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tst_dims.py
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#
# Copyright (C) 2024, Northwestern University and Argonne National Laboratory
# See COPYRIGHT notice in top-level directory.
#
import sys
import unittest
import os
import tempfile
from numpy.random.mtrand import uniform
from mpi4py import MPI
import pnetcdf
from utils import validate_nc_file
import io
NUM_TESTS = 5
file_formats = [fmt for fmt in ['NC_64BIT_DATA', 'NC_64BIT_OFFSET', None] for i in range(NUM_TESTS)]
FILE_NAME = "tst_dims.nc"
LAT_NAME="lat"
LAT_LEN = 50
LON_NAME="lon"
LON_LEN = 100
LEVEL_NAME="level"
LEVEL_LEN = -1
LEVEL_LENG = -1
TIME_NAME="time"
TIME_LEN = 60
TIME_LENG = -1
GROUP_NAME='forecasts'
VAR_NAME1='temp1'
VAR_NAME2='temp2'
VAR_NAME3='temp3'
VAR_NAME4='temp4'
VAR_NAME5='temp5'
VAR_TYPE= pnetcdf.NC_DOUBLE
comm = MPI.COMM_WORLD
rank = comm.Get_rank()
size = comm.Get_size()
class DimensionsTestCase(unittest.TestCase):
def setUp(self):
if (len(sys.argv) == 2) and os.path.isdir(sys.argv[1]):
self.file_path = os.path.join(sys.argv[1], FILE_NAME)
else:
self.file_path = FILE_NAME
self._file_format = file_formats.pop(0)
f = pnetcdf.File(filename=self.file_path, mode = 'w', format=self._file_format, comm=comm, info=None)
lat_dim=f.def_dim(LAT_NAME,LAT_LEN)
lon_dim=f.def_dim(LON_NAME,LON_LEN)
lev_dim=f.def_dim(LEVEL_NAME,LEVEL_LEN)
time_dim=f.def_dim(TIME_NAME,TIME_LEN)
# specify dimensions with names
fv1 = f.def_var(VAR_NAME1,VAR_TYPE,(LEVEL_NAME, LAT_NAME, LON_NAME, TIME_NAME))
# specify dimensions with instances
fv2 = f.def_var(VAR_NAME2,VAR_TYPE,(lev_dim,lat_dim,lon_dim,time_dim))
# specify dimensions using a mix of names and instances
fv3 = f.def_var(VAR_NAME3,VAR_TYPE,(lev_dim, LAT_NAME, lon_dim, TIME_NAME))
# single dim instance for name (not in a tuple)
fv4 = f.def_var(VAR_NAME4,VAR_TYPE,time_dim)
fv5 = f.def_var(VAR_NAME5,VAR_TYPE,TIME_NAME)
f.close()
assert validate_nc_file(os.environ.get('PNETCDF_DIR'), self.file_path) == 0 if os.environ.get('PNETCDF_DIR') is not None else True
def tearDown(self):
# Remove the temporary file
if (rank == 0) and not((len(sys.argv) == 2) and os.path.isdir(sys.argv[1])):
os.remove(self.file_path)
def test_dim_name(self):
f = pnetcdf.File(self.file_path, 'r+')
v1 = f.variables[VAR_NAME1]
v2 = f.variables[VAR_NAME2]
v3 = f.variables[VAR_NAME3]
v4 = f.variables[VAR_NAME4]
v5 = f.variables[VAR_NAME5]
isunlim = [dim.isunlimited() for dim in f.dimensions.values()]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
for n,dimlen in enumerate(lens_check):
if dimlen == -1:
lens_check[n] = 0
lensdict = dict(zip(names_check,lens_check))
unlimdict = dict(zip(names_check,isunlim))
# check that dimension names are correct.
for name in f.dimensions.keys():
self.assertTrue(name in names_check)
for name in v1.dimensions:
self.assertTrue(name in names_check)
for name in v2.dimensions:
self.assertTrue(name in names_check)
for name in v3.dimensions:
self.assertTrue(name in names_check)
self.assertTrue(v4.dimensions[0] == TIME_NAME)
self.assertTrue(v5.dimensions[0] == TIME_NAME)
f.close()
def test_dim_len(self):
f = pnetcdf.File(self.file_path, 'r+')
v1 = f.variables[VAR_NAME1]
v2 = f.variables[VAR_NAME2]
v3 = f.variables[VAR_NAME3]
v4 = f.variables[VAR_NAME4]
v5 = f.variables[VAR_NAME5]
isunlim = [dim.isunlimited() for dim in f.dimensions.values()]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
for n,dimlen in enumerate(lens_check):
if dimlen == -1:
lens_check[n] = 0
lensdict = dict(zip(names_check,lens_check))
unlimdict = dict(zip(names_check,isunlim))
