In [25]:
%matplotlib inline
%pylab inline
import numpy as np
import pandas as pd
import xarray as xr
import seaborn as sns
import os
import matplotlib.pyplot as plt
import xarray.plot as xplot
pylab.rcParams['figure.figsize'] = (20, 12)
Populating the interactive namespace from numpy and matplotlib
In [19]:
chlor_a_dir = "chlor_a"
In [20]:
sst_dir = "sst"
In [144]:
#%timeit
chlor_a = xr.open_mfdataset(os.path.join(chlor_a_dir, "*.nc"))
sst = xr.open_dataset(os.path.join(sst_dir, "20100101120000-ESACCI-L4_GHRSST-SSTdepth-OSTIA-GLOB_LT-v02.0-fv01.1.nc") ,mask_and_scale=False, decode_cf=False)
#sst = xr.open_mfdataset(os.path.join(sst_dir, "*.nc") ,mask_and_scale=False, decode_cf=False)
soil = xr.open_dataset("SoilMoisture.ESACCI-L3S.2004.v2_1.nc")
In [8]:
chlor_a_var = chlor_a['chlor_a']
chlor_a_subset = chlor_a_var.sel(lat=slice(60,30),lon=slice(0,30))
In [9]:
chlor_a_subset
Out[9]:
<xarray.DataArray 'chlor_a' (time: 12, lat: 720, lon: 720)>
dask.array<getitem..., shape=(12, 720, 720), dtype=float64, chunksize=(1, 720, 720)>
Coordinates:
* lon (lon) float32 0.0208333 0.0625 0.104167 0.145833 0.1875 ...
* lat (lat) float32 59.9792 59.9375 59.8958 59.8542 59.8125 59.7708 ...
* time (time) datetime64[ns] 2010-01-01 2010-02-01 2010-03-01 ...
Attributes:
long_name: Chlorophyll-a concentration in seawater (not log-transformed), generated by SeaDAS using OC4v6 for SeaWiFS
units: milligram m-3
ancillary_variables: chlor_a_log10_rmsd,chlor_a_log10_bias
grid_mapping: crs
parameter_vocab_uri: http://vocab.ndg.nerc.ac.uk/term/P011/current/CHLTVOLU
standard_name: mass_concentration_of_chlorophyll_a_in_sea_water
units_nonstandard: mg m^-3
In [10]:
def mycorr(x,y,dim=None):
return (((x-x.mean(dim=dim))*(y-y.mean(dim=dim))).sum(dim=dim)/x[dim].size)/(x.std(dim=dim)*y.std(dim=dim))
In [13]:
cov_chlra = mycorr(chlor_a_subset, chlor_a_subset, dim='time')
In [14]:
cov_chlra.plot()
C:\Miniconda3\envs\conda-xarray\lib\site-packages\dask\array\numpy_compat.py:44: RuntimeWarning: invalid value encountered in true_divide
x = np.divide(x1, x2, out)
C:\Miniconda3\envs\conda-xarray\lib\site-packages\dask\array\reductions.py:265: RuntimeWarning: invalid value encountered in true_divide
u = total/n
C:\Miniconda3\envs\conda-xarray\lib\site-packages\dask\async.py:246: RuntimeWarning: invalid value encountered in true_divide
return func(*args2)
Out[14]:
<matplotlib.collections.QuadMesh at 0x24c76c69dd8>
In [16]:
cov_chlra.min()
Out[16]:
<xarray.DataArray 'chlor_a' ()>
dask.array<p_reduc..., shape=(), dtype=float64, chunksize=()>
In [17]:
cov_chlra.max()
Out[17]:
<xarray.DataArray 'chlor_a' ()>
dask.array<p_reduc..., shape=(), dtype=float64, chunksize=()>
In [145]:
sst_var = sst['analysed_sst']
In [159]:
sst_var.isel(time=0,lat=0,lon=-180)
Out[159]:
<xarray.DataArray 'analysed_sst' ()>
array(128, dtype=int16)
Coordinates:
time int32 -1061647306
lat float32 -89.975
lon float32 171.025
Attributes:
_FillValue: -32768
units: kelvin
scale_factor: 0.01
add_offset: 273.15
long_name: analysed sea surface temperature
valid_min: -300
valid_max: 4500
standard_name: sea_water_temperature
depth: 20 cm
source: ATSR<1,2>-ESACCI-L3U-v1.0, AATSR-ESACCI-L3U-v1.0, AVHRR<12,14,15,16,17,18>_G-ESACCI-L2P-v1.0, AVHRRMTA-ESACCI-L2P-v1.0
comment: SST analysis produced for ESA SST CCI project using the OSTIA system in reanalysis mode.
In [158]:
sst_var[0].values
Out[158]:
array([[ 128, 128, 128, ..., 128, 128, 128],
[ 128, 128, 128, ..., 128, 128, 128],
[ 128, 128, 128, ..., 128, 128, 128],
...,
[19967, 19967, 19967, ..., 19967, 19967, 19967],
[19967, 19967, 19967, ..., 19967, 19967, 19967],
[19967, 19967, 19967, ..., 19967, 19967, 19967]], dtype=int16)
In [160]:
sst_real = (((sst_var.isel(time=0) + 32768) / 65536) * 4800 ) - 300
In [161]:
sst_real.max()
Out[161]:
<xarray.DataArray 'analysed_sst' ()>
array(4499.9267578125)
Coordinates:
time int32 -1061647306
In [163]:
sst_subset = sst_var.isel(time=0, lat=slice(1800,2100), lon=slice(0,300))
sst_subset_real = (sst_subset * 0.01) + 273
xplot.imshow((sst_real * 0.01) + 273)
Out[163]:
<matplotlib.image.AxesImage at 0x24c09d7b2b0>
In [107]:
sst_subset_real.isel(lat=0,lon=0)
Out[107]:
<xarray.DataArray 'analysed_sst' ()>
array(65.75)
Coordinates:
time datetime64[ns] 1947-05-12T09:58:14
lat float32 0.025
lon float32 -179.975
In [90]:
sst_var.isel(time=0,lon=7199)
Out[90]:
<xarray.DataArray 'analysed_sst' (lat: 3600)>
array([ 274.42999387, 274.42999387, 274.42999387, ..., 472.81998943,
472.81998943, 472.81998943])
Coordinates:
time datetime64[ns] 1947-05-12T09:58:14
* lat (lat) float32 -89.975 -89.925 -89.875 -89.825 -89.775 -89.725 ...
lon float32 179.975
Attributes:
units: kelvin
long_name: analysed sea surface temperature
valid_min: -300
valid_max: 4500
standard_name: sea_water_temperature
depth: 20 cm
source: ATSR<1,2>-ESACCI-L3U-v1.0, AATSR-ESACCI-L3U-v1.0, AVHRR<12,14,15,16,17,18>_G-ESACCI-L2P-v1.0, AVHRRMTA-ESACCI-L2P-v1.0
comment: SST analysis produced for ESA SST CCI project using the OSTIA system in reanalysis mode.
In [87]:
sst_var
Out[87]:
dtype('float64')
In [95]:
soil.time
Out[95]:
<xarray.DataArray 'time' (time: 366)>
array(['2004-01-01T01:00:00.000000000+0100',
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'2004-01-05T01:00:00.000000000+0100',
'2004-01-06T01:00:00.000000000+0100',
'2004-01-07T01:00:00.000000000+0100',
'2004-01-08T01:00:00.000000000+0100',
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Coordinates:
* time (time) datetime64[ns] 2004-01-01 2004-01-02 2004-01-03 ...
In [ ]:
Content source: CCI-Tools/sandbox
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