def test_groups(self): f = cfdm.example_field(1) ungrouped_file = ungrouped_file1 grouped_file = grouped_file1 # Add a second grid mapping datum = cfdm.Datum(parameters={'earth_radius': 7000000}) conversion = cfdm.CoordinateConversion( parameters={'grid_mapping_name': 'latitude_longitude'}) grid = cfdm.CoordinateReference( coordinate_conversion=conversion, datum=datum, coordinates=['auxiliarycoordinate0', 'auxiliarycoordinate1']) f.set_construct(grid) grid0 = f.construct('grid_mapping_name:rotated_latitude_longitude') grid0.del_coordinate('auxiliarycoordinate0') grid0.del_coordinate('auxiliarycoordinate1') cfdm.write(f, ungrouped_file) g = cfdm.read(ungrouped_file, verbose=1) self.assertEqual(len(g), 1) g = g[0] self.assertTrue(f.equals(g, verbose=2)) # ------------------------------------------------------------ # Move the field construct to the /forecast/model group # ------------------------------------------------------------ g.nc_set_variable_groups(['forecast', 'model']) cfdm.write(g, grouped_file) nc = netCDF4.Dataset(grouped_file, 'r') self.assertIn(f.nc_get_variable(), nc.groups['forecast'].groups['model'].variables) nc.close() h = cfdm.read(grouped_file, verbose=1) self.assertEqual(len(h), 1, repr(h)) self.assertTrue(f.equals(h[0], verbose=2)) # ------------------------------------------------------------ # Move constructs one by one to the /forecast group. The order # in which we do this matters! # ------------------------------------------------------------ for name in ( 'longitude', # Auxiliary coordinate 'latitude', # Auxiliary coordinate 'long_name=Grid latitude name', # Auxiliary coordinate 'measure:area', # Cell measure 'surface_altitude', # Domain ancillary 'air_temperature standard_error', # Field ancillary 'grid_mapping_name:rotated_latitude_longitude', 'time', # Dimension coordinate 'grid_latitude', # Dimension coordinate ): g.construct(name).nc_set_variable_groups(['forecast']) cfdm.write(g, grouped_file, verbose=1) # Check that the variable is in the right group nc = netCDF4.Dataset(grouped_file, 'r') self.assertIn( f.construct(name).nc_get_variable(), nc.groups['forecast'].variables) nc.close() # Check that the field construct hasn't changed h = cfdm.read(grouped_file, verbose=1) self.assertEqual(len(h), 1, repr(h)) self.assertTrue(f.equals(h[0], verbose=2), name) # ------------------------------------------------------------ # Move bounds to the /forecast group # ------------------------------------------------------------ name = 'grid_latitude' g.construct(name).bounds.nc_set_variable_groups(['forecast']) cfdm.write(g, grouped_file) nc = netCDF4.Dataset(grouped_file, 'r') self.assertIn( f.construct(name).bounds.nc_get_variable(), nc.groups['forecast'].variables) nc.close() h = cfdm.read(grouped_file, verbose='WARNING') self.assertEqual(len(h), 1, repr(h)) self.assertTrue(f.equals(h[0], verbose=2))
def test_groups(self): """TODO DOCS.""" f = cfdm.example_field(1) ungrouped_file = ungrouped_file1 grouped_file = grouped_file1 # Add a second grid mapping datum = cfdm.Datum(parameters={"earth_radius": 7000000}) conversion = cfdm.CoordinateConversion( parameters={"grid_mapping_name": "latitude_longitude"} ) grid = cfdm.CoordinateReference( coordinate_conversion=conversion, datum=datum, coordinates=["auxiliarycoordinate0", "auxiliarycoordinate1"], ) f.set_construct(grid) grid0 = f.construct("grid_mapping_name:rotated_latitude_longitude") grid0.del_coordinate("auxiliarycoordinate0") grid0.del_coordinate("auxiliarycoordinate1") cfdm.write(f, ungrouped_file) g = cfdm.read(ungrouped_file, verbose=1) self.assertEqual(len(g), 1) g = g[0] self.assertTrue(f.equals(g, verbose=2)) # ------------------------------------------------------------ # Move the field construct to the /forecast/model group # ------------------------------------------------------------ g.nc_set_variable_groups(["forecast", "model"]) cfdm.write(g, grouped_file) nc = netCDF4.Dataset(grouped_file, "r") self.assertIn( f.nc_get_variable(), nc.groups["forecast"].groups["model"].variables, ) nc.close() h = cfdm.read(grouped_file, verbose=1) self.assertEqual(len(h), 1, repr(h)) self.assertTrue(f.equals(h[0], verbose=2)) # ------------------------------------------------------------ # Move constructs one by one to the /forecast group. The order # in which we do this matters! # ------------------------------------------------------------ for name in ( "longitude", # Auxiliary coordinate "latitude", # Auxiliary coordinate "long_name=Grid latitude name", # Auxiliary coordinate "measure:area", # Cell measure "surface_altitude", # Domain ancillary "air_temperature standard_error", # Field ancillary "grid_mapping_name:rotated_latitude_longitude", "time", # Dimension coordinate "grid_latitude", # Dimension coordinate ): g.construct(name).nc_set_variable_groups(["forecast"]) cfdm.write(g, grouped_file, verbose=1) # Check that the variable is in the right group nc = netCDF4.Dataset(grouped_file, "r") self.assertIn( f.construct(name).nc_get_variable(), nc.groups["forecast"].variables, ) nc.close() # Check that the field construct hasn't changed h = cfdm.read(grouped_file, verbose=1) self.assertEqual(len(h), 1, repr(h)) self.assertTrue(f.equals(h[0], verbose=2), name) # ------------------------------------------------------------ # Move bounds to the /forecast group # ------------------------------------------------------------ name = "grid_latitude" g.construct(name).bounds.nc_set_variable_groups(["forecast"]) cfdm.write(g, grouped_file) nc = netCDF4.Dataset(grouped_file, "r") self.assertIn( f.construct(name).bounds.nc_get_variable(), nc.groups["forecast"].variables, ) nc.close() h = cfdm.read(grouped_file, verbose="WARNING") self.assertEqual(len(h), 1, repr(h)) self.assertTrue(f.equals(h[0], verbose=2))
'grid_north_pole_longitude': 190.0}) # Create the coordinate conversion for the vertical coordinate # reference construct coordinate_conversion_v = cfdm.CoordinateConversion( parameters={'standard_name': 'atmosphere_hybrid_height_coordinate', 'computed_standard_name': 'altitude'}, domain_ancillaries={'a': domain_anc_A, 'b': domain_anc_B, 'orog': domain_anc_OROG}) # Create the vertical coordinate reference construct horizontal_crs = cfdm.CoordinateReference( datum=datum, coordinate_conversion=coordinate_conversion_h, coordinates=[dim_X, dim_Y, aux_LAT, aux_LON]) # Create the vertical coordinate reference construct vertical_crs = cfdm.CoordinateReference( datum=datum, coordinate_conversion=coordinate_conversion_v, coordinates=[dim_Z]) # Set the coordinate reference constructs tas.set_construct(horizontal_crs) tas.set_construct(vertical_crs) # Create and set the cell measure constructs
