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The NetCDF-Java Library is a Java interface to NetCDF files,
as well as to many other types of scientific data formats.
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/*
* Copyright (c) 1998 - 2010. 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
* written permission is obtained from UCAR/Unidata. The user also
* understands that UCAR/Unidata is not obligated to provide the user with
* any support, consulting, training or assistance of any kind with regard
* to the use, operation and performance of this software nor to provide
* 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.featurecollection;
import org.jdom2.Element;
import org.jdom2.Namespace;
import thredds.inventory.CollectionUpdateType;
import ucar.nc2.time.CalendarPeriod;
import ucar.nc2.units.TimeDuration;
import ucar.unidata.util.StringUtil2;
import java.util.*;
/**
* Beans for FeatureCollection configuration
*
* @author caron
* @since Mar 30, 2010
*/
public class FeatureCollectionConfig {
// keys for storing AuxInfo objects
// static public final String AUX_GRIB_CONFIG = "gribConfig";
static public final String AUX_CONFIG = "fcConfig";
static public enum ProtoChoice {
First, Random, Latest, Penultimate, Run
}
static public enum FmrcDatasetType {
TwoD, Best, Files, Runs, ConstantForecasts, ConstantOffsets
}
static public enum PointDatasetType {
cdmrFeature, Files
}
static public enum GribDatasetType {
TwoD, Best, Hour0, Files, Latest, LatestFile
}
static public enum PartitionType {
none, directory, file
}
public static void setRegularizeDefault(boolean t) {
regularizeDefault = t;
}
public static boolean getRegularizeDefault() {
return regularizeDefault;
}
static private boolean regularizeDefault = false;
static private org.slf4j.Logger log = org.slf4j.LoggerFactory.getLogger(FeatureCollectionConfig.class);
//////////////////////////////////////////////
public FeatureCollectionType type;
public PartitionType ptype = PartitionType.none;
public String name, path, spec, dateFormatMark, olderThan;
public UpdateConfig tdmConfig = new UpdateConfig();
public UpdateConfig updateConfig = new UpdateConfig();
public ProtoConfig protoConfig = new ProtoConfig();
public FmrcConfig fmrcConfig = new FmrcConfig();
public PointConfig pointConfig = new PointConfig();
public GribConfig gribConfig = new GribConfig();
public Element innerNcml = null;
public boolean useIndexOnly = false;
public FeatureCollectionConfig() {
}
public FeatureCollectionConfig(String name, String path, FeatureCollectionType fcType, String spec,
String dateFormatMark, String olderThan,
String timePartition, String useIndexOnlyS, Element innerNcml) {
this.name = name;
this.path = path;
this.type = fcType;
this.spec = spec;
this.dateFormatMark = dateFormatMark;
this.olderThan = olderThan;
//if (recheckAfter != null) this.updateConfig.recheckAfter = recheckAfter;
if (null != timePartition) {
if (timePartition.equalsIgnoreCase("directory")) ptype = PartitionType.directory;
if (timePartition.equalsIgnoreCase("file")) ptype = PartitionType.file;
}
this.useIndexOnly = useIndexOnlyS != null && useIndexOnlyS.equalsIgnoreCase("true");
this.innerNcml = innerNcml;
}
public boolean isTrigggerOk() {
if (updateConfig.triggerOk) return true;
return (tdmConfig != null) && tdmConfig.triggerOk;
}
@Override
public String toString() {
Formatter f = new Formatter();
f.format("FeatureCollectionConfig name ='%s' type='%s'%n", name, type);
f.format(" spec='%s'%n", spec);
if (dateFormatMark != null)
f.format(" dateFormatMark ='%s'%n", dateFormatMark);
if (olderThan != null)
f.format(" olderThan =%s%n", olderThan);
f.format(" timePartition =%s%n", ptype);
if (updateConfig != null)
f.format(" updateConfig =%s%n", updateConfig);
if (tdmConfig != null)
f.format(" tdmConfig =%s%n", tdmConfig);
if (protoConfig != null)
f.format(" %s%n", protoConfig);
f.format(" hasInnerNcml =%s%n", innerNcml != null);
if (type != null) {
switch (type) {
case GRIB1:
case GRIB2:
f.format(" %s%n", gribConfig);
break;
