program is free software; you can redistribute it and/or * modify it under the terms of the GNU General Public License * as published by the Free Software Foundation; either version 2 * of the License, or (at your option) any later version. * * This program is distributed in the hope that it will be useful, * but WITHOUT ANY WARRANTY; without even the implied warranty of * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * GNU General Public License for more details. * * You should have received a copy of the GNU General Public License * along with this program; if not, write to the Free Software * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA. */ package org.ecocean.servlet; ////// //import java.io.*; import java.io.IOException; import java.io.PrintWriter; import java.text.SimpleDateFormat; import java.util.ArrayList; import java.util.Arrays; import java.util.Enumeration; import java.util.HashMap; import java.util.List; import java.util.Properties; import java.util.StringTokenizer; import java.io.File; import java.nio.file.Path; import java.nio.file.Files; import java.nio.file.StandardCopyOption; import javax.servlet.ServletConfig; import javax.servlet.ServletException; import javax.servlet.http.HttpServlet; import javax.servlet.http.HttpServletRequest; import javax.servlet.http.HttpServletResponse; import javax.servlet.http.HttpSession; import org.apache.commons.fileupload.FileItem; import org.apache.commons.fileupload.disk.DiskFileItemFactory; import org.apache.commons.fileupload.servlet.ServletFileUpload; import org.ecocean.CommonConfiguration; import org.ecocean.Util; import org.ecocean.Encounter; import org.ecocean.Measurement; import org.ecocean.Shepherd; import org.ecocean.media.*; import org.ecocean.ShepherdProperties; import org.ecocean.SinglePhotoVideo; import org.ecocean.tag.AcousticTag; import org.ecocean.tag.MetalTag; import org.ecocean.tag.SatelliteTag; import org.joda.time.LocalDateTime; import org.joda.time.format.DateTimeFormatter; import org.joda.time.format.ISODateTimeFormat; import org.slf4j.Logger; import org.slf4j.LoggerFactory; import org.json.JSONObject; //import java.lang.*; //import java.util.List; /* import org.ecocean.CommonConfiguration; import org.ecocean.Encounter; import org.ecocean.Shepherd; import org.ecocean.SinglePhotoVideo; import org.ecocean.User; */ import org.apache.shiro.web.util.WebUtils; //import org.ecocean.*; import org.ecocean.security.SocialAuth; import org.ecocean.Annotation; import org.ecocean.CommonConfiguration; import org.ecocean.Shepherd; import org.ecocean.User; import org.pac4j.core.context.J2EContext; import org.pac4j.core.context.WebContext; import org.pac4j.oauth.client.FacebookClient; //import org.pac4j.oauth.client.YahooClient; import org.pac4j.oauth.credentials.OAuthCredentials; import org.pac4j.oauth.profile.facebook.FacebookProfile; /** * Uploads a new image to the file system and associates the image with an Encounter record * * @author jholmber */ public class EncounterForm extends HttpServlet { @Override public void init(ServletConfig config) throws ServletException { super.init(config); } @Override public void doGet(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException { doPost(request, response); } private final String UPLOAD_DIRECTORY = "/tmp"; //little helper function for pulling values as strings even if null (not set via form) private String getVal(HashMap fv, String key) { if (fv.get(key) == null) { return ""; } return fv.get(key).toString(); } private SatelliteTag getSatelliteTag(HashMap fv) { String argosPttNumber = getVal(fv, "satelliteTagArgosPttNumber"); String satelliteTagName = getVal(fv, "satelliteTagName"); String tagSerial = getVal(fv, "satelliteTagSerial"); if (argosPttNumber.length() > 0 || tagSerial.length() > 0) { return new SatelliteTag(satelliteTagName, tagSerial, argosPttNumber); } return null; } private AcousticTag getAcousticTag(HashMap fv) { String acousticTagId = getVal(fv, "acousticTagId"); String acousticTagSerial = getVal(fv, "acousticTagSerial"); if (acousticTagId.length() > 0 || acousticTagSerial.length() > 0) { return new AcousticTag(acousticTagSerial, acousticTagId); } return null; } private List<MetalTag> getMetalTags(HashMap fv) { List<MetalTag> list = new ArrayList<MetalTag>(); List<String> keys = Arrays.asList("left", "right"); //TODO programatically build from form for (String key : keys) { // The keys are the location String value = getVal(fv, "metalTag(" + key + ")"); if (value.length() > 0) { list.add(new MetalTag(value, key)); } } return list; } private List<Measurement> getMeasurements(HashMap fv, String encID, String context) { List<Measurement> list = new ArrayList<Measurement>(); //List<String> keys = Arrays.asList("weight", "length", "height"); //TODO programatically build from form //dynamically adapt to project-specific measurements List<String> keys = CommonConfiguration.getIndexedPropertyValues("measurement", context); for (String key : keys) { String value = getVal(fv, "measurement(" + key + ")"); String units = getVal(fv, "measurement(" + key + "units)"); String samplingProtocol = getVal(fv, "measurement(" + key + "samplingProtocol)"); if (value.length() > 0) { try { Double doubleVal = Double.valueOf(value); list.add(new Measurement(encID, key, doubleVal, units, samplingProtocol)); } catch (Exception ex) { //TODO was reporting via comments, but now how to handle? } } } return list; } /* got regular field (measurement(weight))=(111) got regular field (measurement(weightunits))=(kilograms) got regular field (measurement(weightsamplingProtocol))=(samplingProtocol1) got regular field (measurement(length))=(222) got regular field (measurement(lengthunits))=(meters) got regular field (measurement(lengthsamplingProtocol))=(samplingProtocol0) got regular field (measurement(height))=(333) got regular field (measurement(heightunits))=(meters) got regular field (measurement(heightsamplingProtocol))=(samplingProtocol0) Map<String, Object> measurements = theForm.getMeasurements(); for (String key : measurements.keySet()) { if (!key.endsWith("units") && !key.endsWith("samplingProtocol")) { String value = ((String) measurements.get(key)).trim(); if (value.length() > 0) { try { Double doubleVal = Double.valueOf(value); String units = (String) measurements.get(key + "units"); String samplingProtocol = (String) measurements.get(key + "samplingProtocol"); Measurement measurement = new Measurement(enc.getEncounterNumber(), key, doubleVal, units, samplingProtocol); enc.addMeasurement(measurement); } catch(Exception ex) { enc.addComments("<p>Reported measurement " + key + " was problematic: " + value + "</p>"); } } } } */ public static final String ERROR_PROPERTY_MAX_LENGTH_EXCEEDED = "The maximum upload length has been exceeded by the client."; @Override public void doPost(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException { request.setCharacterEncoding("UTF-8"); HashMap fv = new HashMap(); //IMPORTANT - processingNotes can be used to add notes on data handling (e.g., poorly formatted dates) that can be reconciled later by the reviewer //Example usage: processingNotes.append("<p>Error encountered processing this date submitted by user: "+getVal(fv, "datepicker")+"</p>"); StringBuffer processingNotes = new StringBuffer(); HttpSession session = request.getSession(true); String context = "context0"; context = ServletUtilities.getContext(request); Shepherd myShepherd = new Shepherd(context); myShepherd.setAction("EncounterForm.class"); System.out.println("in context " + context); //request.getSession()getServlet().getServletContext().getRealPath("/")); String rootDir = getServletContext().getRealPath("/"); System.out.println("rootDir=" + rootDir); /* Vector<String> fbImages = new Vector<String>(); int fbi = 0; while (request.getParameter("socialphoto_" + fbi) != null) { fbImages.add(request.getParameter("socialphoto_" + fbi)); fbi++; } System.out.println(fbImages); if (fbImages.size() > 0) { FacebookClient fbclient = null; try { fbclient = SocialAuth.getFacebookClient(context); } catch (Exception ex) { System.out.println("SocialAuth.getFacebookClient threw exception " + ex.toString()); } WebContext ctx = new J2EContext(request, response); //String callbackUrl = "http://localhost.wildme.org/a/SocialConnect?type=facebook"; String callbackUrl = "http://" + CommonConfiguration.getURLLocation(request) + "/XXXSocialConnect?type=facebook"; if (request.getParameter("disconnect") != null) callbackUrl += "&disconnect=1"; fbclient.setCallbackUrl(callbackUrl); OAuthCredentials credentials = null; try { credentials = fbclient.getCredentials(ctx); } catch (Exception ex) { System.out.println("caught exception on facebook credentials: " + ex.toString()); } if (credentials != null) { FacebookProfile facebookProfile = fbclient.getUserProfile(credentials, ctx); User fbuser = myShepherd.getUserBySocialId("facebook", facebookProfile.getId()); System.out.println("getId() = " + facebookProfile.getId() + " -> user = " + fbuser); if (fbuser != null) System.out.println("user = " + user.getUsername() + "; fbuser = " + fbuser.getUsername()); if ((fbuser != null) && (fbuser.getUsername().equals(user.getUsername())) && (request.getParameter("disconnect") != null)) { fbuser.unsetSocial("facebook"); //myShepherd.getPM().makePersistent(user); session.setAttribute("message", "disconnected from facebook"); response.sendRedirect("myAccount.jsp"); return; } else if (fbuser != null) { session.setAttribute("error", "looks like this account is already connected to an account"); response.sendRedirect("myAccount.jsp"); return; } else { //lets do this user.setSocial("facebook", facebookProfile.getId()); //myShepherd.getPM().makePersistent(user); session.setAttribute("message", "connected to facebook"); response.sendRedirect("myAccount.jsp"); return; } } else { System.out.println("*** trying redirect?"); try { fbclient.redirect(ctx, false, false); } catch (Exception ex) { System.out.println("caught exception on facebook processing: " + ex.toString()); } return; } } */ //private Map<String, Object> measurements = new HashMap<String, Object>(); //Map<String, Object> metalTags = new HashMap<String, Object>(); /* private String acousticTagSerial = ""; private String acousticTagId = ""; private String satelliteTagSerial = ""; private String satelliteTagArgosPttNumber = ""; private String satelliteTagName = ""; */ //set up for response response.setContentType("text/html"); PrintWriter out = response.getWriter(); boolean locked = false; String fileName = "None"; String username = "None"; String fullPathFilename = ""; boolean fileSuccess = false; //kinda pointless now as we just build sentFiles list now at this point (do file work at end) String doneMessage = ""; List<String> filesOK = new ArrayList<String>(); HashMap<String, String> filesBad = new HashMap<String, String>(); List<FileItem> formFiles = new ArrayList<FileItem>(); List<File> socialFiles = new ArrayList<File>(); //Calendar date = Calendar.getInstance(); long maxSizeMB = CommonConfiguration.getMaxMediaSizeInMegabytes(context); long maxSizeBytes = maxSizeMB * 1048576; if (ServletFileUpload.isMultipartContent(request)) { try { ServletFileUpload upload = new ServletFileUpload(new DiskFileItemFactory()); upload.setHeaderEncoding("UTF-8"); List<FileItem> multiparts = upload.parseRequest(request); //List<FileItem> multiparts = new ServletFileUpload(new DiskFileItemFactory()).parseRequest(request); for (FileItem item : multiparts) { if (item.isFormField()) { //plain field fv.put(item.getFieldName(), ServletUtilities.preventCrossSiteScriptingAttacks(item.getString("UTF-8").trim())); //TODO do we want trim() here??? -jon //System.out.println("got regular field (" + item.getFieldName() + ")=(" + item.getString("UTF-8") + ")"); } else if (item.getName().startsWith("socialphoto_")) { System.out.println(item.getName() + ": " + item.getString("UTF-8")); } else { //file //System.out.println("content type???? " + item.getContentType()); TODO note, the helpers only check extension if (item.getSize() > maxSizeBytes) { filesBad.put(item.getName(), "file is larger than " + maxSizeMB + "MB"); } else if (myShepherd.isAcceptableImageFile(item.getName()) || myShepherd.isAcceptableVideoFile(item.getName())) { formFiles.add(item); filesOK.add(item.getName()); } else { filesBad.put(item.getName(), "invalid type of file"); } } } doneMessage = "File Uploaded Successfully"; fileSuccess = true; } catch (Exception ex) { doneMessage = "File Upload Failed due to " + ex; } } else { doneMessage = "Sorry this Servlet only handles file upload request"; } if (fv.get("social_files_id") != null) { //TODO better checking of files (size, type etc) File socDir = new File( ServletUtilities.dataDir(context, rootDir) + "/social_files/" + fv.get("social_files_id")); for (File sf : socDir.listFiles()) { socialFiles.add(sf); filesOK.add(sf.getName()); } filesBad = new HashMap<String, String>(); fileSuccess = true; } session.setAttribute("filesOKMessage", (filesOK.isEmpty() ? "none" : Arrays.toString(filesOK.toArray()))); String badmsg = ""; for (String key : filesBad.keySet()) { badmsg += key + " (" + getVal(filesBad, key) + ") "; } if (badmsg.equals("")) { badmsg = "none"; } session.setAttribute("filesBadMessage", badmsg); if (fileSuccess) { //////////////////////////////////////////// START //{submitterID=tomcat, submitterProject=, photographerEmail=, metalTag(left)=, sex=unknown, measurement(weight)=34234, location=, acousticTagId=, behavior=yow behavior..., measurement(weightunits)=kilograms, acousticTagSerial=, photographerName=, lifeStage=sub-adult, submitterAddress=, satelliteTagSerial=, releaseDate=, photographerPhone=, measurement(lengthunits)=meters, measurement(weightsamplingProtocol)=samplingProtocol0, measurement(length)=, submitterOrganization=, photographerAddress=, longitude=, year=2014, lat=, measurement(lengthsamplingProtocol)=samplingProtocol0, submitterEmail=, minutes=00, elevation=, measurement(height)=, measurement(heightsamplingProtocol)=samplingProtocol0, scars=None, submitterPhone=, submitterName=tomcat, hour=-1, livingStatus=alive, depth=, country=, satelliteTagName=Wild Life Computers, metalTag(right)=, month=1, measurement(heightunits)=meters, Submit=Send encounter report, informothers=, day=0, satelliteTagArgosPttNumber=, comments=} //check for spamBots TODO possibly move this to Util for general/global usage? boolean spamBot = false; String[] spamFieldsToCheck = new String[] { "submitterPhone", "submitterName", "photographerName", "photographerPhone", "location", "comments", "behavior" }; StringBuffer spamFields = new StringBuffer(); for (int i = 0; i < spamFieldsToCheck.length; i++) { spamFields.append(getVal(fv, spamFieldsToCheck[i])); } if (spamFields.toString().toLowerCase().indexOf("porn") != -1) { spamBot = true; } if (spamFields.toString().toLowerCase().indexOf("href") != -1) { spamBot = true; } //else if(spamFields.toString().toLowerCase().indexOf("[url]")!=-1){spamBot=true;} //else if(spamFields.toString().toLowerCase().indexOf("url=")!=-1){spamBot=true;} //else if(spamFields.toString().toLowerCase().trim().equals("")){spamBot=true;} //else if((theForm.getSubmitterID()!=null)&&(theForm.getSubmitterID().equals("N%2FA"))) {spamBot=true;} String locCode = ""; System.out.println(" **** here is what i think locationID is: " + fv.get("locationID")); if ((fv.get("locationID") != null) && !fv.get("locationID").toString().equals("")) { locCode = fv.get("locationID").toString(); } //see if the location code can be determined and set based on the location String reported else if (fv.get("location") != null) { String locTemp = getVal(fv, "location").toLowerCase(); Properties props = new Properties(); try { props = ShepherdProperties.getProperties("submitActionClass.properties", "", context); Enumeration m_enum = props.propertyNames(); while (m_enum.hasMoreElements()) { String aLocationSnippet = ((String) m_enum.nextElement()).trim(); if (locTemp.indexOf(aLocationSnippet) != -1) { locCode = props.getProperty(aLocationSnippet); } } } catch (Exception props_e) { props_e.printStackTrace(); } } //end else //end location code setter fv.put("locCode", locCode); //TODO this should live somewhere else as constant? (e.g. to build in form as well) String[] scarType = new String[] { "None", "Tail (caudal) fin", "1st dorsal fin", "2nd dorsal fin", "Left pectoral fin", "Right pectoral fin", "Head", "Body" }; int scarNum = -1; try { scarNum = Integer.parseInt(getVal(fv, "scars")); } catch (NumberFormatException e) { scarNum = -1; } if ((scarNum < 0) || (scarNum > 7)) { scarNum = -1; } if (scarNum >= 0) { fv.put("scars", scarType[scarNum]); } //System.out.println("about to do int stuff"); //need some ints for day/month/year/hour (other stuff seems to be strings) int day = 0, month = -1, year = 0, hour = 0; String minutes = ""; //try { day = Integer.parseInt(getVal(fv, "day")); } catch (NumberFormatException e) { day = 0; } //try { month = Integer.parseInt(getVal(fv, "month")); } catch (NumberFormatException e) { month = 0; } //try { year = Integer.parseInt(getVal(fv, "year")); } catch (NumberFormatException