def test_CoordinateReference_equals(self): """Test the equality-testing CoordinateReference method.""" # Create a vertical grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=("coord1", ), coordinate_conversion=cfdm.CoordinateConversion( parameters={ "standard_name": "atmosphere_hybrid_height_coordinate" }, domain_ancillaries={ "a": "aux0", "b": "aux1", "orog": "orog" }, ), ) self.assertTrue(t.equals(t.copy(), verbose=3)) # Create a horizontal grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=["coord1", "fred", "coord3"], coordinate_conversion=cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "rotated_latitude_longitude", "grid_north_pole_latitude": 38.0, "grid_north_pole_longitude": 190.0, }), ) self.assertTrue(t.equals(t.copy(), verbose=3)) datum = cfdm.Datum(parameters={"earth_radius": 6371007}) conversion = cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "rotated_latitude_longitude", "grid_north_pole_latitude": 38.0, "grid_north_pole_longitude": 190.0, }) t = cfdm.CoordinateReference( coordinate_conversion=conversion, datum=datum, coordinates=["x", "y", "lat", "lon"], ) self.assertTrue(t.equals(t.copy(), verbose=3)) # Create a horizontal grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=["coord1", "fred", "coord3"], coordinate_conversion=cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "albers_conical_equal_area", "standard_parallel": [-30, 10], "longitude_of_projection_origin": 34.8, "false_easting": -20000, "false_northing": -30000, }), ) self.assertTrue(t.equals(t.copy(), verbose=3)) # Create a horizontal grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=["coord1", "fred", "coord3"], coordinate_conversion=cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "albers_conical_equal_area", "standard_parallel": cfdm.Data([-30, 10]), "longitude_of_projection_origin": 34.8, "false_easting": -20000, "false_northing": -30000, }), ) self.assertTrue(t.equals(t.copy(), verbose=3))
'b': domain_anc_B, 'orog': domain_anc_OROG }) # Create the vertical coordinate reference construct ##horizontal_crs = cfdm.CoordinateReference( ##datum=datum, ##coordinate_conversion=coordinate_conversion_h, ##coordinates=[dim_X, ##dim_Y, ##aux_LAT, ##aux_LON]) # Create the vertical coordinate reference construct vertical_crs = cfdm.CoordinateReference( datum=datum, coordinate_conversion=coordinate_conversion_v, coordinates=[dim_Z]) # Set the coordinate reference constructs #tas.set_construct(horizontal_crs) tas.set_construct(vertical_crs) # Create and set the cell measure constructs cell_measure = cfdm.CellMeasure(measure='area', properties={'units': 'km2'}, data=cfdm.Data( numpy.arange(90.).reshape(9, 10))) tas.set_construct(cell_measure, axes=[axis_X, axis_Y]) print(tas)
def test_create_field_2(self): """Test ab initio creation of a second variation of field.""" # Dimension coordinates dim1 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.arange(10.0))) dim1.set_property("standard_name", "projection_y_coordinate") dim1.set_property("units", "m") data = numpy.arange(9.0) + 20 data[-1] = 34 dim0 = cfdm.DimensionCoordinate(data=cfdm.Data(data)) dim0.set_property("standard_name", "projection_x_coordinate") dim0.set_property("units", "m") array = dim0.data.array array = numpy.array([array - 0.5, array + 0.5]).transpose((1, 0)) array[-2, 1] = 30 array[-1, :] = [30, 36] dim0.set_bounds(cfdm.Bounds(data=cfdm.Data(array))) dim2 = cfdm.DimensionCoordinate( data=cfdm.Data([1.5]), bounds=cfdm.Bounds(data=cfdm.Data([[1, 2.0]])), ) dim2.set_property( "standard_name", "atmosphere_hybrid_height_coordinate" ) # Auxiliary coordinates aux2 = cfdm.AuxiliaryCoordinate( data=cfdm.Data(numpy.arange(-45, 45, dtype="int32").reshape(10, 9)) ) aux2.set_property("units", "degree_N") aux2.set_property("standard_name", "latitude") aux3 = cfdm.AuxiliaryCoordinate( data=cfdm.Data(numpy.arange(60, 150, dtype="int32").reshape(9, 10)) ) aux3.set_property("standard_name", "longitude") aux3.set_property("units", "degreeE") array = numpy.ma.array( [ "alpha", "beta", "gamma", "delta", "epsilon", "zeta", "eta", "theta", "iota", "kappa", ], dtype="S", ) array[0] = numpy.ma.masked aux4 = cfdm.AuxiliaryCoordinate(data=cfdm.Data(array)) aux4.set_property("standard_name", "greek_letters") # Domain ancillaries ak = cfdm.DomainAncillary(data=cfdm.Data([10.0])) ak.set_property("units", "m") ak.set_bounds(cfdm.Bounds(data=cfdm.Data([[5, 15.0]]))) bk = cfdm.DomainAncillary(data=cfdm.Data([20.0])) bk.set_bounds(cfdm.Bounds(data=cfdm.Data([[14, 26.0]]))) # Cell measures msr0 = cfdm.CellMeasure( data=cfdm.Data(1 + numpy.arange(90.0).reshape(9, 10) * 1234) ) msr0.set_measure("area") msr0.set_property("units", "km2") # Data data = cfdm.Data(numpy.arange(90.0).reshape(10, 9)) properties = {"units": "m s-1"} f = cfdm.Field(properties=properties) f.set_property("standard_name", "eastward_wind") axisX = f.set_construct(cfdm.DomainAxis(9)) axisY = f.set_construct(cfdm.DomainAxis(10)) axisZ = f.set_construct(cfdm.DomainAxis(1)) f.set_data(data, axes=[axisY, axisX]) x = f.set_construct(dim0, axes=[axisX]) y = f.set_construct(dim1, axes=[axisY]) z = f.set_construct(dim2, axes=[axisZ]) lat = f.set_construct(aux2, axes=[axisY, axisX]) lon = f.set_construct(aux3, axes=[axisX, axisY]) f.set_construct(aux4, axes=[axisY]) ak = f.set_construct(ak, axes=[axisZ]) bk = f.set_construct(bk, axes=[axisZ]) # Coordinate references coordinate_conversion = cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "transverse_mercator", "latitude_of_projection_origin": 49.0, "longitude_of_central_meridian": -2.0, "scale_factor_at_central_meridian": 0.9996012717, "false_easting": 400000.0, "false_northing": -100000.0, "unit": "metre", } ) datum0 = cfdm.Datum( parameters={ "inverse_flattening": 299.3249646, "longitude_of_prime_meridian": 0.0, "semi_major_axis": 6377563.396, } ) ref0 = cfdm.CoordinateReference( coordinates=[x, y], datum=datum0, coordinate_conversion=coordinate_conversion, ) coordinate_conversion = cfdm.CoordinateConversion( parameters={"grid_mapping_name": "latitude_longitude"} ) datum2 = cfdm.Datum( parameters={ "longitude_of_prime_meridian": 0.0, "semi_major_axis": 6378137.0, "inverse_flattening": 298.257223563, } ) ref2 = cfdm.CoordinateReference( coordinates=[lat, lon], datum=datum2, coordinate_conversion=coordinate_conversion, ) f.set_construct(msr0, axes=[axisX, axisY]) f.set_construct(ref0) f.set_construct(ref2) orog = cfdm.DomainAncillary(data=f.get_data()) orog.set_property("standard_name", "surface_altitude") orog.set_property("units", "m") orog = f.set_construct(orog, axes=[axisY, axisX]) coordinate_conversion = cfdm.CoordinateConversion( parameters={ "standard_name": "atmosphere_hybrid_height_coordinate" }, domain_ancillaries={"orog": orog, "a": ak, "b": bk}, ) ref1 = cfdm.CoordinateReference( coordinates=[z], datum=datum0, coordinate_conversion=coordinate_conversion, ) f.set_construct(ref1) # Field ancillary variables g = f.copy() anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = "ancillaryA" f.set_construct(anc, axes=[axisY, axisX]) g = f[0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = "ancillaryB" f.set_construct(anc, axes=[axisX]) g = f[..., 0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = "ancillaryC" f.set_construct(anc, axes=[axisY]) f.set_property("flag_values", numpy.array([1, 2, 4], "int32")) f.set_property("flag_meanings", "a bb ccc") f.set_property("flag_masks", [2, 1, 0]) cm0 = cfdm.CellMethod( axes=[axisX], method="mean", qualifiers={"interval": [cfdm.Data(1, "day")], "comment": "ok"}, ) cm1 = cfdm.CellMethod( axes=[axisY], method="maximum", qualifiers={"where": "sea"} ) f.set_construct(cm0) f.set_construct(cm1) self.assertTrue( f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself", ) for fmt in ( "NETCDF3_CLASSIC", "NETCDF3_64BIT", "NETCDF4", "NETCDF4_CLASSIC", ): cfdm.write(f, self.filename, fmt=fmt, verbose=verbose) g = cfdm.read(self.filename, verbose=verbose) self.assertEqual(len(g), 1, f"{len(g)} != 1") g = g[0].squeeze() self.assertEqual( sorted(f.constructs), sorted(g.constructs), f"\n\nf (created in memory)" f"\n{f.constructs}" f"\n\n{f.constructs.items()}" f"\n\ng (read from disk)" f"\n{g.constructs}" f"\n\n{g.constructs.items()}", ) self.assertTrue( g.equals(g.copy(), verbose=verbose), "Field g not equal to a copy of itself", ) self.assertTrue( g.equals(f, verbose=verbose), "Field not equal to itself read back in", ) x = g.dump(display=False) x = f.dump(display=False) g = cfdm.read( self.filename, verbose=verbose, extra=["domain_ancillary"], warnings=warnings, )
def set(self, f): zdcc = self.ancestor.constructs()[self.zdc] try: zaxn = zdcc.nc_get_variable() except: print(dir(zaxc)) raise dc = dict() vname = f.nc_get_variable() for x, this in self.pp.items(): properties = this['properties'] if 'long_name' in properties and properties[ 'long_name'].find('%s') != -1: properties[ 'long_name'] = properties['long_name'] % zaxn domain_ancillary = cfdm.DomainAncillary( properties=this['properties'], data=cfdm.Data(this['data'])) if 'label' in this: domain_ancillary.nc_set_variable(this['label']) if x in self.zarray: dom_construct = f.set_construct( domain_ancillary, axes=[ self.parent_info['z_axis'], ]) else: dom_construct = f.set_construct( domain_ancillary, axes=self.parent_info['other_axes']) dc[x] = dom_construct # Create the datum for the coordinate reference constructs datum = cfdm.Datum(parameters={'earth_radius': 6371007.}) # Set the netCDF name for a grid mapping variable that might be created from this datum datum.nc_set_variable('datum') print(dc) coordinate_conversion_v = cfdm.CoordinateConversion( parameters={ 'standard_name': self.name, 'computed_standard_name': 'altitude' }, domain_ancillaries=dc) self.coordinate_conversion_v = coordinate_conversion_v datum = cfdm.Datum(parameters={'earth_radius': 6371007.}) ##coordinate_conversion_h = cfdm.CoordinateConversion() ##horizontal_crs = cfdm.CoordinateReference( datum=datum, coordinate_conversion=coordinate_conversion_h, coordinates=[]) vertical_crs = cfdm.CoordinateReference( datum=datum, coordinate_conversion=coordinate_conversion_v, coordinates=[self.parent_info['z_dc']]) ## ## not working ## issue reproduced in ex03 (by deleting horizontal_crs call ## github issue raised in cfdm repo ## ##f.set_construct(horizontal_crs) f.set_construct(vertical_crs)
def test_create_field_3(self): """Test ab initio creation of a third variation of field.""" # Dimension coordinates data = numpy.arange(9.0) + 20 data[-1] = 34 dim0 = cfdm.DimensionCoordinate(data=cfdm.Data(data)) dim0.set_property("standard_name", "grid_longitude") dim0.set_property("units", "degrees") array = dim0.data.array array = numpy.array([array - 0.5, array + 0.5]).transpose((1, 0)) array[-2, 1] = 30 array[-1, :] = [30, 36] dim0.set_bounds(cfdm.Bounds(data=cfdm.Data(array))) dim1 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.arange(10.0))) dim1.set_property("standard_name", "grid_latitude") dim1.set_property("units", "degrees") dim2 = cfdm.DimensionCoordinate( data=cfdm.Data([1.5]), bounds=cfdm.Bounds(data=cfdm.Data([[1, 2.0]])), ) dim2.set_property("standard_name", "atmosphere_hybrid_height_coordinate") dim2.set_property("computed_standard_name", "altitude") dim3 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.array([15.0]))) dim3.set_property("standard_name", "time") dim3.set_property("units", "days since 2004-06-01") dim3.set_bounds(cfdm.Bounds(data=cfdm.Data([[0, 30.0]]))) # dim3.set_geometry('climatology') # Auxiliary coordinates ak = cfdm.DomainAncillary(data=cfdm.Data([10.0])) ak.set_property("units", "m") ak.set_bounds(cfdm.Bounds(data=cfdm.Data([[5, 15.0]]))) bk = cfdm.DomainAncillary(data=cfdm.Data([20.0])) bk.set_bounds(cfdm.Bounds(data=cfdm.Data([[14, 26.0]]))) aux2 = cfdm.AuxiliaryCoordinate(data=cfdm.Data( numpy.arange(-45, 45, dtype="int32").reshape(10, 9))) aux2.set_property("units", "degree_N") aux2.set_property("standard_name", "latitude") aux3 = cfdm.AuxiliaryCoordinate(data=cfdm.Data( numpy.arange(60, 150, dtype="int32").reshape(9, 10))) aux3.set_property("standard_name", "longitude") aux3.set_property("units", "degreeE") array = numpy.ma.array( [ "alpha", "beta", "gamma", "delta", "epsilon", "zeta", "eta", "theta", "iota", "kappa", ], dtype="S", ) array[0] = numpy.ma.masked aux4 = cfdm.AuxiliaryCoordinate(data=cfdm.Data(array)) aux4.set_property("standard_name", "greek_letters") # Cell measures msr0 = cfdm.CellMeasure( data=cfdm.Data(1 + numpy.arange(90.0).reshape(9, 10) * 1234)) msr0.set_measure("area") msr0.set_property("units", "km2") # Data data = cfdm.Data(numpy.arange(90.0).reshape(10, 9)) properties = {"units": "m s-1"} f = cfdm.Field(properties=properties) f.set_property("standard_name", "eastward_wind") axisX = f.set_construct(cfdm.DomainAxis(9)) axisY = f.set_construct(cfdm.DomainAxis(10)) axisZ = f.set_construct(cfdm.DomainAxis(1)) axisT = f.set_construct(cfdm.DomainAxis(1)) f.set_data(data, axes=[axisY, axisX]) x = f.set_construct(dim0, axes=[axisX]) y = f.set_construct(dim1, axes=[axisY]) z = f.set_construct(dim2, axes=[axisZ]) f.set_construct(dim3, axes=[axisT]) lat = f.set_construct(aux2, axes=[axisY, axisX]) lon = f.set_construct(aux3, axes=[axisX, axisY]) f.set_construct(aux4, axes=[axisY]) ak = f.set_construct(ak, axes=[axisZ]) bk = f.set_construct(bk, axes=[axisZ]) # Coordinate references # ref0 = cfdm.CoordinateReference( # parameters={'grid_mapping_name': 'rotated_latitude_longitude', # 'grid_north_pole_latitude': 38.0, # 'grid_north_pole_longitude': 190.0, # 'earth_radius': 6371007,}, # coordinates=[x, y, lat, lon] # ) coordinate_conversion = cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "rotated_latitude_longitude", "grid_north_pole_latitude": 38.0, "grid_north_pole_longitude": 190.0, }) datum = cfdm.Datum(parameters={"earth_radius": 6371007}) ref0 = cfdm.CoordinateReference( coordinate_conversion=coordinate_conversion, datum=datum, coordinates=[x, y, lat, lon], ) f.set_construct(msr0, axes=[axisX, axisY]) f.set_construct(ref0) orog = cfdm.DomainAncillary(data=f.get_data()) orog.set_property("standard_name", "surface_altitude") orog.set_property("units", "m") orog = f.set_construct(orog, axes=[axisY, axisX]) datum1 = cfdm.Datum({"earth_radius": 6371007}) coordinate_conversion1 = cfdm.CoordinateConversion( parameters={ "standard_name": "atmosphere_hybrid_height_coordinate", "computed_standard_name": "altitude", }, domain_ancillaries={ "orog": orog, "a": ak, "b": bk }, ) ref1 = cfdm.CoordinateReference( datum=datum1, coordinate_conversion=coordinate_conversion1, coordinates=[z], ) ref1 = f.set_construct(ref1) # Field ancillary variables # g = f.transpose([1, 0]) g = f.copy() # g.standard_name = 'ancillary0' # g *= 0.01 anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = "ancillaryA" f.set_construct(anc, axes=[axisY, axisX]) g = f[0] g = g.squeeze() # g.standard_name = 'ancillary2' # g *= 0.001 anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = "ancillaryB" f.set_construct(anc, axes=[axisX]) g = f[..., 0] g = g.squeeze() # g.standard_name = 'ancillary3' # g *= 0.001 anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = "ancillaryC" f.set_construct(anc, axes=[axisY]) f.set_property("flag_values", numpy.array([1, 2, 4], "int32")) f.set_property("flag_meanings", "a bb ccc") f.set_property("flag_masks", [2, 1, 0]) cm0 = cfdm.CellMethod( axes=[axisX], method="mean", qualifiers={ "interval": [cfdm.Data(1, "day")], "comment": "ok" }, ) cm1 = cfdm.CellMethod(axes=[axisY], method="maximum", qualifiers={"where": "sea"}) cm2 = cfdm.CellMethod(axes=[axisT], method="maximum", qualifiers={"within": "years"}) cm3 = cfdm.CellMethod(axes=[axisT], method="minimum", qualifiers={"over": "years"}) f.set_construct(cm0) f.set_construct(cm1) f.set_construct(cm2) f.set_construct(cm3) cfdm.write(f, self.filename, fmt="NETCDF3_CLASSIC", verbose=verbose) g = cfdm.read(self.filename, verbose=verbose) self.assertEqual(len(g), 1, f"Read produced too many fields: {len(g)} != 1") g = g[0].squeeze() self.assertEqual( sorted(f.constructs), sorted(g.constructs), f"\n\nf (created in memory)" f"\n{f.constructs}" f"\n\n{f.constructs.items()}" f"\n\ng (read from disk)" f"\n{g.constructs}" f"\n\n{g.constructs.items()}", ) self.assertTrue( f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself", ) self.assertTrue( g.equals(g.copy(), verbose=verbose), "Field g not equal to a copy of itself", ) self.assertTrue( g.equals(f, verbose=verbose), "Field not equal to itself read back in", ) x = g.dump(display=False) x = f.dump(display=False) g = cfdm.read( self.filename, verbose=verbose, extra=["domain_ancillary"], warnings=warnings, )
def test_CoordinateReference_equals(self): if self.test_only and inspect.stack()[0][3] not in self.test_only: return f = self.f.copy() # Create a vertical grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=('coord1', ), coordinate_conversion=cfdm.CoordinateConversion( parameters={ 'standard_name': 'atmosphere_hybrid_height_coordinate' }, domain_ancillaries={ 'a': 'aux0', 'b': 'aux1', 'orog': 'orog' })) self.assertTrue(t.equals(t.copy(), verbose=3)) # Create a horizontal grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=['coord1', 'fred', 'coord3'], coordinate_conversion=cfdm.CoordinateConversion( parameters={ 'grid_mapping_name': 'rotated_latitude_longitude', 'grid_north_pole_latitude': 38.0, 'grid_north_pole_longitude': 190.0 })) self.assertTrue(t.equals(t.copy(), verbose=3)) datum = cfdm.Datum(parameters={'earth_radius': 6371007}) conversion = cfdm.CoordinateConversion( parameters={ 'grid_mapping_name': 'rotated_latitude_longitude', 'grid_north_pole_latitude': 38.0, 'grid_north_pole_longitude': 190.0 }) t = cfdm.CoordinateReference(coordinate_conversion=conversion, datum=datum, coordinates=['x', 'y', 'lat', 'lon']) self.assertTrue(t.equals(t.copy(), verbose=3)) # Create a horizontal grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=['coord1', 'fred', 'coord3'], coordinate_conversion=cfdm.CoordinateConversion( parameters={ 'grid_mapping_name': 'albers_conical_equal_area', 'standard_parallel': [-30, 10], 'longitude_of_projection_origin': 34.8, 'false_easting': -20000, 'false_northing': -30000 })) self.assertTrue(t.equals(t.copy(), verbose=3)) # Create a horizontal grid mapping coordinate reference t = cfdm.CoordinateReference( coordinates=['coord1', 'fred', 'coord3'], coordinate_conversion=cfdm.CoordinateConversion( parameters={ 'grid_mapping_name': 'albers_conical_equal_area', 'standard_parallel': cfdm.Data([-30, 10]), 'longitude_of_projection_origin': 34.8, 'false_easting': -20000, 'false_northing': -30000 })) self.assertTrue(t.equals(t.copy(), verbose=3))