case FMRC:
f.format(" fmrcConfig =%s%n", fmrcConfig);
break;
case Point:
case Station:
case Station_Profile:
f.format(" pointConfig =%s%n", pointConfig);
break;
}
}
return f.toString();
}
// finished reading - do anything needed
public void finish() {
// if tdm element was not specified, default is test
if (!tdmConfig.userDefined) tdmConfig.updateType = CollectionUpdateType.test;
/* if tdm was specified, turn off tds updating
if (tdmConfig.userDefined && tdmConfig.updateType != CollectionUpdateType.never) {
// if tdm is working, tds is not allowed to update
updateConfig.updateType = CollectionUpdateType.never;
} else */
// if update element was not specified, default is test
if (!updateConfig.userDefined) {
// if tdm is not working, default tds is to update on startup
updateConfig.updateType = CollectionUpdateType.test;
}
// startupType allows override on tdm command line
updateConfig.startupType = updateConfig.updateType;
tdmConfig.startupType = tdmConfig.updateType;
}
//
static public class UpdateConfig {
public String recheckAfter; // used by non-GRIB FC
public String rescan;
public boolean triggerOk = true;
public boolean userDefined = false;
public CollectionUpdateType startupType = CollectionUpdateType.never;
public CollectionUpdateType updateType = CollectionUpdateType.never;
public String deleteAfter = null; // not implemented yet
public UpdateConfig() { // defaults
}
public UpdateConfig(String startupS, String rewriteS, String recheckAfter, String rescan, String triggerS, String deleteAfter) {
this.rescan = rescan; // may be null
if (recheckAfter != null) this.recheckAfter = recheckAfter; // in case it was set in collection element
if (rescan != null) this.recheckAfter = null; // both not allowed
this.deleteAfter = deleteAfter; // may be null
if (triggerS != null)
this.triggerOk = triggerS.equalsIgnoreCase("allow");
// rewrite superceeds startup
if (rewriteS == null) rewriteS = startupS;
if (rewriteS != null) {
rewriteS = rewriteS.toLowerCase();
if (rewriteS.equalsIgnoreCase("true"))
this.updateType = CollectionUpdateType.test;
else try {
this.updateType = CollectionUpdateType.valueOf(rewriteS);
} catch (Throwable t) {
log.error("Bad updateType= {} in {}", rewriteS);
}
// user has placed an update/tdm element in the catalog
userDefined = true;
}
}
@Override
public String toString() {
return "UpdateConfig{" +
"userDefined=" + userDefined +
", recheckAfter='" + recheckAfter + '\'' +
", rescan='" + rescan + '\'' +
", triggerOk=" + triggerOk +
", updateType=" + updateType +
'}';
}
}
//
static public class ProtoConfig {
public ProtoChoice choice = ProtoChoice.Penultimate;
public String param = null;
public String change = null;
public Element outerNcml = null;
public boolean cacheAll = true;
public ProtoConfig() { // defaults
}
public ProtoConfig(String choice, String change, String param, Element ncml) {
if (choice != null) {
try {
this.choice = ProtoChoice.valueOf(choice);
} catch (Exception e) {
log.warn("Dont recognize ProtoChoice " + choice);
}
}
this.change = change;
this.param = param;
this.outerNcml = ncml;
}
@Override
public String toString() {
return "ProtoConfig{" +
"choice=" + choice +
", change='" + change + '\'' +
", param='" + param + '\'' +
", outerNcml='" + outerNcml + '\'' +
", cacheAll=" + cacheAll +
'}';
}
}
static private Set defaultFmrcDatasetTypes =
Collections.unmodifiableSet(EnumSet.of(FmrcDatasetType.TwoD, FmrcDatasetType.Best, FmrcDatasetType.Files, FmrcDatasetType.Runs));
static public class FmrcConfig {
public boolean regularize = regularizeDefault;
public Set datasets = defaultFmrcDatasetTypes;
private boolean explicit = false;
private List bestDatasets = null;
public FmrcConfig() { // defaults
}
public FmrcConfig(String regularize) {
this.regularize = (regularize != null) && (regularize.equalsIgnoreCase("true"));
}
public void addDatasetType(String datasetTypes) {
// if they list datasetType explicitly, remove defaults
if (!explicit) datasets = EnumSet.noneOf(FmrcDatasetType.class);
explicit = true;