e) { year = 0; } //switch to datepicker LocalDateTime dt = new LocalDateTime(); if ((getVal(fv, "datepicker") != null) && (!getVal(fv, "datepicker").trim().equals(""))) { //System.out.println("Trying to read date: "+getVal(fv, "datepicker").replaceAll(" ", "T")); //boolean badDate=false; try { DateTimeFormatter parser1 = ISODateTimeFormat.dateOptionalTimeParser(); LocalDateTime reportedDateTime = new LocalDateTime( parser1.parseMillis(getVal(fv, "datepicker").replaceAll(" ", "T"))); StringTokenizer str = new StringTokenizer(getVal(fv, "datepicker").replaceAll(" ", "T"), "-"); int numTokens = str.countTokens(); if (numTokens >= 1) { //try { year = reportedDateTime.getYear(); if (year > (dt.getYear() + 1)) { //badDate=true; year = 0; throw new Exception( " An unknown exception occurred during date processing in EncounterForm. The user may have input an improper format: " + year + " > " + dt.getYear()); } //} catch (Exception e) { year=-1;} } if (numTokens >= 2) { try { month = reportedDateTime.getMonthOfYear(); } catch (Exception e) { month = -1; } } else { month = -1; } //see if we can get a day, because we do want to support only yyy-MM too if (str.countTokens() >= 3) { try { day = reportedDateTime.getDayOfMonth(); } catch (Exception e) { day = 0; } } else { day = 0; } //see if we can get a time and hour, because we do want to support only yyy-MM too StringTokenizer strTime = new StringTokenizer(getVal(fv, "datepicker").replaceAll(" ", "T"), "T"); if (strTime.countTokens() > 1) { try { hour = reportedDateTime.getHourOfDay(); } catch (Exception e) { hour = -1; } try { minutes = (new Integer(reportedDateTime.getMinuteOfHour()).toString()); } catch (Exception e) { } } else { hour = -1; } //System.out.println("At the end of time processing I see: "+year+"-"+month+"-"+day+" "+hour+":"+minutes); } catch (Exception e) { System.out.println( " An unknown exception occurred during date processing in EncounterForm. The user may have input an improper format."); e.printStackTrace(); processingNotes.append("<p>Error encountered processing this date submitted by user: " + getVal(fv, "datepicker") + "</p>"); } } String guess = "no estimate provided"; if ((fv.get("guess") != null) && !fv.get("guess").toString().equals("")) { guess = fv.get("guess").toString(); } //let's handle genus and species for taxonomy String genus = null; String specificEpithet = null; try { //now we have to break apart genus species if (fv.get("genusSpecies") != null) { StringTokenizer tokenizer = new StringTokenizer(fv.get("genusSpecies").toString(), " "); if (tokenizer.countTokens() >= 2) { genus = tokenizer.nextToken(); //enc.setGenus(tokenizer.nextToken()); specificEpithet = tokenizer.nextToken().replaceAll(",", "").replaceAll("_", " "); //enc.setSpecificEpithet(tokenizer.nextToken().replaceAll(",","").replaceAll("_"," ")); } //handle malformed Genus Species formats else { throw new Exception( "The format of the submitted genusSpecies parameter did not have two tokens delimited by a space (e.g., \"Rhincodon typus\"). The submitted value was: " + fv.get("genusSpecies")); } } } catch (Exception le) { } System.out.println("about to do enc()"); Encounter enc = new Encounter(day, month, year, hour, minutes, guess, getVal(fv, "location"), getVal(fv, "submitterName"), getVal(fv, "submitterEmail"), null); boolean llSet = false; //Encounter enc = new Encounter(); //System.out.println("Submission detected date: "+enc.getDate()); String encID = enc.generateEncounterNumber(); enc.setEncounterNumber(encID); System.out.println("hey, i think i may have made an encounter, encID=" + encID); System.out.println("enc ?= " + enc.toString()); AssetStore astore = AssetStore.getDefault(myShepherd); ArrayList<Annotation> newAnnotations = new ArrayList<Annotation>(); for (FileItem item : formFiles) { JSONObject sp = astore.createParameters(new File(enc.subdir() + File.separator + item.getName())); sp.put("key", Util.hashDirectories(encID) + "/" + item.getName()); MediaAsset ma = new MediaAsset(astore, sp); File tmpFile = ma.localPath().toFile(); //conveniently(?) our local version to save ma.cacheLocal() from having to do anything? File tmpDir = tmpFile.getParentFile(); if (!tmpDir.exists()) tmpDir.mkdirs(); //System.out.println("attempting to write uploaded file to " + tmpFile); try { item.write(tmpFile); } catch (Exception ex) { System.out.println("Could not write " + tmpFile + ": " + ex.toString()); } if (tmpFile.exists()) { ma.addLabel("_original"); ma.copyIn(tmpFile); ma.updateMetadata(); newAnnotations.add(new Annotation(Util.taxonomyString(genus, specificEpithet), ma)); } else { System.out.println("failed to write file " + tmpFile); } } ///////////////////TODO social files also!!! if (fv.get("mediaAssetSetId") != null) { MediaAssetSet maSet = ((MediaAssetSet) (myShepherd.getPM().getObjectById( myShepherd.getPM().newObjectIdInstance(MediaAssetSet.class, fv.get("mediaAssetSetId")), true))); if ((maSet != null) && (maSet.getMediaAssets() != null) && (maSet.getMediaAssets().size() > 0)) { int num = maSet.getMediaAssets().size(); for (MediaAsset ma : maSet.getMediaAssets()) { newAnnotations.add(new Annotation(Util.taxonomyString(genus, specificEpithet), ma)); } session.setAttribute("filesOKMessage", num + " " + ((num == 1) ? "file" : "files")); } } enc.setAnnotations(newAnnotations); enc.setGenus(genus); enc.setSpecificEpithet(specificEpithet); /* String baseDir = ServletUtilities.dataDir(context, rootDir); ArrayList<SinglePhotoVideo> images = new ArrayList<SinglePhotoVideo>(); for (FileItem item : formFiles) { // this will actually write file to filesystem (or [FUTURE] wherever) // TODO: either (a) undo this if any failure of writing encounter; or (b) dont write til success of enc. try { //SinglePhotoVideo spv = new SinglePhotoVideo(encID, item, context, encDataDir); SinglePhotoVideo spv = new SinglePhotoVideo(enc, item, context, baseDir); //images.add(spv); enc.addSinglePhotoVideo(spv); } catch (Exception ex) { System.out.println("failed to save " + item.toString() + ": " + ex.toString()); } } for (File sf : socialFiles) { File encDir = new File(enc.dir(baseDir)); if (!encDir.exists()) encDir.mkdirs(); File targetFile = new File(encDir, sf.getName()); System.out.println("socialFile copy: " + sf.toString() + " ---> " + targetFile.toString()); Files.copy(sf.toPath(), targetFile.toPath(), StandardCopyOption.REPLACE_EXISTING); SinglePhotoVideo spv = new SinglePhotoVideo(encID, targetFile); enc.addSinglePhotoVideo(spv); } */ //now let's add our encounter to the database enc.setComments(getVal(fv, "comments").replaceAll("\n", "<br>")); if (fv.get("releaseDate") != null && fv.get("releaseDate").toString().length() > 0) { String dateFormatPattern = CommonConfiguration.getProperty("releaseDateFormat", context); try { SimpleDateFormat simpleDateFormat = new SimpleDateFormat(dateFormatPattern); enc.setReleaseDate(simpleDateFormat.parse(fv.get("releaseDate").toString()).getTime()); } catch (Exception e) { enc.addComments("<p>Reported release date was problematic: " + fv.get("releaseDate") + "</p>"); } } if (fv.get("behavior") != null && fv.get("behavior").toString().length() > 0) { enc.setBehavior(fv.get("behavior").toString()); } if (fv.get("alternateID") != null && fv.get("alternateID").toString().length() > 0) { enc.setAlternateID(fv.get("alternateID").toString()); } if (fv.get("lifeStage") != null && fv.get("lifeStage").toString().length() > 0) { enc.setLifeStage(fv.get("lifeStage").toString()); } List<MetalTag> metalTags = getMetalTags(fv); for (MetalTag metalTag : metalTags) { enc.addMetalTag(metalTag); } List<Measurement> measurements = getMeasurements(fv, encID, context); for (Measurement measurement : measurements) { enc.setMeasurement(measurement, myShepherd); } enc.setAcousticTag(getAcousticTag(fv)); enc.setSatelliteTag(getSatelliteTag(fv)); enc.setSex(getVal(fv, "sex")); enc.setLivingStatus(getVal(fv, "livingStatus")); if (fv.get("scars") != null) { enc.setDistinguishingScar(fv.get("scars").toString()); } int sizePeriod = 0; if ((fv.get("measureUnits") != null) && fv.get("measureUnits").toString().equals("Feet")) { if ((fv.get("depth") != null) && !fv.get("depth").toString().equals("")) { try { double tempDouble = (new Double(fv.get("depth").toString())).doubleValue() / 3.3; String truncDepth = (new Double(tempDouble)).toString(); sizePeriod = truncDepth.indexOf("."); truncDepth = truncDepth.substring(0, sizePeriod + 2); fv.put("depth", (new Double(truncDepth)).toString()); } catch (java.lang.NumberFormatException nfe) { enc.addComments( "<p>Reported depth was