def test_create_field(self): """TODO DOCS.""" # Dimension coordinates dim1 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.arange(10.0))) dim1.set_property("standard_name", "grid_latitude") dim1.set_property("units", "degrees") data = numpy.arange(9.0) + 20 data[-1] = 34 dim0 = cfdm.DimensionCoordinate(data=cfdm.Data(data)) dim0.set_property("standard_name", "grid_longitude") dim0.set_property("units", "degrees") dim0.nc_set_variable("x") array = dim0.data.array array = numpy.array([array - 0.5, array + 0.5]).transpose((1, 0)) array[-2, 1] = 30 array[-1, :] = [30, 36] dim0.set_bounds(cfdm.Bounds(data=cfdm.Data(array))) dim2 = cfdm.DimensionCoordinate( data=cfdm.Data([1.5]), bounds=cfdm.Bounds(data=cfdm.Data([[1, 2.0]])), ) dim2.set_property("standard_name", "atmosphere_hybrid_height_coordinate") dim2.set_property("computed_standard_name", "altitude") # Auxiliary coordinates ak = cfdm.DomainAncillary(data=cfdm.Data([10.0])) ak.set_property("units", "m") ak.id = "atmosphere_hybrid_height_coordinate_ak" ak.set_bounds(cfdm.Bounds(data=cfdm.Data([[5, 15.0]]))) bk = cfdm.DomainAncillary(data=cfdm.Data([20.0])) bk.id = "atmosphere_hybrid_height_coordinate_bk" bk.set_bounds(cfdm.Bounds(data=cfdm.Data([[14, 26.0]]))) aux2 = cfdm.AuxiliaryCoordinate(data=cfdm.Data( numpy.arange(-45, 45, dtype="int32").reshape(10, 9))) aux2.set_property("units", "degree_N") aux2.set_property("standard_name", "latitude") aux3 = cfdm.AuxiliaryCoordinate(data=cfdm.Data( numpy.arange(60, 150, dtype="int32").reshape(9, 10))) aux3.set_property("standard_name", "longitude") aux3.set_property("units", "degreeE") array = numpy.ma.array( [ "alpha", "beta", "gamma", "delta", "epsilon", "zeta", "eta", "theta", "iota", "kappa", ], dtype="S", ) array[0] = numpy.ma.masked aux4 = cfdm.AuxiliaryCoordinate(data=cfdm.Data(array)) aux4.set_property("long_name", "greek_letters") # Cell measures msr0 = cfdm.CellMeasure( data=cfdm.Data(1 + numpy.arange(90.0).reshape(9, 10) * 1234)) msr0.set_measure("area") msr0.set_property("units", "km2") msr0.nc_set_variable("areacella") # Data data = cfdm.Data(numpy.arange(90.0).reshape(10, 9)) properties = {"units": "m s-1"} f = cfdm.Field(properties=properties) f.set_property("standard_name", "eastward_wind") da = cfdm.DomainAxis(9) da.nc_set_dimension("grid_longitude") axisX = f.set_construct(da) axisY = f.set_construct(cfdm.DomainAxis(10)) axisZ = f.set_construct(cfdm.DomainAxis(1)) f.set_data(data, axes=[axisY, axisX]) x = f.set_construct(dim0, axes=axisX) y = f.set_construct(dim1, axes=axisY) z = f.set_construct(dim2, axes=[axisZ]) lat = f.set_construct(aux2, axes=[axisY, axisX]) lon = f.set_construct(aux3, axes=[axisX, axisY]) f.set_construct(aux4, axes=[axisY]) ak = f.set_construct(ak, axes=axisZ) bk = f.set_construct(bk, axes=[axisZ]) # Coordinate references coordinate_conversion = cfdm.CoordinateConversion( parameters={ "grid_mapping_name": "rotated_latitude_longitude", "grid_north_pole_latitude": 38.0, "grid_north_pole_longitude": 190.0, }) datum = cfdm.Datum(parameters={"earth_radius": 6371007}) ref0 = cfdm.CoordinateReference( coordinate_conversion=coordinate_conversion, datum=datum, coordinates=[x, y, lat, lon], ) f.set_construct(msr0, axes=[axisX, axisY]) f.set_construct(ref0) orog = cfdm.DomainAncillary(data=f.get_data()) orog.set_property("standard_name", "surface_altitude") orog.set_property("units", "m") orog = f.set_construct(orog, axes=[axisY, axisX]) coordinate_conversion = cfdm.CoordinateConversion( parameters={ "standard_name": "atmosphere_hybrid_height_coordinate", "computed_standard_name": "altitude", }, domain_ancillaries={ "orog": orog, "a": ak, "b": bk }, ) ref1 = cfdm.CoordinateReference( coordinates=[z], datum=datum, coordinate_conversion=coordinate_conversion, ) ref1 = f.set_construct(ref1) # Field ancillary variables g = f.copy() anc = cfdm.FieldAncillary(data=g.get_data()) anc.set_property("standard_name", "ancillaryA") f.set_construct(anc, axes=[axisY, axisX]) g = f[0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.set_property("long_name", "ancillaryB") f.set_construct(anc, axes=axisX) g = f[..., 0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.set_property("foo", "bar") f.set_construct(anc, axes=[axisY]) f.set_property("flag_values", numpy.array([1, 2, 4], "int32")) f.set_property("flag_meanings", "a bb ccc") f.set_property("flag_masks", [2, 1, 0]) cm0 = cfdm.CellMethod( axes=axisX, method="mean", qualifiers={ "interval": [cfdm.Data(1, "day")], "comment": "ok" }, ) cm1 = cfdm.CellMethod(axes=[axisY], method="maximum", qualifiers={"where": "sea"}) f.set_construct(cm0) f.set_construct(cm1) self.assertTrue(f.equals(f, verbose=verbose), "Field f not equal to itself") self.assertTrue( f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself", ) cfdm.write(f, self.filename, fmt="NETCDF3_CLASSIC", verbose=verbose) g = cfdm.read(self.filename, verbose=1) array = (g[0].constructs.filter_by_identity( "long_name=greek_letters").value().data.array) self.assertEqual(array[1], b"beta") self.assertEqual(len(g), 1) g = g[0].squeeze() self.assertEqual( sorted(f.constructs), sorted(g.constructs), "\n\nf (created in memory)\n{}\n\n{}\n\ng " "(read from disk)\n{}\n\n{}".format( sorted(f.constructs), sorted(f.constructs.items()), sorted(g.constructs), sorted(g.constructs.items()), ), ) self.assertTrue( f.equals(f, verbose=verbose), "Field f not equal to itself after having been written to disk", ) self.assertTrue( f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself after having been " "written to disk", ) self.assertTrue( g.equals(g.copy(), verbose=verbose), "Field g not equal to a copy of itself", ) self.assertTrue( g.equals(f, verbose=verbose), "Field (f) not equal to itself read back in (g)", ) x = g.dump(display=False) x = f.dump(display=False) g = cfdm.read( self.filename, verbose=verbose, extra="domain_ancillary", warnings=warnings, )
