thredds.catalog.dl.DIFWriter Maven / Gradle / Ivy
/*
* Copyright 1998-2009 University Corporation for Atmospheric Research/Unidata
*
* Portions of this software were developed by the Unidata Program at the
* University Corporation for Atmospheric Research.
*
* Access and use of this software shall impose the following obligations
* and understandings on the user. The user is granted the right, without
* any fee or cost, to use, copy, modify, alter, enhance and distribute
* this software, and any derivative works thereof, and its supporting
* documentation for any purpose whatsoever, provided that this entire
* notice appears in all copies of the software, derivative works and
* supporting documentation. Further, UCAR requests that the user credit
* UCAR/Unidata in any publications that result from the use of this
* software or in any product that includes this software. The names UCAR
* and/or Unidata, however, may not be used in any advertising or publicity
* to endorse or promote any products or commercial entity unless specific
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* the user with any updates, revisions, new versions or "bug fixes."
*
* THIS SOFTWARE IS PROVIDED BY UCAR/UNIDATA "AS IS" AND ANY EXPRESS OR
* IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
* WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
* DISCLAIMED. IN NO EVENT SHALL UCAR/UNIDATA BE LIABLE FOR ANY SPECIAL,
* INDIRECT OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING
* FROM LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT,
* NEGLIGENCE OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION
* WITH THE ACCESS, USE OR PERFORMANCE OF THIS SOFTWARE.
*/
package thredds.catalog.dl;
import thredds.catalog.*;
import thredds.catalog.crawl.CatalogCrawler;
import ucar.nc2.constants.CDM;
import ucar.nc2.units.DateRange;
import ucar.nc2.units.DateType;
import org.jdom2.*;
import org.jdom2.output.*;
import java.io.*;
import java.util.*;
import java.net.URI;
import ucar.nc2.units.TimeDuration;
import ucar.unidata.geoloc.*;
import ucar.unidata.util.StringUtil2;
public class DIFWriter {
static private org.slf4j.Logger log = org.slf4j.LoggerFactory.getLogger(DIFWriter.class);
static private final Namespace defNS = Namespace.getNamespace("http://gcmd.gsfc.nasa.gov/Aboutus/xml/dif/");
static private String schemaLocation ="http://gcmd.nasa.gov/Aboutus/xml/dif/dif.xsd";
private String fileDir;
private StringBuilder messBuffer;
private boolean debug = false;
public DIFWriter() {
}
/**
* Write all harvestable datasets to DIF records that have at least the minimum metadata.
* Call isDatasetUseable() to find out.
*
* @param cat harvest the datasets starting from here
* @param fileDir write records to this directory. The dataset id is used as the filename, appending "dif.xml"
* @param mess status messages are appended here
*/
public void writeDatasetEntries( InvCatalogImpl cat, String fileDir, StringBuilder mess) {
this.fileDir = fileDir;
this.messBuffer = mess;
File dir = new File(fileDir);
if (!dir.exists()) {
boolean ret = dir.mkdirs();
assert ret;
}
CatalogCrawler.Listener listener = new CatalogCrawler.Listener() {
public void getDataset(InvDataset ds, Object context) {
doOneDataset(ds);
}
public boolean getCatalogRef(InvCatalogRef dd, Object context) { return true; }
};
ByteArrayOutputStream bis = new ByteArrayOutputStream();
PrintStream ps = new PrintStream( bis);
CatalogCrawler crawler = new CatalogCrawler( CatalogCrawler.USE_ALL, true, listener);
crawler.crawl(cat, null, ps, null);
mess.append("\n*********************\n");
mess.append(new String(bis.toByteArray(), CDM.utf8Charset));
}
/**
* Write a DIF record for a specific dataset
* @param ds use this dataset
*/
public void doOneDataset( InvDataset ds) {
if (debug) System.out.println("doDataset "+ds.getName());
if (isDatasetUseable( ds, messBuffer)) {
String id = StringUtil2.replace(ds.getID(), "/", "-");
String fileOutName = fileDir+"/"+id+".dif.xml";
try {
OutputStream out = new BufferedOutputStream(new FileOutputStream( fileOutName));
// writeOneEntry(ds, System.out, mess);
writeOneEntry(ds, out, messBuffer);
out.close();
messBuffer.append(" OK on Write\n");
} catch (IOException ioe) {
messBuffer.append("DIFWriter failed on write " + ioe.getMessage() + "\n");
log.error("DIFWriter failed on write "+ioe.getMessage(), ioe);
}
}
}
/**
* Write a DIF record for a specific dataset
* @param ds use this dataset
* @param fileDir write records to this directory. The dataset id is used as the filename, appending "dif.xml"
* @param mess status messages are appended here
*/
public void doOneDataset( InvDataset ds, String fileDir, StringBuilder mess) {
if (debug) System.out.println("doDataset "+ds.getName());
if (isDatasetUseable( ds, mess)) {
String id = StringUtil2.replace(ds.getID(), "/", "-");
String fileOutName = fileDir+"/"+id+".dif.xml";
try {
OutputStream out = new BufferedOutputStream(new FileOutputStream( fileOutName));
// writeOneEntry(ds, System.out, mess);
writeOneEntry(ds, out, mess);
out.close();
mess.append(" OK on Write\n");
} catch (IOException ioe) {
mess.append("DIFWriter failed on write " + ioe.getMessage() + "\n");
log.error("DIFWriter failed on write "+ioe.getMessage(), ioe);
}
}
}
/**
* See if a dataset is harvestable to a DIF record.
