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Paolo Veglio
MVCM
Commits
89c424bc
Commit
89c424bc
authored
2 years ago
by
Paolo Veglio
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ancillary.c
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24918 additions, 0 deletions
ancillary.c
ancillary.pyx
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113 additions, 0 deletions
ancillary.pyx
main.py
+57
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57 additions, 0 deletions
main.py
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ancillary.c
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89c424bc
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ancillary.pyx
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89c424bc
# cython: language_level=3
# cython: c_string_Type=unicode, c_string_encoding=utf8
cdef
extern
void
get_Reynolds_SST
(
float
*
,
float
*
,
char
*
,
char
*
,
float
*
)
cdef
extern
void
get_NDVI_background
(
float
*
,
float
*
,
char
*
,
char
*
,
float
*
)
cdef
extern
void
get_Olson_eco
(
float
*
,
float
*
,
char
*
,
unsigned
char
*
)
cdef
extern
void
get_GEOS
(
float
*
,
float
*
,
char
*
,
char
*
,
char
*
,
char
*
,
char
*
,
char
*
,
char
*
,
float
*
,
float
*
,
float
*
,
float
*
,
float
*
,
float
*
)
import
cython
from
cython.view
cimport
array
as
cvarray
import
numpy
as
np
cimport
numpy
as
np
np
.
import_array
()
ctypedef
np
.
float_t
DTYPE_t
DTYPE
=
np
.
float
@cython.boundscheck
(
False
)
@cython.wraparound
(
False
)
@cython.initializedcheck
(
False
)
def
py_get_Reynolds_SST
(
np
.
ndarray
[
float
,
ndim
=
1
]
lat
,
np
.
ndarray
[
float
,
ndim
=
1
]
lon
,
char
*
anc_dir
,
char
*
sst_file
,
sst
):
# cdef np.ndarray sst = np.zeros((3232*3200, ), order='C', dtype=np.float32)
if
not
sst
.
flags
[
'
C_CONTIGUOUS
'
]:
sst
=
np
.
ascontiguousarray
(
sst
)
cdef
float
[::
1
]
sst_mv
=
sst
get_Reynolds_SST
(
&
lat
[
0
],
&
lon
[
0
],
anc_dir
,
sst_file
,
&
sst_mv
[
0
])
return
sst
def
py_get_NDVI_background
(
np
.
ndarray
[
float
,
ndim
=
1
]
lat
,
np
.
ndarray
[
float
,
ndim
=
1
]
lon
,
char
*
anc_dir
,
char
*
ndvi_file
,
ndvi
):
if
not
ndvi
.
flags
[
'
C_CONTIGUOUS
'
]:
ndvi
=
np
.
ascontiguousarray
(
ndvi
)
cdef
float
[::
1
]
ndvi_mv
=
ndvi
get_NDVI_background
(
&
lat
[
0
],
&
lon
[
0
],
anc_dir
,
ndvi_file
,
&
ndvi_mv
[
0
])
return
ndvi
def
py_get_Olson_eco
(
np
.
ndarray
[
float
,
ndim
=
1
]
lat
,
np
.
ndarray
[
float
,
ndim
=
1
]
lon
,
char
*
anc_dir
,
eco
):
if
not
eco
.
flags
[
'
C_CONTIGUOUS
'
]:
eco
=
np
.
ascontiguousarray
(
eco
)
cdef
unsigned
char
[::
1
]
eco_mv
=
eco
get_Olson_eco
(
&
lat
[
0
],
&
lon
[
0
],
anc_dir
,
&
eco_mv
[
0
])
return
eco
def
py_get_GEOS
(
np
.
ndarray
[
float
,
ndim
=
1
]
lat
,
np
.
ndarray
[
float
,
ndim
=
1
]
lon
,
char
*
startTime
,
char
*
anc_dir
,
char
*
geos1
,
char
*
geos2
,
char
*
geos_lnd
,
char
*
geos_ocn
,
char
*
geos_cnst
,
tpw
,
snowfr
,
icefr
,
ocnfr
,
landicefr
,
sfct
):
# for v in geos_data:
# if not geos_data[v].flags['C_CONTIGUOUS']:
# geos_data[v] = np.ascontiguousarray(geos_data[v])
if
not
tpw
.
flags
[
'
C_CONTIGUOUS
'
]:
tpw
=
np
.
ascontiguousarray
(
tpw
)
if
not
snowfr
.
flags
[
'
C_CONTIGUOUS
'
]:
snowfr
=
np
.
ascontiguousarray
(
snowfr
)
if
not
icefr
.
flags
[
'
C_CONTIGUOUS
'
]:
icefr
=
np
.
ascontiguousarray
(
icefr
)
if
not
ocnfr
.
flags
[
'
C_CONTIGUOUS
'
]:
ocnfr
=
np
.
ascontiguousarray
(
ocnfr
)
if
not
landicefr
.
