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Merged
adcroft merged 2 commits into from
Nov 19, 2015
Merged

User/jpk/web analysis refactor #64

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3fefa94
Refactoring of analysis scripts for web use
jkrasting Nov 18, 2015
164ffc7
Added line to call main() function
jkrasting Nov 18, 2015
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83 changes: 45 additions & 38 deletions tools/analysis/SSS_bias_WOA05.py
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Original file line number Diff line number Diff line change
Expand Up @@ -3,49 +3,56 @@
import netCDF4
import numpy
import m6plot

try: import argparse
except: raise Exception('This version of python is not new enough. python 2.7 or newer is required.')

parser = argparse.ArgumentParser(description='''Script for plotting annual-average SSS bias.''')
parser.add_argument('annual_file', type=str, help='''Annually-averaged file containing 3D 'salt'.''')
parser.add_argument('-l','--label', type=str, default='', help='''Label to add to the plot.''')
parser.add_argument('-o','--outdir', type=str, default='.', help='''Directory in which to place plots.''')
parser.add_argument('-g','--gridspecdir', type=str, required=True,
help='''Directory containing mosaic/grid-spec files (ocean_hgrid.nc and ocean_mask.nc).''')
parser.add_argument('-w','--woa', type=str, required=True,
help='''File containing WOA (or obs) data to compare against.''')
cmdLineArgs = parser.parse_args()

numpy.seterr(divide='ignore', invalid='ignore', over='ignore') # To avoid warnings

x = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['x'][::2,::2]
y = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['y'][::2,::2]
msk = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_mask.nc').variables['mask'][:]
area = msk*netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['area'][:,:].reshape([msk.shape[0], 2, msk.shape[1], 2]).sum(axis=-3).sum(axis=-1)
msk = numpy.ma.array(msk, mask=(msk==0))

Sobs = netCDF4.Dataset( cmdLineArgs.woa ).variables['salt']
if len(Sobs.shape)==3: Sobs = Sobs[0]
else: Sobs = Sobs[:,0].mean(axis=0)

rootGroup = netCDF4.Dataset( cmdLineArgs.annual_file )
if 'salt' in rootGroup.variables: varName = 'salt'
elif 'so' in rootGroup.variables: varName = 'so'
else: raise Exception('Could not find "salt" or "so" in file "%s"'%(cmdLineArgs.annual_file))
if rootGroup.variables[varName].shape[0]>1: salt = rootGroup.variables[varName][:,0].mean(axis=0)
else: Smod = rootGroup.variables[varName][0,0]

ci=m6plot.pmCI(0.125,2.25,.25)
m6plot.xyplot( Smod - Sobs , x, y, area=area,
import sys

def run():
try: import argparse
except: raise Exception('This version of python is not new enough. python 2.7 or newer is required.')
parser = argparse.ArgumentParser(description='''Script for plotting annual-average SSS bias.''')
parser.add_argument('annual_file', type=str, help='''Annually-averaged file containing 3D 'salt'.''')
parser.add_argument('-l','--label', type=str, default='', help='''Label to add to the plot.''')
parser.add_argument('-o','--outdir', type=str, default='.', help='''Directory in which to place plots.''')
parser.add_argument('-g','--gridspecdir', type=str, required=True,
help='''Directory containing mosaic/grid-spec files (ocean_hgrid.nc and ocean_mask.nc).''')
parser.add_argument('-w','--woa', type=str, required=True,
help='''File containing WOA (or obs) data to compare against.''')
cmdLineArgs = parser.parse_args()
main(cmdLineArgs)

def main(cmdLineArgs,stream=None):
numpy.seterr(divide='ignore', invalid='ignore', over='ignore') # To avoid warnings

x = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['x'][::2,::2]
y = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['y'][::2,::2]
msk = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_mask.nc').variables['mask'][:]
area = msk*netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['area'][:,:].reshape([msk.shape[0], 2, msk.shape[1], 2]).sum(axis=-3).sum(axis=-1)
msk = numpy.ma.array(msk, mask=(msk==0))

