//
// NetCDFServiceTest.java
//
/*
OME Bio-Formats package for reading and converting biological file formats.
Copyright (C) 2005-@year@ UW-Madison LOCI and Glencoe Software, Inc.
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., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*/
package loci.formats.utests;
import static org.testng.AssertJUnit.assertEquals;
import java.io.File;
import java.io.IOException;
import java.net.URL;
import java.util.Arrays;
import java.util.Hashtable;
import java.util.Vector;
import loci.common.services.DependencyException;
import loci.common.services.ServiceFactory;
import loci.formats.services.NetCDFService;
import org.testng.annotations.BeforeMethod;
import org.testng.annotations.Test;
/**
* <dl><dt><b>Source code:</b></dt>
* <dd><a href="http://trac.openmicroscopy.org.uk/ome/browser/bioformats.git/components/bio-formats/test/loci/formats/utests/NetCDFServiceTest.java">Trac</a>,
* <a href="http://git.openmicroscopy.org/?p=bioformats.git;a=blob;f=components/bio-formats/test/loci/formats/utests/NetCDFServiceTest.java;hb=HEAD">Gitweb</a></dd></dl>
*
* @author Chris Allan <callan at blackcat dot ca>
*/
public class NetCDFServiceTest {
// The test file is 'C1979091.h5' from:
// http://www.hdfgroup.org/training/other-ex5/sample-programs/convert/Conversion.html
private static final String TEST_FILE = "test.h5";
private static final String[][] ATTRIBUTES = new String[][] {
{"/Product_Name_GLOSDS", "C19790911979120.L3_BRS_MO"},
{"/Title_GLOSDS", "CZCS Level-3 Browse Data"},
{"/Data_Center_GLOSDS", "NASA/GSFC DAAC"},
{"/Mission_GLOSDS", "Nimbus CZCS"},
{"/Mission_Characteristics_GLOSDS",
"Nominal orbit: inclination = 99.3 (Sun-synchronous); node = 11:52 " +
"a.m. local (ascending); eccentricity = <0.0009; altitude = 955 km; " +
"ground speed = 6.4km/sec"},
{"/Sensor_GLOSDS", "Coastal Zone Color Scanner (CZCS)"},
{"/Sensor_Characteristics_GLOSDS",
"Number of bands = 6; number of active bands = 6; wavelengths per " +
"band (nm)= 443, 520, 550, 670, 750, 11500; bits per pixel = 8; " +
"instantaneous field-of-view = .865 mrad; pixels per scan = 492; " +
"scan rate = 8.08/sec; sample rate =3975/sec"},
{"/Replacement_Flag_GLOSDS", "ORIGINAL"},
{"/Software_ID_GLOSDS", "L3bin2hdf.c_v.1"},
{"/Processing_Time_GLOSDS", "1995200120000000"},
{"/Input_Files_GLOSDS", "c79120.Chlor.bin.mean"},
{"/Processing_Control_GLOSDS", "L3bin2hdf L3.info L3.input"},
{"/Processing_Log_GLOSDS", "L3bin2hdf_history"},
{"/Parent_Input_Files_GLOSDS", "c79120.Chlor.bin.mean"},
{"/Product_Type_GLOSDS", "month"},
{"/Station_Name_GLOSDS", "Wallops Flight Facility"},
{"/Station_Latitude_GLOSDS", "37.9272"},
{"/Station_Longitude_GLOSDS", "-75.4753"},
{"/Data_Type_GLOSDS", "GAC"},
{"/Parent_Number_of_Lines_GLOSDS", "1024"},
{"/Parent_Number_of_Columns_GLOSDS", "2048"},
{"/Period_Start_Year_GLOSDS", "1979"},
{"/Period_Start_Day_GLOSDS", "91"},
{"/Period_End_Year_GLOSDS", "1979"},
{"/Period_End_Day_GLOSDS", "120"},
{"/Start_Time_GLOSDS", "1979091000000000"},
{"/End_Time_GLOSDS", "1979120235959999"},
{"/Start_Year_GLOSDS", "1979"},
{"/Start_Day_GLOSDS", "91"},
{"/Start_Millisec_GLOSDS", "0"},
{"/End_Year_GLOSDS", "1979"},
{"/End_Day_GLOSDS", "120"},
{"/End_Millisec_GLOSDS", "86400000"},
