ucar.nc2.rewrite.Rewrite Maven / Gradle / Ivy
Go to download
Show more of this group Show more artifacts with this name
Show all versions of netcdf Show documentation
Show all versions of netcdf Show documentation
The NetCDF-Java Library is a Java interface to NetCDF files,
as well as to many other types of scientific data formats.
The newest version!
/*
* Copyright 1998-2013 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 ucar.nc2.rewrite;
import ucar.ma2.*;
import ucar.nc2.*;
import ucar.nc2.jni.netcdf.Nc4Iosp;
import java.io.File;
import java.io.IOException;
import java.util.List;
/**
* Class Description.
*
* @author caron
* @since 4/8/13
*/
public class Rewrite {
NetcdfFile ncIn;
NetcdfFileWriter ncOut;
NetcdfFileWriter.Version version;
boolean isRadial = false;
public Rewrite(NetcdfFile ncIn, NetcdfFileWriter ncOut) {
this.ncIn = ncIn;
this.ncOut = ncOut;
this.version = ncOut.getVersion();
}
public void rewrite() throws IOException, InvalidRangeException {
Attribute attr = ncIn.getRootGroup().findAttribute("featureType");
if(attr.getStringValue().contains("RADIAL"))
isRadial = true;
createGroup(null, ncIn.getRootGroup());
ncOut.create();
transferData(ncIn.getRootGroup());
ncOut.close();
}
private int anon = 0;
void createGroup(Group newParent, Group oldGroup) throws IOException, InvalidRangeException {
Group newGroup = ncOut.addGroup(newParent, oldGroup.getShortName());
for (Attribute att : oldGroup.getAttributes())
newGroup.addAttribute(att);
for (Dimension dim : oldGroup.getDimensions()) {
ncOut.addDimension(newGroup, dim.getShortName(), dim.getLength(), true, dim.isUnlimited(), dim.isVariableLength());
}
for (Variable v : oldGroup.getVariables()) {
List dims = v.getDimensions();
// all dimensions must be shared (!)
for (Dimension dim : dims) {
if (!dim.isShared()) {
dim.setName("anon"+anon);
dim.setShared(true);
anon++;
ncOut.addDimension(newGroup, dim.getShortName(), dim.getLength(), true, dim.isUnlimited(), dim.isVariableLength());
}
}
Variable nv;
if (!isRadial && v.getRank() >= 3) { // make first dimension last
StringBuilder sb = new StringBuilder();
for (int i=1; i= 3) {
invertOneVar(v);
} else {
System.out.printf("write %s%n",v.getNameAndDimensions());
Array data = v.read();
Variable nv = ncOut.findVariable(v.getFullName());
ncOut.write(nv, data);
}
}
// recurse
for (Group g : oldGroup.getGroups())
transferData( g);
}
// turn var(nt, any..) into newvar(any.., nt)
void invertOneVar(Variable oldVar) throws IOException, InvalidRangeException {
System.out.printf("invertOneVar %s%n",oldVar.getNameAndDimensions());
int rank = oldVar.getRank();
int[] origin = new int[rank];
int[] shape = oldVar.getShape(); // old Shape
Variable nv = ncOut.findVariable(oldVar.getFullName());
Cache cache = new Cache(shape, nv.getShape(), oldVar.getDataType());
int nt = shape[0];
for (int k=0; k