Sobs = netCDF4.Dataset( cmdLineArgs.woa ).variables['salt']
if len(Sobs.shape)==3: Sobs = Sobs[0]
else: Sobs = Sobs[:,0].mean(axis=0)

rootGroup = netCDF4.MFDataset( cmdLineArgs.annual_file )
if 'salt' in rootGroup.variables: varName = 'salt'
elif 'so' in rootGroup.variables: varName = 'so'
else: raise Exception('Could not find "salt" or "so" in file "%s"'%(cmdLineArgs.annual_file))
if rootGroup.variables[varName].shape[0]>1: Smod = rootGroup.variables[varName][:,0].mean(axis=0)
else: Smod = rootGroup.variables[varName][0,0]

ci=m6plot.pmCI(0.125,2.25,.25)
if stream == None: stream = cmdLineArgs.outdir+'/SSS_bias_WOA05.png'
m6plot.xyplot( Smod - Sobs , x, y, area=area,
suptitle=rootGroup.title+' '+cmdLineArgs.label, title='SSS bias (w.r.t. WOA\'05) [ppt]',
clim=ci, colormap='dunnePM', centerlabels=True, extend='both',
save=cmdLineArgs.outdir+'/SSS_bias_WOA05.png')

m6plot.xycompare( Smod, Sobs , x, y, area=area,
save=stream)
m6plot.xycompare( Smod, Sobs , x, y, area=area,
suptitle=rootGroup.title+' '+cmdLineArgs.label,
title1='SSS [ppt]',
title2='WOA\'05 SSS [ppt]',
clim=m6plot.linCI(20,30,10, 31,39,.5), colormap='dunneRainbow', extend='both',
dlim=ci, dcolormap='dunnePM', dextend='both', centerdlabels=True,
save=cmdLineArgs.outdir+'/SSS_bias_WOA05.3_panel.png')

if __name__ == '__main__':
run()
89 changes: 48 additions & 41 deletions tools/analysis/SST_bias_WOA05.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,53 +3,60 @@
import netCDF4
import numpy
import m6plot

try: import argparse
except: raise Exception('This version of python is not new enough. python 2.7 or newer is required.')

parser = argparse.ArgumentParser(description='''Script for plotting annual-average SST bias.''')
parser.add_argument('annual_file', type=str, help='''Annually-averaged file containing 3D 'temp'.''')
parser.add_argument('-l','--label', type=str, default='', help='''Label to add to the plot.''')
parser.add_argument('-o','--outdir', type=str, default='.', help='''Directory in which to place plots.''')
parser.add_argument('-g','--gridspecdir', type=str, required=True,
help='''Directory containing mosaic/grid-spec files (ocean_hgrid.nc and ocean_mask.nc).''')
parser.add_argument('-w','--woa', type=str, required=True,
help='''File containing WOA (or obs) data to compare against.''')
cmdLineArgs = parser.parse_args()

numpy.seterr(divide='ignore', invalid='ignore', over='ignore') # To avoid warnings

x = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['x'][::2,::2]
y = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['y'][::2,::2]
msk = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_mask.nc').variables['mask'][:]
area = msk*netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['area'][:,:].reshape([msk.shape[0], 2, msk.shape[1], 2]).sum(axis=-3).sum(axis=-1)
msk = numpy.ma.array(msk, mask=(msk==0))

Tobs = netCDF4.Dataset( cmdLineArgs.woa )
if 'temp' in Tobs.variables: Tobs = Tobs.variables['temp']
elif 'ptemp' in Tobs.variables: Tobs = Tobs.variables['ptemp']
else: raise Exception('Could not find "temp" or "ptemp" in file "%s"'%(cmdLineArgs.woa))
if len(Tobs.shape)==3: Tobs = Tobs[0]
else: Tobs = Tobs[:,0].mean(axis=0)

rootGroup = netCDF4.Dataset( cmdLineArgs.annual_file )
if 'temp' in rootGroup.variables: varName = 'temp'
elif 'ptemp' in rootGroup.variables: varName = 'ptemp'
elif 'thetao' in rootGroup.variables: varName = 'thetao'
else: raise Exception('Could not find "temp", "ptemp" or "thetao" in file "%s"'%(cmdLineArgs.annual_file))
if rootGroup.variables[varName].shape[0]>1: salt = rootGroup.variables[varName][:,0].mean(axis=0)
else: Tmod = rootGroup.variables[varName][0,0]