*
* @param ds check this dataset.
* @param sbuff put status messages here.
* @return true if a DIF record can be written
*/
public boolean isDatasetUseable(InvDataset ds, StringBuilder sbuff) {
boolean ok = true;
sbuff.append("Dataset " + ds.getName() + " id = " + ds.getID() + ": ");
if (!ds.isHarvest()) {
ok = false;
sbuff.append("Dataset " + ds.getName() + " id = " + ds.getID() + " has harvest = false\n");
}
if (ds.getName() == null) {
ok = false;
sbuff.append(" missing Name field\n");
}
if (ds.getUniqueID() == null) {
ok = false;
sbuff.append(" missing ID field\n");
}
ThreddsMetadata.Variables vs = ds.getVariables("DIF");
if ((vs == null) || (vs.getVariableList().size() == 0))
vs = ds.getVariables("GRIB-1");
if ((vs == null) || (vs.getVariableList().size() == 0))
vs = ds.getVariables("GRIB-2");
if ((vs == null) || (vs.getVariableList().size() == 0)) {
ok = false;
sbuff.append(" missing Variables with DIF or GRIB compatible vocabulary\n");
}
List list = ds.getPublishers();
if ((list == null) || (list.size() == 0)) {
ok = false;
sbuff.append(" must have publisher element that defines the data center\n");
}
String summary = ds.getDocumentation("summary");
if (summary == null) {
ok = false;
sbuff.append(" must have documentation element of type summary\n");
}
sbuff.append(" useable= "+ok+"\n");
return ok;
}
private void writeOneEntry( InvDataset ds, OutputStream out, StringBuilder mess) throws IOException {
Element rootElem = new Element("DIF", defNS);
Document doc = new Document(rootElem);
writeDataset( ds, rootElem, mess);
rootElem.addNamespaceDeclaration(defNS);
rootElem.addNamespaceDeclaration(XMLEntityResolver.xsiNS);
rootElem.setAttribute("schemaLocation", defNS.getURI()+" "+schemaLocation, XMLEntityResolver.xsiNS);
// Output the document, use standard formatter
XMLOutputter fmt = new XMLOutputter( Format.getPrettyFormat());
fmt.output( doc, out);
}
private Iterator translateGribVocabulary(ThreddsMetadata.Variables vs, boolean isGrib1, StringBuilder mess) {
if (vs == null)
return null;
VocabTranslator vt;
try {
vt = isGrib1 ? (VocabTranslator) Grib1toDIF.getInstance() : (VocabTranslator) Grib2toDIF.getInstance();
} catch (IOException e) {
log.error("DIFWriter failed opening GribtoDIF VocabTranslator ", e);
return null;
}
// hash on DIF names to eliminate duplicates
Map hash = new HashMap(100);
for (ThreddsMetadata.Variable v : vs.getVariableList()) {
String fromVocabId = v.getVocabularyId();
if (fromVocabId == null) {
mess.append("** no id for " + v.getName() + "\n");
continue;
}
String toVocabName = vt.translate(fromVocabId);
if (toVocabName == null) {
mess.append("** no translation for " + fromVocabId + " == " + v.getVocabularyName() + "\n");
continue;
}
// do we already have it ?