def test_create_field(self): # Dimension coordinates dim1 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.arange(10.))) dim1.set_property('standard_name', 'grid_latitude') dim1.set_property('units', 'degrees') data = numpy.arange(9.) + 20 data[-1] = 34 dim0 = cfdm.DimensionCoordinate(data=cfdm.Data(data)) dim0.set_property('standard_name', 'grid_longitude') dim0.set_property('units', 'degrees') dim0.nc_set_variable('x') array = dim0.data.array array = numpy.array([array - 0.5, array + 0.5]).transpose((1, 0)) array[-2, 1] = 30 array[-1, :] = [30, 36] dim0.set_bounds(cfdm.Bounds(data=cfdm.Data(array))) dim2 = cfdm.DimensionCoordinate( data=cfdm.Data([1.5]), bounds=cfdm.Bounds(data=cfdm.Data([[1, 2.]]))) dim2.set_property('standard_name', 'atmosphere_hybrid_height_coordinate') dim2.set_property('computed_standard_name', 'altitude') # Auxiliary coordinates ak = cfdm.DomainAncillary(data=cfdm.Data([10.])) ak.set_property('units', 'm') ak.id = 'atmosphere_hybrid_height_coordinate_ak' ak.set_bounds(cfdm.Bounds(data=cfdm.Data([[5, 15.]]))) bk = cfdm.DomainAncillary(data=cfdm.Data([20.])) bk.id = 'atmosphere_hybrid_height_coordinate_bk' bk.set_bounds(cfdm.Bounds(data=cfdm.Data([[14, 26.]]))) aux2 = cfdm.AuxiliaryCoordinate(data=cfdm.Data( numpy.arange(-45, 45, dtype='int32').reshape(10, 9))) aux2.set_property('units', 'degree_N') aux2.set_property('standard_name', 'latitude') aux3 = cfdm.AuxiliaryCoordinate(data=cfdm.Data( numpy.arange(60, 150, dtype='int32').reshape(9, 10))) aux3.set_property('standard_name', 'longitude') aux3.set_property('units', 'degreeE') array = numpy.ma.array([ 'alpha', 'beta', 'gamma', 'delta', 'epsilon', 'zeta', 'eta', 'theta', 'iota', 'kappa' ], dtype='S') array[0] = numpy.ma.masked aux4 = cfdm.AuxiliaryCoordinate(data=cfdm.Data(array)) aux4.set_property('long_name', 'greek_letters') # Cell measures msr0 = cfdm.CellMeasure( data=cfdm.Data(1 + numpy.arange(90.).reshape(9, 10) * 1234)) msr0.set_measure('area') msr0.set_property('units', 'km2') msr0.nc_set_variable('areacella') # Data data = cfdm.Data(numpy.arange(90.).reshape(10, 9)) properties = {'units': 'm s-1'} f = cfdm.Field(properties=properties) f.set_property('standard_name', 'eastward_wind') da = cfdm.DomainAxis(9) da.nc_set_dimension('grid_longitude') axisX = f.set_construct(da) axisY = f.set_construct(cfdm.DomainAxis(10)) axisZ = f.set_construct(cfdm.DomainAxis(1)) f.set_data(data, axes=[axisY, axisX]) x = f.set_construct(dim0, axes=axisX) y = f.set_construct(dim1, axes=axisY) z = f.set_construct(dim2, axes=[axisZ]) lat = f.set_construct(aux2, axes=[axisY, axisX]) lon = f.set_construct(aux3, axes=[axisX, axisY]) greek = f.set_construct(aux4, axes=[axisY]) ak = f.set_construct(ak, axes=axisZ) bk = f.set_construct(bk, axes=[axisZ]) # Coordinate references coordinate_conversion = cfdm.CoordinateConversion( parameters={ 'grid_mapping_name': 'rotated_latitude_longitude', 'grid_north_pole_latitude': 38.0, 'grid_north_pole_longitude': 190.0 }) datum = cfdm.Datum(parameters={'earth_radius': 6371007}) ref0 = cfdm.CoordinateReference( coordinate_conversion=coordinate_conversion, datum=datum, coordinates=[x, y, lat, lon]) f.set_construct(msr0, axes=[axisX, axisY]) f.set_construct(ref0) orog = cfdm.DomainAncillary(data=f.get_data()) orog.set_property('standard_name', 'surface_altitude') orog.set_property('units', 'm') orog = f.set_construct(orog, axes=[axisY, axisX]) coordinate_conversion = cfdm.CoordinateConversion(parameters={ 'standard_name': 'atmosphere_hybrid_height_coordinate', 'computed_standard_name': 'altitude' }, domain_ancillaries={ 'orog': orog, 'a': ak, 'b': bk }) ref1 = cfdm.CoordinateReference( coordinates=[z], datum=datum, coordinate_conversion=coordinate_conversion) ref1 = f.set_construct(ref1) # Field ancillary variables g = f.copy() anc = cfdm.FieldAncillary(data=g.get_data()) anc.set_property('standard_name', 'ancillaryA') f.set_construct(anc, axes=[axisY, axisX]) g = f[0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.set_property('long_name', 'ancillaryB') f.set_construct(anc, axes=axisX) g = f[..., 0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.set_property('foo', 'bar') f.set_construct(anc, axes=[axisY]) f.set_property('flag_values', numpy.array([1, 2, 4], 'int32')) f.set_property('flag_meanings', 'a bb ccc') f.set_property('flag_masks', [2, 1, 0]) cm0 = cfdm.CellMethod(axes=axisX, method='mean', qualifiers={ 'interval': [cfdm.Data(1, 'day')], 'comment': 'ok' }) cm1 = cfdm.CellMethod(axes=[axisY], method='maximum', qualifiers={'where': 'sea'}) f.set_construct(cm0) f.set_construct(cm1) self.assertTrue(f.equals(f, verbose=verbose), "Field f not equal to itself") self.assertTrue(f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself") cfdm.write(f, self.filename, fmt='NETCDF3_CLASSIC', verbose=verbose) g = cfdm.read(self.filename, verbose=1) array = g[0].constructs.filter_by_identity( 'long_name=greek_letters').value().data.array self.assertEqual(array[1], b'beta', 'greek_letters = {!r}'.format(array)) self.assertEqual( len(g), 1, 'Read produced the wrong number of fields: {} != 1'.format(len(g))) g = g[0].squeeze() self.assertEqual( sorted(f.constructs), sorted(g.constructs), '\n\nf (created in memory)\n{}\n\n{}\n\ng ' '(read from disk)\n{}\n\n{}'.format(sorted(f.constructs), sorted(f.constructs.items()), sorted(g.constructs), sorted(g.constructs.items()))) self.assertTrue( f.equals(f, verbose=verbose), "Field f not equal to itself after having been written to disk") self.assertTrue( f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself after having been " "written to disk") self.assertTrue(g.equals(g.copy(), verbose=verbose), "Field g not equal to a copy of itself") self.assertTrue(g.equals(f, verbose=verbose), "Field (f) not equal to itself read back in (g)") x = g.dump(display=False) x = f.dump(display=False) g = cfdm.read(self.filename, verbose=verbose, extra='domain_ancillary', warnings=warnings)