ci=m6plot.pmCI(0.25,4.5,.5)
m6plot.xyplot( Tmod - Tobs , x, y, area=area,
import sys

def run():
try: import argparse
except: raise Exception('This version of python is not new enough. python 2.7 or newer is required.')
parser = argparse.ArgumentParser(description='''Script for plotting annual-average SST bias.''')
parser.add_argument('annual_file', type=str, help='''Annually-averaged file containing 3D 'temp'.''')
parser.add_argument('-l','--label', type=str, default='', help='''Label to add to the plot.''')
parser.add_argument('-o','--outdir', type=str, default='.', help='''Directory in which to place plots.''')
parser.add_argument('-g','--gridspecdir', type=str, required=True,
help='''Directory containing mosaic/grid-spec files (ocean_hgrid.nc and ocean_mask.nc).''')
parser.add_argument('-w','--woa', type=str, required=True,
help='''File containing WOA (or obs) data to compare against.''')
cmdLineArgs = parser.parse_args()
main(cmdLineArgs)

def main(cmdLineArgs,stream=None):
numpy.seterr(divide='ignore', invalid='ignore', over='ignore') # To avoid warnings

x = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['x'][::2,::2]
y = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['y'][::2,::2]
msk = netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_mask.nc').variables['mask'][:]
area = msk*netCDF4.Dataset(cmdLineArgs.gridspecdir+'/ocean_hgrid.nc').variables['area'][:,:].reshape([msk.shape[0], 2, msk.shape[1], 2]).sum(axis=-3).sum(axis=-1)
msk = numpy.ma.array(msk, mask=(msk==0))

Tobs = netCDF4.Dataset( cmdLineArgs.woa )
if 'temp' in Tobs.variables: Tobs = Tobs.variables['temp']
elif 'ptemp' in Tobs.variables: Tobs = Tobs.variables['ptemp']
else: raise Exception('Could not find "temp" or "ptemp" in file "%s"'%(cmdLineArgs.woa))
if len(Tobs.shape)==3: Tobs = Tobs[0]
else: Tobs = Tobs[:,0].mean(axis=0)

rootGroup = netCDF4.MFDataset( cmdLineArgs.annual_file )
if 'temp' in rootGroup.variables: varName = 'temp'
elif 'ptemp' in rootGroup.variables: varName = 'ptemp'
elif 'thetao' in rootGroup.variables: varName = 'thetao'
else: raise Exception('Could not find "temp", "ptemp" or "thetao" in file "%s"'%(cmdLineArgs.annual_file))
if rootGroup.variables[varName].shape[0]>1: Tmod = rootGroup.variables[varName][:,0].mean(axis=0)
else: Tmod = rootGroup.variables[varName][0,0]

ci=m6plot.pmCI(0.25,4.5,.5)
if stream == None: stream = cmdLineArgs.outdir+'/SST_bias_WOA05.png'
m6plot.xyplot( Tmod - Tobs , x, y, area=area,
suptitle=rootGroup.title+' '+cmdLineArgs.label, title='SST bias (w.r.t. WOA\'05) [$\degree$C]',
clim=ci, colormap='dunnePM', centerlabels=True, extend='both',
save=cmdLineArgs.outdir+'/SST_bias_WOA05.png')
save=stream)

m6plot.xycompare( Tmod, Tobs , x, y, area=area,
m6plot.xycompare( Tmod, Tobs , x, y, area=area,
suptitle=rootGroup.title+' '+cmdLineArgs.label,
title1='SST [$\degree$C]',
title2='WOA\'05 SST [$\degree$C]',
clim=m6plot.linCI(-2,29,.5), colormap='dunneRainbow', extend='max',
dlim=ci, dcolormap='dunnePM', dextend='both', centerdlabels=True,
save=cmdLineArgs.outdir+'/SST_bias_WOA05.3_panel.png')

if __name__ == '__main__':
run()
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