if (hash.get(toVocabName) == null) {
ThreddsMetadata.Variable transV = new ThreddsMetadata.Variable(v.getName(), v.getDescription(), toVocabName,
v.getUnits(), fromVocabId);
hash.put(toVocabName, transV);
}
}
return hash.values().iterator();
}
private void writeDataset(InvDataset ds, Element rootElem, StringBuilder mess) {
String entryId = StringUtil2.allow(ds.getUniqueID(), "_-.", '-');
rootElem.addContent( new Element("Entry_ID", defNS).addContent(entryId));
rootElem.addContent( new Element("Entry_Title", defNS).addContent(ds.getFullName()));
// parameters : look for DIF
ThreddsMetadata.Variables vs = ds.getVariables("DIF");
boolean hasVocab = (vs != null) && (vs.getVariableList().size() != 0);
if (hasVocab) {
for (ThreddsMetadata.Variable v : vs.getVariableList()) {
writeVariable( rootElem, v);
}
} else {
// look for GRIB-1
vs = ds.getVariables("GRIB-1");
if ((vs != null) && (vs.getVariableList().size() != 0)) {
Iterator iter = translateGribVocabulary(vs, true, mess);
while (iter.hasNext()) {
ThreddsMetadata.Variable v = (ThreddsMetadata.Variable) iter.next();
writeVariable( rootElem, v);
}
} else {
// look for GRIB-2
vs = ds.getVariables("GRIB-2");
if ((vs != null) && (vs.getVariableList().size() != 0)) {
Iterator iter = translateGribVocabulary(vs, false, mess);
while ((iter != null) && iter.hasNext()) {
ThreddsMetadata.Variable v = (ThreddsMetadata.Variable) iter.next();
writeVariable( rootElem, v);
}
}
}
}
// keywords
List list = ds.getKeywords();
if (list.size() > 0) {
for (int i=0; i 0) {
String reletiveTime = "RELATIVE_START_DATE: "+((int)-ndays);
rootElem.addContent( new Element("Keyword", defNS).addContent(reletiveTime));
}
}
}
// LOOK KLUDGE - these need to be added to the catalog !! see http://gcmd.nasa.gov/Resources/valids/sources.html
Element platform = new Element("Source_Name", defNS);
rootElem.addContent(platform);
platform.addContent( new Element("Short_Name", defNS).addContent("MODELS"));
if (tm != null) {
Element tmElem = new Element("Temporal_Coverage", defNS);
rootElem.addContent(tmElem);
tmElem.addContent(new Element("Start_Date",
defNS).addContent(tm.getStart().toString()));
tmElem.addContent(new Element("Stop_Date",
defNS).addContent(tm.getEnd().toString()));
}
//geospatial
ThreddsMetadata.GeospatialCoverage geo = ds.getGeospatialCoverage();
if (geo != null) {
Element geoElem = new Element("Spatial_Coverage", defNS);
rootElem.addContent(geoElem);
double eastNormal = LatLonPointImpl.lonNormal(geo.getLonEast());
double westNormal = LatLonPointImpl.lonNormal(geo.getLonWest());
geoElem.addContent(new Element("Southernmost_Latitude",
defNS).addContent(Double.toString(geo.getLatSouth())));
geoElem.addContent(new Element("Northernmost_Latitude",
defNS).addContent(Double.toString(geo.getLatNorth())));
geoElem.addContent(new Element("Westernmost_Longitude",
defNS).addContent(Double.toString(westNormal)));
geoElem.addContent(new Element("Easternmost_Longitude",
defNS).addContent(Double.toString(eastNormal)));
}
/* LOOK
"\n" +
" 12 Km \n" +
" 12 Km \n" +
" 10 km - < 50 km or approximately .09 degree - < .5 degree \n" +
" 6 Hours \n" +
" Hourly - < Daily \n" +
" "
*/
String rights = ds.getDocumentation("rights");
if (rights != null)
rootElem.addContent( new Element("Use_Constraints", defNS).addContent(rights));
// data center
List plist = ds.getPublishers();
if (plist.size() > 0) {
for (ThreddsMetadata.Source p : plist) {
if (p.getNameVocab().getVocabulary().equalsIgnoreCase("DIF")) {
Element dataCenter = new Element("Data_Center", defNS);
rootElem.addContent(dataCenter);
writeDataCenter(p, dataCenter);
break;
}
}
}
String summary = ds.getDocumentation("summary");
if (summary != null) {
String summaryLines = StringUtil2.breakTextAtWords(summary, "\n", 80);
rootElem.addContent( new Element("Summary", defNS).addContent(summaryLines));
}
URI uri;
String href;
if (ds instanceof InvCatalogRef) { // LOOK !!