String[] types = StringUtil2.splitString(datasetTypes);
for (String type : types) {
try {
FmrcDatasetType fdt = FmrcDatasetType.valueOf(type);
datasets.add(fdt);
} catch (Exception e) {
log.warn("Dont recognize FmrcDatasetType " + type);
}
}
}
public void addBestDataset(String name, double greaterEqual) {
if (bestDatasets == null) bestDatasets = new ArrayList<>(2);
bestDatasets.add(new BestDataset(name, greaterEqual));
}
public List getBestDatasets() {
return bestDatasets;
}
@Override
public String toString() {
Formatter f = new Formatter();
f.format("FmrcConfig: regularize=%s datasetTypes=%s", regularize, datasets);
if (bestDatasets != null)
for (BestDataset bd : bestDatasets)
f.format("best = (%s, %f) ", bd.name, bd.greaterThan);
return f.toString();
}
}
static public class BestDataset {
public String name;
public double greaterThan;
public BestDataset(String name, double greaterThan) {
this.name = name;
this.greaterThan = greaterThan;
}
}
static private Set defaultPointDatasetTypes =
Collections.unmodifiableSet(EnumSet.of(PointDatasetType.cdmrFeature, PointDatasetType.Files));
static public class PointConfig {
public Set datasets = defaultPointDatasetTypes;
protected boolean explicit = false;
public PointConfig() { // defaults
}
public void addDatasetType(String datasetTypes) {
// if they list datasetType explicitly, remove defaults
if (!explicit) datasets = EnumSet.noneOf(PointDatasetType.class);
explicit = true;
String[] types = StringUtil2.splitString(datasetTypes);
for (String type : types) {
try {
PointDatasetType fdt = PointDatasetType.valueOf(type);
datasets.add(fdt);
} catch (Exception e) {
log.warn("Dont recognize PointDatasetType " + type);
}
}
}
@Override
public String toString() {
Formatter f = new Formatter();
f.format("PointConfig: datasetTypes=%s", datasets);
return f.toString();
}
}
static private Set defaultGribDatasetTypes =
Collections.unmodifiableSet(EnumSet.of(GribDatasetType.TwoD, GribDatasetType.Best, GribDatasetType.Latest));
static public class GribConfig {
public Set datasets = defaultGribDatasetTypes;
public Map gdsNamer; // hash, group name
public Map pdsHash = new HashMap<>(); // featureName, yes/no
public String lookupTablePath, paramTablePath; // user defined tables
public String latestNamer, bestNamer;
public Element paramTable;
public Boolean filesSortIncreasing = true;
public GribIntvFilter intvFilter;
private TimeUnitConverterHash tuc;
private boolean explicitDatasets = false;
private Map gdsHash; // map one gds hash to another
public Map params;
public GribConfig() { // defaults
}
public TimeUnitConverter getTimeUnitConverter() {
return tuc;
}
public void configFromXml(Element configElem, Namespace ns) {
String datasetTypes = configElem.getAttributeValue("datasetTypes");
if (null != datasetTypes)
addDatasetType(datasetTypes);
List gdsElems = configElem.getChildren("gdsHash", ns);
for (Element gds : gdsElems)
addGdsHash(gds.getAttributeValue("from"), gds.getAttributeValue("to"));
List tuElems = configElem.getChildren("timeUnitConvert", ns);
for (Element tu : tuElems)
addTimeUnitConvert(tu.getAttributeValue("from"), tu.getAttributeValue("to"));
gdsElems = configElem.getChildren("gdsName", ns);
for (Element gds : gdsElems)
addGdsName(gds.getAttributeValue("hash"), gds.getAttributeValue("groupName"));
if (configElem.getChild("parameterMap", ns) != null)
paramTable = configElem.getChild("parameterMap", ns);
if (configElem.getChild("gribParameterTable", ns) != null)
paramTablePath = configElem.getChildText("gribParameterTable", ns);
if (configElem.getChild("gribParameterTableLookup", ns) != null)
lookupTablePath = configElem.getChildText("gribParameterTableLookup", ns);
if (configElem.getChild("latestNamer", ns) != null)
latestNamer = configElem.getChild("latestNamer", ns).getAttributeValue("name");
if (configElem.getChild("bestNamer", ns) != null)
bestNamer = configElem.getChild("bestNamer", ns).getAttributeValue("name");
List filesSortElems = configElem.getChildren("filesSort", ns);
if (filesSortElems != null) {
for (Element filesSort : filesSortElems) {