def test_create_field_3(self): # Dimension coordinates data = numpy.arange(9.) + 20 data[-1] = 34 dim0 = cfdm.DimensionCoordinate(data=cfdm.Data(data)) dim0.set_property('standard_name', 'grid_longitude') dim0.set_property('units', 'degrees') array = dim0.data.array array = numpy.array([array-0.5, array+0.5]).transpose((1,0)) array[-2, 1] = 30 array[-1, :] = [30, 36] dim0.set_bounds(cfdm.Bounds(data=cfdm.Data(array))) dim1 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.arange(10.))) dim1.set_property('standard_name', 'grid_latitude') dim1.set_property('units', 'degrees') dim2 = cfdm.DimensionCoordinate(data=cfdm.Data([1.5]), bounds=cfdm.Bounds(data=cfdm.Data([[1, 2.]]))) dim2.set_property('standard_name' , 'atmosphere_hybrid_height_coordinate') dim2.set_property('computed_standard_name', 'altitude') dim3 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.array([15.0]))) dim3.set_property('standard_name', 'time') dim3.set_property('units', 'days since 2004-06-01') dim3.set_bounds(cfdm.Bounds(data=cfdm.Data([[0, 30.]]))) # dim3.set_geometry('climatology') # Auxiliary coordinates ak = cfdm.DomainAncillary(data=cfdm.Data([10.])) ak.set_property('units', 'm') ak.set_bounds(cfdm.Bounds(data=cfdm.Data([[5, 15.]]))) bk = cfdm.DomainAncillary(data=cfdm.Data([20.])) bk.set_bounds(cfdm.Bounds(data=cfdm.Data([[14, 26.]]))) aux2 = cfdm.AuxiliaryCoordinate( data=cfdm.Data(numpy.arange(-45, 45, dtype='int32').reshape(10, 9))) aux2.set_property('units', 'degree_N') aux2.set_property('standard_name', 'latitude') aux3 = cfdm.AuxiliaryCoordinate( data=cfdm.Data(numpy.arange(60, 150, dtype='int32').reshape(9, 10))) aux3.set_property('standard_name', 'longitude') aux3.set_property('units', 'degreeE') array = numpy.ma.array(['alpha','beta','gamma','delta','epsilon', 'zeta','eta','theta','iota','kappa'], dtype='S') array[0] = numpy.ma.masked aux4 = cfdm.AuxiliaryCoordinate(data=cfdm.Data(array)) aux4.set_property('standard_name', 'greek_letters') # Cell measures msr0 = cfdm.CellMeasure( data=cfdm.Data(1+numpy.arange(90.).reshape(9, 10)*1234)) msr0.set_measure('area') msr0.set_property('units', 'km2') # Data data = cfdm.Data(numpy.arange(90.).reshape(10, 9)) properties = {'units': 'm s-1'} f = cfdm.Field(properties=properties) f.set_property('standard_name', 'eastward_wind') axisX = f.set_construct(cfdm.DomainAxis(9)) axisY = f.set_construct(cfdm.DomainAxis(10)) axisZ = f.set_construct(cfdm.DomainAxis(1)) axisT = f.set_construct(cfdm.DomainAxis(1)) f.set_data(data, axes=[axisY, axisX]) x = f.set_construct(dim0, axes=[axisX]) y = f.set_construct(dim1, axes=[axisY]) z = f.set_construct(dim2, axes=[axisZ]) t = f.set_construct(dim3, axes=[axisT]) lat = f.set_construct(aux2, axes=[axisY, axisX]) lon = f.set_construct(aux3, axes=[axisX, axisY]) greek = f.set_construct(aux4, axes=[axisY]) ak = f.set_construct(ak, axes=[axisZ]) bk = f.set_construct(bk, axes=[axisZ]) # Coordinate references # ref0 = cfdm.CoordinateReference( # parameters={'grid_mapping_name': 'rotated_latitude_longitude', # 'grid_north_pole_latitude': 38.0, # 'grid_north_pole_longitude': 190.0, # 'earth_radius': 6371007,}, # coordinates=[x, y, lat, lon] # ) coordinate_conversion = cfdm.CoordinateConversion( parameters={'grid_mapping_name': 'rotated_latitude_longitude', 'grid_north_pole_latitude': 38.0, 'grid_north_pole_longitude': 190.0}) datum = cfdm.Datum(parameters={'earth_radius': 6371007}) ref0 = cfdm.CoordinateReference( coordinate_conversion=coordinate_conversion, datum=datum, coordinates=[x, y, lat, lon] ) f.set_construct(msr0, axes=[axisX, axisY]) f.set_construct(ref0) orog = cfdm.DomainAncillary(data=f.get_data()) orog.set_property('standard_name', 'surface_altitude') orog.set_property('units', 'm') orog = f.set_construct(orog, axes=[axisY, axisX]) datum1 = cfdm.Datum({'earth_radius' : 6371007}) coordinate_conversion1 = cfdm.CoordinateConversion( parameters={'standard_name': 'atmosphere_hybrid_height_coordinate', 'computed_standard_name': 'altitude'}, domain_ancillaries={'orog': orog, 'a' : ak, 'b' : bk}) ref1 = cfdm.CoordinateReference( datum=datum1, coordinate_conversion=coordinate_conversion1, coordinates=[z] ) ref1 = f.set_construct(ref1) # Field ancillary variables # g = f.transpose([1, 0]) g = f.copy() # g.standard_name = 'ancillary0' # g *= 0.01 anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = 'ancillaryA' f.set_construct(anc, axes=[axisY, axisX]) g = f[0] g = g.squeeze() # g.standard_name = 'ancillary2' # g *= 0.001 anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = 'ancillaryB' f.set_construct(anc, axes=[axisX]) g = f[..., 0] g = g.squeeze() # g.standard_name = 'ancillary3' # g *= 0.001 anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = 'ancillaryC' f.set_construct(anc, axes=[axisY]) f.set_property('flag_values', numpy.array([1, 2, 4], 'int32')) f.set_property('flag_meanings', 'a bb ccc') f.set_property('flag_masks', [2, 1, 0]) cm0 = cfdm.CellMethod(axes=[axisX], method='mean', qualifiers={'interval': [cfdm.Data(1, 'day')], 'comment' : 'ok'}) cm1 = cfdm.CellMethod(axes=[axisY], method='maximum', qualifiers={'where' : 'sea'}) cm2 = cfdm.CellMethod(axes=[axisT], method='maximum', qualifiers={'within' : 'years'}) cm3 = cfdm.CellMethod(axes=[axisT], method='minimum', qualifiers={'over' : 'years'}) f.set_construct(cm0) f.set_construct(cm1) f.set_construct(cm2) f.set_construct(cm3) if verbose: print(repr(f)) print(f) print(f.constructs) print(f.construct_data_axes()) f.dump() # sys.exit(0) cfdm.write(f, self.filename, fmt='NETCDF3_CLASSIC', verbose=verbose) g = cfdm.read(self.filename, verbose=verbose) #, squeeze=True) if verbose: # g[0].dump() # sys.exit(0) for x in g: x.print_read_report() self.assertTrue(len(g) == 1, 'Read produced too many fields: {} != 1'.format(len(g))) g = g[0].squeeze() # print g self.assertTrue(sorted(f.constructs) == sorted(g.constructs), '\n\nf (created in memory)\n{}\n\n{}\n\ng (read from disk)\n{}\n\n{}'.format( sorted(f.constructs), sorted(f.constructs.items()), sorted(g.constructs), sorted(g.constructs.items()))) self.assertTrue(f.equals(f.copy(), verbose=True), "Field f not equal to a copy of itself") self.assertTrue(g.equals(g.copy(), verbose=True), "Field g not equal to a copy of itself") # print f.dump() # print'f' # print f # print 'g' # print g # f.dump() # g.dump() if verbose: f.dump() g.dump() # sys.exit(0) self.assertTrue(g.equals(f, verbose=True), "Field not equal to itself read back in") # sys.exit(0) x = g.dump(display=False) x = f.dump(display=False) g = cfdm.read(self.filename, verbose=verbose, extra=['domain_ancillary'], warnings=warnings) if verbose: for x in g: x.print_read_report() print(g) g[0].dump()