# check that dimension lengths are correct.
for name,dim in f.dimensions.items():
self.assertTrue(len(dim) == lensdict[name])
f.close()
def test_isunlimited(self):
f = pnetcdf.File(self.file_path, 'r+')
v1 = f.variables[VAR_NAME1]
v2 = f.variables[VAR_NAME2]
v3 = f.variables[VAR_NAME3]
v4 = f.variables[VAR_NAME4]
v5 = f.variables[VAR_NAME5]
isunlim = [dim.isunlimited() for dim in f.dimensions.values()]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
for n,dimlen in enumerate(lens_check):
if dimlen == -1:
lens_check[n] = 0
lensdict = dict(zip(names_check,lens_check))
unlimdict = dict(zip(names_check,isunlim))
# check that isunlimited() method works.
for name,dim in f.dimensions.items():
self.assertTrue(dim.isunlimited() == unlimdict[name])
f.close()
def test_len_var(self):
# add some data to variable along unlimited dims,
# make sure length of dimensions change correctly.
f = pnetcdf.File(self.file_path, 'r+')
v1 = f.variables[VAR_NAME1]
v2 = f.variables[VAR_NAME2]
v3 = f.variables[VAR_NAME3]
v4 = f.variables[VAR_NAME4]
v5 = f.variables[VAR_NAME5]
isunlim = [dim.isunlimited() for dim in f.dimensions.values()]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
for n,dimlen in enumerate(lens_check):
if dimlen == -1:
lens_check[n] = 0
lensdict = dict(zip(names_check,lens_check))
nadd1 = 2
v1[0:nadd1,:,:,:] = uniform(size=(nadd1,LAT_LEN,LON_LEN,TIME_LEN))
lensdict[LEVEL_NAME]=nadd1
# check that dimension lengths are correct.
for name,dim in f.dimensions.items():
self.assertTrue(len(dim) == lensdict[name])
f.close()
def test_get_dims(self):
# check get_dims variable method
f = pnetcdf.File(self.file_path, 'r+')
v1 = f.variables[VAR_NAME1]
v2 = f.variables[VAR_NAME2]
v3 = f.variables[VAR_NAME3]
v4 = f.variables[VAR_NAME4]
v5 = f.variables[VAR_NAME5]
isunlim = [dim.isunlimited() for dim in f.dimensions.values()]
dimlens = [len(dim) for dim in f.dimensions.values()]
names_check = [LAT_NAME, LON_NAME, LEVEL_NAME, TIME_NAME]
lens_check = [LAT_LEN, LON_LEN, LEVEL_LEN, TIME_LEN]
isunlim = [dimlen == -1 for dimlen in lens_check]
for n,dimlen in enumerate(lens_check):
if dimlen == -1:
lens_check[n] = 0
lensdict = dict(zip(names_check,lens_check))
unlimdict = dict(zip(names_check,isunlim))
dim_tuple = v1.get_dims()
dim_tup1 = (f.dimensions['level'],f.dimensions['lat'],\
f.dimensions['lon'],f.dimensions['time'])
dim_tup2 = v1.get_dims()
assert(dim_tup1 == dim_tup2)
f.close()
if __name__ == '__main__':
suite = unittest.TestSuite()
for i in range(len(file_formats) // NUM_TESTS):
suite.addTest(DimensionsTestCase("test_dim_name"))
suite.addTest(DimensionsTestCase("test_dim_len"))
suite.addTest(DimensionsTestCase("test_isunlimited"))
suite.addTest(DimensionsTestCase("test_len_var"))
suite.addTest(DimensionsTestCase("test_get_dims"))
runner = unittest.TextTestRunner()
output = io.StringIO()
runner = unittest.TextTestRunner(stream=output)
result = runner.run(suite)
if not result.wasSuccessful():
print(output.getvalue())
sys.exit(1)