problematic: " + fv.get("depth").toString() + "</p>"); fv.put("depth", ""); } catch (NullPointerException npe) { fv.put("depth", ""); } } System.out.println("depth --> " + fv.get("depth").toString()); if ((fv.get("elevation") != null) && !fv.get("elevation").toString().equals("")) { try { double tempDouble = (new Double(fv.get("elevation").toString())).doubleValue() / 3.3; String truncElev = (new Double(tempDouble)).toString(); //String truncElev = ((new Double(elevation)) / 3.3).toString(); sizePeriod = truncElev.indexOf("."); truncElev = truncElev.substring(0, sizePeriod + 2); fv.put("elevation", (new Double(truncElev)).toString()); } catch (java.lang.NumberFormatException nfe) { enc.addComments("<p>Reported elevation was problematic: " + fv.get("elevation").toString() + "</p>"); fv.put("elevation", ""); } catch (NullPointerException npe) { fv.put("elevation", ""); } } if ((fv.get("size") != null) && !fv.get("size").toString().equals("")) { try { double tempDouble = (new Double(fv.get("size").toString())).doubleValue() / 3.3; String truncSize = (new Double(tempDouble)).toString(); //String truncSize = ((new Double(size)) / 3.3).toString(); sizePeriod = truncSize.indexOf("."); truncSize = truncSize.substring(0, sizePeriod + 2); fv.put("size", (new Double(truncSize)).toString()); } catch (java.lang.NumberFormatException nfe) { enc.addComments("<p>Reported size was problematic: " + fv.get("size").toString() + "</p>"); fv.put("size", ""); } catch (NullPointerException npe) { fv.put("size", ""); } } } //measureUnits if ((fv.get("size") != null) && !fv.get("size").toString().equals("")) { try { enc.setSize(new Double(fv.get("size").toString())); } catch (java.lang.NumberFormatException nfe) { enc.addComments("<p>Reported size was problematic: " + fv.get("size").toString() + "</p>"); fv.put("size", ""); } catch (NullPointerException npe) { fv.put("size", ""); } } if ((fv.get("elevation") != null) && !fv.get("elevation").toString().equals("")) { try { enc.setMaximumElevationInMeters(new Double(fv.get("elevation").toString())); } catch (java.lang.NumberFormatException nfe) { enc.addComments( "<p>Reported elevation was problematic: " + fv.get("elevation").toString() + "</p>"); fv.put("elevatoin", ""); } catch (NullPointerException npe) { fv.put("elevation", ""); } } if ((fv.get("depth") != null) && !fv.get("depth").toString().equals("")) { try { enc.setDepth(new Double(fv.get("depth").toString())); } catch (java.lang.NumberFormatException nfe) { enc.addComments("<p>Reported depth was problematic: " + fv.get("depth").toString() + "</p>"); fv.put("depth", ""); } catch (NullPointerException npe) { fv.put("depth", ""); } } //let's handle the GPS if ((fv.get("lat") != null) && (fv.get("longitude") != null) && !fv.get("lat").toString().equals("") && !fv.get("longitude").toString().equals("")) { //enc.setGPSLatitude(lat + "° " + gpsLatitudeMinutes + "\' " + gpsLatitudeSeconds + "\" " + latDirection); try { double degrees = (new Double(fv.get("lat").toString())).doubleValue(); double position = degrees; /* if (!gpsLatitudeMinutes.equals("")) { double minutes2 = ((new Double(gpsLatitudeMinutes)).doubleValue()) / 60; position += minutes2; } if (!gpsLatitudeSeconds.equals("")) { double seconds2 = ((new Double(gpsLatitudeSeconds)).doubleValue()) / 3600; position += seconds2; } if (latDirection.toLowerCase().equals("south")) { position = position * -1; }*/ enc.setDWCDecimalLatitude(position); double degrees2 = (new Double(fv.get("longitude").toString())).doubleValue(); double position2 = degrees2; enc.setDWCDecimalLongitude(position2); llSet = true; } catch (Exception e) { System.out.println("EncounterSetGPS: problem!"); e.printStackTrace(); } } //enc.setMeasureUnits("Meters"); enc.setSubmitterPhone(getVal(fv, "submitterPhone")); enc.setSubmitterAddress(getVal(fv, "submitterAddress")); enc.setSubmitterOrganization(getVal(fv, "submitterOrganization")); enc.setSubmitterProject(getVal(fv, "submitterProject")); enc.setPhotographerPhone(getVal(fv, "photographerPhone")); enc.setPhotographerAddress(getVal(fv, "photographerAddress")); enc.setPhotographerName(getVal(fv, "photographerName")); enc.setPhotographerEmail(getVal(fv, "photographerEmail")); enc.addComments("<p>Submitted on " + (new java.util.Date()).toString() + " from address: " + request.getRemoteHost() + "</p>"); //enc.approved = false; enc.addComments(processingNotes.toString()); if (CommonConfiguration.getProperty("encounterState0", context) != null) { enc.setState(CommonConfiguration.getProperty("encounterState0", context)); } if (request.getRemoteUser() != null) { enc.setSubmitterID(request.getRemoteUser()); } else { enc.setSubmitterID("N/A"); } if (!getVal(fv, "locCode").equals("")) { enc.setLocationCode(locCode); } if (!getVal(fv, "country").equals("")) { enc.setCountry(getVal(fv, "country")); } if (!getVal(fv, "informothers").equals("")) { enc.setInformOthers(getVal(fv, "informothers")); } // xxxxxxx //add research team for GAq if (!getVal(fv, "researchTeam").equals("")) { enc.setDynamicProperty("Research Team", (getVal(fv, "researchTeam"))); } if (!getVal(fv, "vessel").equals("")) { enc.setDynamicProperty("Vessel", (getVal(fv, "vessel"))); } if (!getVal(fv, "conditions").equals("")) { enc.setDynamicProperty("Conditions", (getVal(fv, "conditions"))); } if (!getVal(fv, "camera").equals("")) { enc.setDynamicProperty("Camera", (getVal(fv, "camera"))); } if (!getVal(fv, "lens").equals("")) { enc.setDynamicProperty("Lens", (getVal(fv, "lens"))); } if (!getVal(fv, "card").equals("")) { enc.setDynamicProperty("Card", (getVal(fv, "card"))); } if (!getVal(fv, "folder").equals("")) { enc.setDynamicProperty("Folder", (getVal(fv, "folder"))); } if (!getVal(fv, "numberOfBoats").equals("")) { enc.setDynamicProperty("Number of boats", (getVal(fv, "numberOfBoats"))); } if (!getVal(fv, "startTime").equals("")) { enc.setDynamicProperty("Start Time", (getVal(fv, "startTime"))); } if (!getVal(fv, "endTime").equals("")) { enc.setDynamicProperty("End Time", (getVal(fv, "endTime"))); } if (!getVal(fv, "endLongitude").equals("")) { enc.setDynamicProperty("End Longitude", (getVal(fv, "endLongitude"))); } if (!getVal(fv, "endLatitude").equals("")) { enc.setDynamicProperty("End Latitude", (getVal(fv, "endLatitude"))); } if (!getVal(fv, "startLongitude").equals("")) { enc.setDynamicProperty("Start Longitude", (getVal(fv, "startLongitude"))); } if (!getVal(fv, "startLatitude").equals("")) { enc.setDynamicProperty("Start Latitude", (getVal(fv, "startLatitude"))); } if (!getVal(fv, "beginWaypoint").equals("")) { enc.setDynamicProperty("Begin Waypoint", (getVal(fv, "beginWaypoint"))); } if (!getVal(fv, "endWaypoint").equals("")) { enc.setDynamicProperty("End Waypoint", (getVal(fv, "endWaypoint"))); } //xxxxxxxx String guid = CommonConfiguration.getGlobalUniqueIdentifierPrefix(context) + encID; //new additions for DarwinCore enc.setDWCGlobalUniqueIdentifier(guid); enc.setDWCImageURL((request.getScheme() + "://" + CommonConfiguration.getURLLocation(request) + "/encounters/encounter.jsp?number=" + encID)); //populate DarwinCore dates DateTimeFormatter fmt = ISODateTimeFormat.date(); String strOutputDateTime = fmt.print(dt); enc.setDWCDateAdded(strOutputDateTime); enc.setDWCDateAdded(new Long(dt.toDateTime().getMillis())); //System.out.println("I set the date as a LONG to: "+enc.getDWCDateAddedLong()); enc.setDWCDateLastModified(strOutputDateTime); //this will try to set from MediaAssetMetadata -- ymmv if (!llSet) enc.setLatLonFromAssets(); if (enc.getYear() < 1) enc.setDateFromAssets(); String newnum = ""; if (!spamBot) { newnum = myShepherd.storeNewEncounter(enc, encID); //enc.refreshAssetFormats(context, ServletUtilities.dataDir(context, rootDir)); enc.refreshAssetFormats(myShepherd); Logger log = LoggerFactory.getLogger(EncounterForm.class); log.info("New encounter submission: <a href=\"" + request.getScheme() + "://" + CommonConfiguration.getURLLocation(request) + "/encounters/encounter.jsp?number=" + encID + "\">" + encID + "</a>"); System.out.println("ENCOUNTER SAVED???? newnum=" + newnum); } if (newnum.equals("fail")) { request.setAttribute("number", "fail"); return; } //return a forward to display.jsp System.out.println("Ending data submission."); if (!spamBot) { response.sendRedirect(request.getScheme() + "://" + CommonConfiguration.getURLLocation(request) + "/confirmSubmit.jsp?number=" + encID); } else { response.sendRedirect( request.getScheme() + "://" + CommonConfiguration.getURLLocation(request) + "/spambot.jsp"); } } //end "if (fileSuccess) myShepherd.closeDBTransaction(); //return null; } }