if (filesSort.getChild("lexigraphicByName", ns) != null) {
filesSortIncreasing = Boolean.valueOf(
filesSort.getChild("lexigraphicByName", ns).getAttributeValue("increasing"));
}
}
}
List intvElems = configElem.getChildren("intvFilter", ns);
for (Element intvElem : intvElems) {
if (intvFilter == null) intvFilter = new GribIntvFilter();
String excludeZero = intvElem.getAttributeValue("excludeZero");
if (excludeZero != null) intvFilter.isZeroExcluded = true;
String intvLengthS = intvElem.getAttributeValue("intvLength");
if (intvLengthS == null) continue;
int intvLength = Integer.parseInt(intvLengthS);
List varElems = intvElem.getChildren("variable", ns);
for (Element varElem : varElems) {
intvFilter.addVariable(intvLength, varElem.getAttributeValue("id"), varElem.getAttributeValue("prob"));
}
}
List paramElems = configElem.getChildren("parameter", ns);
for (Element param : paramElems) {
if (params == null) params = new HashMap<>();
String name = param.getAttributeValue("name");
String value = param.getAttributeValue("value");
if (name != null && value != null) params.put(name,value);
}
Element pdsHashElement = configElem.getChild("pdsHash", ns);
readValue(pdsHashElement, "intvMerge", ns, true);
readValue(pdsHashElement, "useGenType", ns, false);
readValue(pdsHashElement, "useTableVersion", ns, true);
}
public void setExcludeZero(boolean val) {
if (intvFilter == null) intvFilter = new GribIntvFilter();
intvFilter.isZeroExcluded = val;
}
public void setIntervalLength(int intvLength, String varId) {
if (intvFilter == null) intvFilter = new GribIntvFilter();
intvFilter.addVariable(intvLength, varId, null);
}
private void readValue(Element pdsHashElement, String key, Namespace ns, boolean value) {
if (pdsHashElement != null) {
Element e = pdsHashElement.getChild(key, ns);
if (e != null) {
value = true; // no value means true
String t = e.getTextNormalize();
if (t != null && t.equalsIgnoreCase("true")) value = true;
if (t != null && t.equalsIgnoreCase("false")) value = false;
}
}
pdsHash.put(key, value);
}
public void addDatasetType(String datasetTypes) {
// if they list datasetType explicitly, remove defaults
if (!explicitDatasets) datasets = EnumSet.noneOf(GribDatasetType.class);
explicitDatasets = true;
String[] types = StringUtil2.splitString(datasetTypes);
for (String type : types) {
try {
GribDatasetType fdt = GribDatasetType.valueOf(type);
if (fdt == GribDatasetType.LatestFile) fdt = GribDatasetType.Latest;
datasets.add(fdt);
} catch (Exception e) {
log.warn("Dont recognize GribDatasetType {}", type);
}
}
}
public boolean hasDatasetType(GribDatasetType type) {
return datasets.contains(type);
}
public void addGdsHash(String fromS, String toS) {
if (fromS == null || toS == null) return;
if (gdsHash == null) gdsHash = new HashMap<>(10);
try {
int from = Integer.parseInt(fromS);
int to = Integer.parseInt(toS);
gdsHash.put(from, to);
} catch (Exception e) {
log.warn("Failed to parse as Integer = {} {}", fromS, toS);
}
}
public void addTimeUnitConvert(String fromS, String toS) {
if (fromS == null || toS == null) return;
if (tuc == null) tuc = new TimeUnitConverterHash();
try {
int from = Integer.parseInt(fromS);
int to = Integer.parseInt(toS);
tuc.map.put(from, to);
} catch (Exception e) {
log.warn("Failed to parse as Integer = {} {}", fromS, toS);
}
}
public void addGdsName(String hashS, String name) {
if (hashS == null || name == null) return;
if (gdsNamer == null) gdsNamer = new HashMap<>(5);
try {
int hash = Integer.parseInt(hashS);
gdsNamer.put(hash, name);
} catch (Exception e) {
log.warn("Failed to parse as Integer = {} {}", hashS, name);
}
}
public String toString2() {
Formatter f = new Formatter();
f.format("GribConfig: datasetTypes=%s", datasets);
return f.toString();
}
@Override
public String toString() {
final StringBuilder sb = new StringBuilder("GribConfig{");
sb.append("datasets=").append(datasets);
if (gdsHash != null) sb.append(", gdsHash=").append(gdsHash);
if (gdsNamer != null) sb.append(", gdsNamer=").append(gdsNamer);