def test_create_field_2(self): # Dimension coordinates dim1 = cfdm.DimensionCoordinate(data=cfdm.Data(numpy.arange(10.))) dim1.set_property('standard_name', 'projection_y_coordinate') dim1.set_property('units', 'm') data = numpy.arange(9.) + 20 data[-1] = 34 dim0 = cfdm.DimensionCoordinate(data=cfdm.Data(data)) dim0.set_property('standard_name', 'projection_x_coordinate') dim0.set_property('units', 'm') array = dim0.data.array array = numpy.array([array-0.5, array+0.5]).transpose((1, 0)) array[-2, 1] = 30 array[-1, :] = [30, 36] dim0.set_bounds(cfdm.Bounds(data=cfdm.Data(array))) dim2 = cfdm.DimensionCoordinate( data=cfdm.Data([1.5]), bounds=cfdm.Bounds(data=cfdm.Data([[1, 2.]])) ) dim2.set_property( 'standard_name', 'atmosphere_hybrid_height_coordinate') # Auxiliary coordinates aux2 = cfdm.AuxiliaryCoordinate( data=cfdm.Data( numpy.arange(-45, 45, dtype='int32').reshape(10, 9))) aux2.set_property('units', 'degree_N') aux2.set_property('standard_name', 'latitude') aux3 = cfdm.AuxiliaryCoordinate( data=cfdm.Data(numpy.arange( 60, 150, dtype='int32').reshape(9, 10)) ) aux3.set_property('standard_name', 'longitude') aux3.set_property('units', 'degreeE') array = numpy.ma.array( ['alpha', 'beta', 'gamma', 'delta', 'epsilon', 'zeta', 'eta', 'theta', 'iota', 'kappa'], dtype='S' ) array[0] = numpy.ma.masked aux4 = cfdm.AuxiliaryCoordinate(data=cfdm.Data(array)) aux4.set_property('standard_name', 'greek_letters') # Domain ancillaries ak = cfdm.DomainAncillary(data=cfdm.Data([10.])) ak.set_property('units', 'm') ak.set_bounds(cfdm.Bounds(data=cfdm.Data([[5, 15.]]))) bk = cfdm.DomainAncillary(data=cfdm.Data([20.])) bk.set_bounds(cfdm.Bounds(data=cfdm.Data([[14, 26.]]))) # Cell measures msr0 = cfdm.CellMeasure( data=cfdm.Data(1+numpy.arange(90.).reshape(9, 10)*1234)) msr0.set_measure('area') msr0.set_property('units', 'km2') # Data data = cfdm.Data(numpy.arange(90.).reshape(10, 9)) properties = {'units': 'm s-1'} f = cfdm.Field(properties=properties) f.set_property('standard_name', 'eastward_wind') axisX = f.set_construct(cfdm.DomainAxis(9)) axisY = f.set_construct(cfdm.DomainAxis(10)) axisZ = f.set_construct(cfdm.DomainAxis(1)) f.set_data(data, axes=[axisY, axisX]) x = f.set_construct(dim0, axes=[axisX]) y = f.set_construct(dim1, axes=[axisY]) z = f.set_construct(dim2, axes=[axisZ]) lat = f.set_construct(aux2, axes=[axisY, axisX]) lon = f.set_construct(aux3, axes=[axisX, axisY]) greek = f.set_construct(aux4, axes=[axisY]) ak = f.set_construct(ak, axes=[axisZ]) bk = f.set_construct(bk, axes=[axisZ]) # Coordinate references coordinate_conversion = cfdm.CoordinateConversion( parameters={'grid_mapping_name': "transverse_mercator", 'latitude_of_projection_origin': 49.0, 'longitude_of_central_meridian': -2.0, 'scale_factor_at_central_meridian': 0.9996012717, 'false_easting': 400000.0, 'false_northing': -100000.0, 'unit': "metre"}) datum0 = cfdm.Datum(parameters={'inverse_flattening': 299.3249646, 'longitude_of_prime_meridian': 0.0, 'semi_major_axis': 6377563.396}) ref0 = cfdm.CoordinateReference( coordinates=[x, y], datum=datum0, coordinate_conversion=coordinate_conversion ) coordinate_conversion = cfdm.CoordinateConversion( parameters={'grid_mapping_name': "latitude_longitude"}) datum2 = cfdm.Datum(parameters={'longitude_of_prime_meridian': 0.0, 'semi_major_axis': 6378137.0, 'inverse_flattening': 298.257223563}) ref2 = cfdm.CoordinateReference( coordinates=[lat, lon], datum=datum2, coordinate_conversion=coordinate_conversion) f.set_construct(msr0, axes=[axisX, axisY]) f.set_construct(ref0) f.set_construct(ref2) orog = cfdm.DomainAncillary(data=f.get_data()) orog.set_property('standard_name', 'surface_altitude') orog.set_property('units', 'm') orog = f.set_construct(orog, axes=[axisY, axisX]) coordinate_conversion = cfdm.CoordinateConversion( parameters={ 'standard_name': 'atmosphere_hybrid_height_coordinate' }, domain_ancillaries={ 'orog': orog, 'a': ak, 'b': bk } ) ref1 = cfdm.CoordinateReference( coordinates=[z], datum=datum0, coordinate_conversion=coordinate_conversion ) f.set_construct(ref1) # Field ancillary variables g = f.copy() anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = 'ancillaryA' f.set_construct(anc, axes=[axisY, axisX]) g = f[0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = 'ancillaryB' f.set_construct(anc, axes=[axisX]) g = f[..., 0] g = g.squeeze() anc = cfdm.FieldAncillary(data=g.get_data()) anc.standard_name = 'ancillaryC' f.set_construct(anc, axes=[axisY]) f.set_property('flag_values', numpy.array([1, 2, 4], 'int32')) f.set_property('flag_meanings', 'a bb ccc') f.set_property('flag_masks', [2, 1, 0]) cm0 = cfdm.CellMethod(axes=[axisX], method='mean', qualifiers={'interval': [cfdm.Data(1, 'day')], 'comment': 'ok'}) cm1 = cfdm.CellMethod(axes=[axisY], method='maximum', qualifiers={'where': 'sea'}) f.set_construct(cm0) f.set_construct(cm1) self.assertTrue(f.equals(f.copy(), verbose=verbose), "Field f not equal to a copy of itself") for fmt in ('NETCDF3_CLASSIC', 'NETCDF3_64BIT', 'NETCDF4', 'NETCDF4_CLASSIC'): cfdm.write(f, self.filename, fmt=fmt, verbose=verbose) g = cfdm.read(self.filename, verbose=verbose) self.assertEqual(len(g), 1, '{} != 1'.format(len(g))) g = g[0].squeeze() self.assertEqual(sorted(f.constructs), sorted(g.constructs), '\n\nf\n{}\n\n{}\n\ng\n{}\n\n{}'.format( sorted(f.constructs), sorted(f.constructs.items()), sorted(g.constructs), sorted(g.constructs.items()))) self.assertTrue(g.equals(g.copy(), verbose=verbose), "Field g not equal to a copy of itself") self.assertTrue(g.equals(f, verbose=verbose), "Field not equal to itself read back in") # --- End: for x = g.dump(display=False) x = f.dump(display=False) g = cfdm.read(self.filename, verbose=verbose, extra=['domain_ancillary'], warnings=warnings)
import netCDF4 import cfdm import numpy f = cfdm.Field() time = cfdm.DimensionCoordinate(data=cfdm.Data( numpy.array([float(x) for x in range(10)], dtype='double')), properties={ 'standard_name': 'time', 'units': 'days since 2000-01-01 00:00:00' }) cr = cfdm.CoordinateReference(('time', )) time_dim = cfdm.DomainAxis(10) time_dim.nc_set_dimension('time') dom = cfdm.Domain() time_construct = f.set_construct(time_dim) key = f.set_construct(time, axes=time_construct) dom.set_data_axes([ 'time', ], key=key) ## self.set_var( 'lon', 'double', ('lon',), attributes={'standard_name':'longitude', 'units':'degree_east'}, ## data = [float(x)*2. for x in range(180)] ) ## self.set_var( 'lat', 'double', ('lat',), attributes={'standard_name':'latitude', 'units':'degree_north'}, ## data = [float(x)*2. - 89. for x in range(90)] )