{"/Map_Projection_GLOSDS", "Equidistant Cylindrical"},
{"/Latitude_Units_GLOSDS", "degrees North"},
{"/Longitude_Units_GLOSDS", "degrees East"},
{"/Northernmost_Latitude_GLOSDS", "90.0"},
{"/Southernmost_Latitude_GLOSDS", "-90.0"},
{"/Westernmost_Longitude_GLOSDS", "-180.0"},
{"/Easternmost_Longitude_GLOSDS", "180.0"},
{"/Parameter_GLOSDS", "Chlorophyll a concentration"},
{"/Measure_GLOSDS", "Mean"},
{"/Units_GLOSDS", "mg m^-3"},
{"/Start_Column_GLOSDS", "1"},
{"/Column_Subsampling_Rate_GLOSDS", "6"},
{"/Number_of_Columns_GLOSDS", "360"},
{"/Start_Line_GLOSDS", "1"},
{"/Line_Subsampling_Rate_GLOSDS", "6"},
{"/Number_of_Lines_GLOSDS", "180"},
{"/Scaling_GLOSDS", "logarithmic"},
{"/Scaling_Equation_GLOSDS",
"Base**((Slope*brs_data) + Intercept) = chlorophyll a"},
{"/Base_GLOSDS", "10.0"},
{"/Slope_GLOSDS", "0.012"},
{"/Intercept_GLOSDS", "-1.4"},
{"/HDF4_FILE_LABEL_0", "CZCS Level 3 GAC Browse Data for April, 1979"}
};
private static final String[][][] VARS = new String[][][] {
{
{"CLASS", "PALETTE"},
{"HDF4_OBJECT_TYPE", "palette"},
{"HDF4_REF_NUM", "2"},
{"PAL_COLORMODEL", "RGB"},
{"PAL_TYPE", "STANDARD8"},
{"PAL_VERSION", "1.2"},
{"_lastModified", "2003-07-09T18:33:39Z"},
{"_unsigned", "true"},
},
{
{"CLASS", "IMAGE"},
{"HDF4_IMAGE_LABEL_0", "brs_data"},
{"HDF4_OBJECT_NAME", "Raster Image #0"},
{"HDF4_OBJECT_TYPE", "raster8"},
{"HDF4_PALETTE_LIST", "/HDF4_PALGROUP/HDF4_PALETTE_2"},
{"HDF4_REF_NUM", "2"},
{"IMAGE_SUBCLASS", "IMAGE_INDEXED"},
{"IMAGE_VERSION", "1.2"},
{"PALETTE", "1680"},
{"_lastModified", "2003-07-09T18:33:39Z"},
{"_unsigned", "true"},
}
};
private NetCDFService service;
@BeforeMethod
public void setUp() throws DependencyException, IOException {
ServiceFactory sf = new ServiceFactory();
service = sf.getInstance(NetCDFService.class);
URL file = NetCDFServiceTest.class.getResource(TEST_FILE);
service.setFile(file.getPath());
}
@Test
public void testGetFile() {
assertEquals(TEST_FILE, new File(service.getFile()).getName());
}
@Test
public void testAttributes() {
Vector<String> attributes = service.getAttributeList();
assertEquals(attributes.size(), ATTRIBUTES.length);
for (int i=0; i<attributes.size(); i++) {
String attribute = attributes.get(i);
assertEquals(attribute, ATTRIBUTES[i][0]);
assertEquals(service.getAttributeValue(attribute), ATTRIBUTES[i][1]);
}
}
@Test
public void testVariables() {
Vector<String> variables = service.getVariableList();
assertEquals(variables.size(), 2);
assertEquals(variables.get(0), "/Raster_Image_0");
assertEquals(variables.get(1), "/HDF4_PALGROUP/HDF4_PALETTE_2");
Hashtable<String, Object> var1 =
service.getVariableAttributes("/HDF4_PALGROUP/HDF4_PALETTE_2");
Hashtable<String, Object> var2 =
service.getVariableAttributes("/Raster_Image_0");
assertEquals(var1.size(), VARS[0].length);
assertEquals(var2.size(), VARS[1].length);
String[] keys = var1.keySet().toArray(new String[var1.size()]);
Arrays.sort(keys);
for (int i=0; i<keys.length; i++) {
assertEquals(keys[i], VARS[0][i][0]);
assertEquals(var1.get(keys[i]), VARS[0][i][1]);
}
keys = var2.keySet().toArray(new String[var2.size()]);
Arrays.sort(keys);
for (int i=0; i<keys.length; i++) {
assertEquals(keys[i], VARS[1][i][0]);
assertEquals(var2.get(keys[i]), VARS[1][i][1]);
}
}
}