if (pdsHash != null) sb.append(", pdsHash=").append(pdsHash);
if (lookupTablePath != null) sb.append(", lookupTablePath='").append(lookupTablePath).append('\'');
if (paramTablePath != null) sb.append(", paramTablePath='").append(paramTablePath).append('\'');
if (latestNamer != null) sb.append(", latestNamer='").append(latestNamer).append('\'');
if (bestNamer != null) sb.append(", bestNamer='").append(bestNamer).append('\'');
if (paramTable != null) sb.append(", paramTable=").append(paramTable);
if (filesSortIncreasing != null) sb.append(", filesSortIncreasing=").append(filesSortIncreasing);
if (intvFilter != null) sb.append(", intvFilter=").append(intvFilter);
CalendarPeriod tu = getUserTimeUnit();
if (tu != null) sb.append(", userTimeUnit='").append(tu).append('\'');
sb.append('}');
return sb.toString();
}
public Object getIospMessage() {
if (lookupTablePath != null) return "gribParameterTableLookup="+lookupTablePath;
if (paramTablePath != null) return "gribParameterTable="+paramTablePath;
return null;
}
public String getParameter(String name) {
if (params == null) return null;
return params.get(name);
}
public CalendarPeriod getUserTimeUnit() {
CalendarPeriod result = null;
String timeUnitS = getParameter("timeUnit");
if (timeUnitS != null) {
result = CalendarPeriod.of(timeUnitS); // eg "10 min" or "minute"
}
return result;
}
public int convertGdsHash(int hashcode) {
if (gdsHash == null) return hashcode;
Integer convertedValue = gdsHash.get(hashcode);
if (convertedValue == null) return hashcode;
return convertedValue;
}
} // GribConfig
static class GribIntvFilterParam {
int id;
int intvLength;
int prob = Integer.MIN_VALUE;
GribIntvFilterParam(int id, int intvLength, int prob) {
this.id = id;
this.intvLength = intvLength;
this.prob = prob;
}
}
static public class GribIntvFilter {
List filter;
boolean isZeroExcluded;
public boolean isZeroExcluded() {
return isZeroExcluded;
}
public boolean hasFilter() {
return (filter != null);
}
/*
*/
// true means use, false means discard
public boolean filterOk(int id, int hasLength, int prob) {
if (filter == null) return true;
if (hasLength == 0 && isZeroExcluded()) return false;
for (GribIntvFilterParam param : filter) {
boolean needProb = (param.prob != Integer.MIN_VALUE); // filter uses prob
boolean hasProb = (prob != Integer.MIN_VALUE); // record has prob
boolean isMine = !needProb || hasProb && (param.prob == prob);
if (param.id == id && isMine) { // first match in the filter list is used
if (param.intvLength != hasLength)
return false; // remove the ones whose intervals dont match
}
}
return true;
}
void addVariable(int intvLength, String idS, String probS) {
if (idS == null) {
log.warn("Error on intvFilter: must have an id attribute");
return;
}
String[] s = idS.split("-");
if (s.length != 3 && s.length != 4) {
log.warn("Error on intvFilter: id attribute must be of format 'discipline-category-number' (GRIB2) or 'center-subcenter-version-param' (GRIB1)");
return;
}
try {
int id;
if (s.length == 3) { // GRIB1
int discipline = Integer.parseInt(s[0]);
int category = Integer.parseInt(s[1]);
int number = Integer.parseInt(s[2]);
id = (discipline << 16) + (category << 8) + number;
} else { // GRIB2
int center = Integer.parseInt(s[0]);
int subcenter = Integer.parseInt(s[1]);
int version = Integer.parseInt(s[2]);
int param = Integer.parseInt(s[3]);
id = (center << 8) + (subcenter << 16) + (version << 24) + param;
}
int prob = (probS == null) ? Integer.MIN_VALUE : Integer.parseInt(probS);
if (filter == null) filter = new ArrayList<>(10);
filter.add(new GribIntvFilterParam(id, intvLength, prob));
} catch (NumberFormatException e) {
log.info("Error on intvFilter element - attribute must be an integer");
}
}
}
private static class TimeUnitConverterHash implements TimeUnitConverter {
Map map = new HashMap<>(5);
public int convertTimeUnit(int timeUnit) {
if (map == null) return timeUnit;
Integer convert = map.get(timeUnit);
return (convert == null) ? timeUnit : convert;
}
}
}
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