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import shutil
import os
from autosubmit.config.log import Log
from earthdiagnostics.diagnostic import Diagnostic
from earthdiagnostics.utils import Utils, TempFile
class Interpolate(Diagnostic):
"""
3-dimensional conservative interpolation to the regular atmospheric grid.
It can also be used for 2D (i,j) variables
:original author: Virginie Guemas <virginie.guemas@bsc.es>
:contributor: Javier Vegas-Regidor<javier.vegas@bsc.es>
def __init__(self, data_manager, startdate, member, chunk, variable, domain, nemo_version):
Diagnostic.__init__(self, data_manager)
self.startdate = startdate
self.member = member
self.chunk = chunk
self.variable = variable
self.domain = domain
self.nemo_version = nemo_version
self.required_vars = [variable]
self.generated_vars = [variable]
self.tempTemplate = ''
def __str__(self):
return 'Interpolate Startdate: {0} Member: {1} Chunk: {2} ' \
'Variable: {3}:{4}'.format(self.startdate, self.member, self.chunk, self.domain, self.variable)
@classmethod
def generate_jobs(cls, diags, options):
"""
Creates a job for each chunk to compute the diagnostic
:param diags: Diagnostics manager class
:type diags: Diags
:param options: variable, domain=ocean
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num_options = len(options) - 1
if num_options < 1:
raise Exception('You must specify the variable to average vertically')
if num_options > 2:
raise Exception('You must specify between 1 and 2 parameters for the interpolation diagnostic')
variable = options[1]
if num_options >= 2:
domain = int(options[2])
else:
domain = 'ocean'
job_list = list()
for startdate in diags.startdates:
for member in diags.members:
for chunk in range(1, diags.chunks + 1):
job_list.append(Interpolate(diags.data_manager, startdate, member, chunk,
variable, domain, diags.nemo_version))
return job_list
def compute(self):
variable_file = self.data_manager.get_file(self.domain, self.variable, self.startdate, self.member, self.chunk)
cdo = Utils.cdo
nco = Utils.nco
handler = Utils.openCdf(variable_file)
if 'lev' in handler.dimensions:
num_levels = handler.dimensions['lev'].size
has_levels = True
else:
num_levels = 1
has_levels = False
handler.close()
for lev in range(0, num_levels):
self._interpolate_level(lev, has_levels, variable_file)
temp = TempFile.get()
if has_levels:
nco.ncrcat(input=self._get_level_file(0), output=temp,
options="-n {0},2,1 -v '{1}'".format(num_levels, self.variable))
else:
Utils.move_file(self._get_level_file(0), temp)
handler = Utils.openCdf(temp)
handler.renameDimension('record', 'lev')
handler.close()
nco.ncpdq(input=temp, output=temp, options='-O -h -a time,lev')
if has_levels:
nco.ncks(input=variable_file, output=temp, options='-A -v lev')
for lev in range(0, num_levels):
os.remove(self._get_level_file(lev))
temp2 = TempFile.get()
cdo.setgrid('t106grid', input=temp, output=temp2)
os.remove(temp)
if self.nemo_version[6:9] == '025':
cdo.invertlatdata(input=temp2, output=temp2)
if not has_levels:
nco.ncks(input=temp2, output=temp2, options='-O -v sic,lat,lon,time')
self.data_manager.send_file(temp2, self.domain, self.variable, self.startdate, self.member, self.chunk,
grid='regular')
def _get_level_file(self, lev):
if not self.tempTemplate:
self.tempTemplate = TempFile.get(suffix='_01.nc')
# self.tempTemplate = 'temp_01.nc'
return self.tempTemplate.replace('_01.nc', '_{0:02d}.nc'.format(lev + 1))
def _interpolate_level(self, lev, has_levels, input_file):
nco = Utils.nco
temp = TempFile.get()
if has_levels:
nco.ncks(input=input_file, output=temp, options='-O -d lev,{0} -v {1}'.format(lev, self.variable))
nco.ncwa(input=temp, output=temp, options='-O -h -a lev')
else:
shutil.copy(input_file, temp)
namelist_file = TempFile.get(suffix='')
scrip_use_in = open(namelist_file, 'w')
scrip_use_in.writelines("&remap_inputs\n")
scrip_use_in.writelines(" remap_wgt = '/esnas/autosubmit/con_files/"
"weigths/{0}/rmp_{0}_to_regular_lev{1}.nc'\n".format(self.nemo_version, lev + 1))
scrip_use_in.writelines(" infile = '{0}'\n".format(temp))
scrip_use_in.writelines(" invertlat = FALSE\n")
scrip_use_in.writelines(" var = '{0}'\n".format(self.variable))
scrip_use_in.writelines(" fromregular = FALSE\n")
scrip_use_in.writelines(" outfile = '{0}'\n".format(temp))
scrip_use_in.writelines("/\n")
scrip_use_in.close()
Utils.execute_shell_command('/home/Earth/jvegas/pyCharm/cfutools/interpolation/scrip_use '
'{0}'.format(namelist_file), Log.NO_LOG)
os.remove(namelist_file)
nco.ncecat(input=temp, output=temp, options="-O -h")
shutil.move(temp, self._get_level_file(lev))
Log.debug("Level {0} ready", lev)