InvCatalogRef catref = (InvCatalogRef) ds;
uri = catref.getURI();
href = uri.toString();
int pos = href.lastIndexOf('.');
href = href.substring(0,pos)+".html";
} else {
InvCatalogImpl cat = (InvCatalogImpl) ds.getParentCatalog();
uri = cat.getBaseURI();
String catURL = uri.toString();
int pos = catURL.lastIndexOf('.');
href = catURL.substring(0,pos)+".html";
if (ds.hasAccess())
href = href+"?dataset="+ds.getID();
}
rootElem.addContent( makeRelatedURL("GET DATA", "THREDDS CATALOG", uri.toString()));
rootElem.addContent( makeRelatedURL("GET DATA", "THREDDS DIRECTORY", href));
InvAccess access;
if (null != (access = ds.getAccess(ServiceType.OPENDAP))) {
rootElem.addContent( makeRelatedURL("GET DATA", "OPENDAP DATA", access.getStandardUrlName()));
}
if (null != (access = ds.getAccess(ServiceType.DAP4))) {
rootElem.addContent( makeRelatedURL("GET DATA", "DAP4 DATA", access.getStandardUrlName()));
}
rootElem.addContent(new Element("Metadata_Name", defNS).addContent("CEOS IDN DIF"));
rootElem.addContent(new Element("Metadata_Version", defNS).addContent("9.4"));
DateType today = new DateType(false, new Date());
rootElem.addContent(new Element("DIF_Creation_Date", defNS).addContent(today.toDateTimeStringISO()));
}
private Element makeRelatedURL(String type, String subtype, String url) {
Element elem = new Element("Related_URL", defNS);
Element uctElem = new Element("URL_Content_Type", defNS);
elem.addContent(uctElem);
uctElem.addContent( new Element("Type", defNS).addContent(type));
uctElem.addContent( new Element("Subtype", defNS).addContent(subtype));
elem.addContent( new Element("URL", defNS).addContent(url));
return elem;
}
private void writeDataCenter(ThreddsMetadata.Source p, Element dataCenter) {
Element name = new Element("Data_Center_Name", defNS);
dataCenter.addContent( name);
// dorky
StringTokenizer stoker = new StringTokenizer(p.getName(), ">");
int n = stoker.countTokens();
if (n == 2) {
name.addContent( new Element("Short_Name", defNS).addContent(stoker.nextToken().trim()));
name.addContent( new Element("Long_Name", defNS).addContent(stoker.nextToken().trim()));
} else {
name.addContent( new Element("Short_Name", defNS).addContent(p.getName()));
}
if ((p.getUrl() != null) && p.getUrl().length() > 0)
dataCenter.addContent( new Element("Data_Center_URL", defNS).addContent(p.getUrl()));
Element person = new Element("Personnel", defNS);
dataCenter.addContent( person);
person.addContent( new Element("Role", defNS).addContent("DATA CENTER CONTACT"));
person.addContent( new Element("Last_Name", defNS).addContent("Any"));
person.addContent( new Element("Email", defNS).addContent(p.getEmail()));
}
private void writeVariable( Element rootElem, ThreddsMetadata.Variable v) {
String vname = v.getVocabularyName();
StringTokenizer stoker = new StringTokenizer(vname,">");
int n = stoker.countTokens();
if (n < 3) return; // gottta have the first 3
Element param = new Element("Parameters", defNS);
rootElem.addContent(param);
if (stoker.hasMoreTokens())
param.addContent( new Element("Category", defNS).addContent(stoker.nextToken().trim()));
if (stoker.hasMoreTokens())
param.addContent( new Element("Topic", defNS).addContent(stoker.nextToken().trim()));
if (stoker.hasMoreTokens())
param.addContent( new Element("Term", defNS).addContent(stoker.nextToken().trim()));
if (stoker.hasMoreTokens())
param.addContent( new Element("Variable", defNS).addContent(stoker.nextToken().trim()));
if (stoker.hasMoreTokens())
param.addContent( new Element("Detailed_Variable", defNS).addContent(stoker.nextToken().trim()));
}
// test
private static void doCatalog( InvCatalogFactory fac, String url) {
System.out.println("***read "+url);
try {
InvCatalogImpl cat = fac.readXML(url);
StringBuilder buff = new StringBuilder();
boolean isValid = cat.check( buff, false);
System.out.println("catalog <" + cat.getName()+ "> "+ (isValid ? "is" : "is not") + " valid");
System.out.println(" validation output=\n" + buff);
System.out.println(" catalog=\n" + fac.writeXML(cat));
DIFWriter w = new DIFWriter();
StringBuilder sbuff = new StringBuilder();
w.writeDatasetEntries( cat, "C:/temp/dif2", sbuff);
System.out.println(" messages=\n"+sbuff);
} catch (Exception e) {
e.printStackTrace();
}
}
/** testing */
public static void main (String[] args) throws Exception {
InvCatalogFactory catFactory = InvCatalogFactory.getDefaultFactory(true);
doCatalog(catFactory, "http://thredds.ucar.edu:9080/thredds/idd/models.xml");
}
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