flags
[
'
C_CONTIGUOUS
'
]:
landicefr
=
np
.
ascontiguousarray
(
landicefr
)
if
not
sfct
.
flags
[
'
C_CONTIGUOUS
'
]:
sfct
=
np
.
ascontiguousarray
(
sfct
)
cdef
float
[::
1
]
tpw_mv
=
tpw
# geos_data['tpw']
cdef
float
[::
1
]
snowfr_mv
=
snowfr
# geos_data['snowfr']
cdef
float
[::
1
]
icefr_mv
=
icefr
# geos_data['icefr']
cdef
float
[::
1
]
ocnfr_mv
=
ocnfr
# geos_data['geos_ocnfr']
cdef
float
[::
1
]
landicefr_mv
=
landicefr
# geos_data['landicefr']
cdef
float
[::
1
]
sfct_mv
=
sfct
# geos_data['sfct']
get_GEOS
(
&
lat
[
0
],
&
lon
[
0
],
startTime
,
anc_dir
,
geos1
,
geos2
,
geos_lnd
,
geos_ocn
,
geos_cnst
,
&
tpw_mv
[
0
],
&
snowfr_mv
[
0
],
&
icefr_mv
[
0
],
&
ocnfr_mv
[
0
],
&
landicefr_mv
[
0
],
&
sfct_mv
[
0
])
# geos_dict = {'tpw': geos_data['tpw'],
# 'snowfr': geos_data['snowfr'],
# 'icefr': geos_data['icefr'],
# 'geos_ocnfr': geos_data['geos_ocnfr'],
# 'landicefr': geos_data['landicefr'],
# 'sfct': geos_data['sfct']
# }
# geos_dict = {'tpw': tpw,
# 'snowfr': snowfr,
# 'icefr': icefr,
# 'ocnfr': ocnfr,
# 'landicefr': landicefr,
# 'sfct': sfct
# }
print
(
tpw
[:
10
])
return
tpw
This diff is collapsed.
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main.py
+
57
−
0
View file @
89c424bc
import
ruamel_yaml
as
yml
import
numpy
as
np
# import xarray as xr
import
read_data
as
rd
import
tests
import
ancillary_data
as
anc
def
main
():
datapath
=
'
/ships19/hercules/pveglio/neige_data/snpp_test_input
'
...
...
@@ -11,8 +14,62 @@ def main():
fname_geo
=
'
VNP03MOD.A2014213.1548.001.2017301015705.uwssec.nc
'
thresh_file
=
'
/home/pveglio/mvcm_leo/thresholds/new_thresholds.mvcm.snpp.v1.0.0.yaml
'
anc_dir
=
'
/ships19/hercules/pveglio/neige_data/snpp_test_input/ancillary/2014_08_01_213
'
sst_file
=
'
oisst.20140730
'
ndvi_file
=
'
NDVI.FM.c004.v2.0.WS.00-04.209.hdf
'
geos_cnst
=
'
GEOS.fp.asm.const_2d_asm_Nx.00000000_0000.V01.nc4
'
geos_lnd
=
'
GEOS.fpit.asm.tavg1_2d_lnd_Nx.GEOS5124.20140801_1530.V01.nc4
'
geos_ocn
=
'
GEOS.fpit.asm.tavg1_2d_ocn_Nx.GEOS5124.20140801_1530.V01.nc4
'
geos1
=
'
GEOS.fpit.asm.inst3_2d_asm_Nx.GEOS5124.20140801_1500.V01.nc4
'
geos2
=
'
GEOS.fpit.asm.inst3_2d_asm_Nx.GEOS5124.20140801_1800.V01.nc4
'
start_time
=
'
2014-08-01 15:48:00.000
'
viirs_data
=
rd
.
read_data
(
'
viirs
'
,
f
'
{
datapath
}
/
{
fname_l1b
}
'
,
f
'
{
datapath
}
/
{
fname_geo
}
'
)
sst
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
ndvi
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
eco
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
ubyte
)
geos_data
=
{
'
tpw
'
:
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
),
'
snowfr
'
:
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
),
'
icefr
'
:
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
),
'
ocnfr
'
:
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
),
'
landicefr
'
:
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
),
'
sfct
'
:
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
),
}
tpw
=
np
.
ones
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
snowfr
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
icefr
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
ocnfr
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
landicefr
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
sfct
=
np
.
empty
((
3232
*
3200
,
),
dtype
=
np
.
float32
)
sst
=
anc
.
py_get_Reynolds_SST
(
viirs_data
.
latitude
.
values
.
reshape
((
3232
*
3200
,
)),
viirs_data
.
longitude
.
values
.
reshape
((
3232
*
3200
,
)),
anc_dir
,
sst_file
,
sst
)
ndvi
=
anc
.
py_get_NDVI_background
(
viirs_data
.
latitude
.
values
.
reshape
((
3232
*
3200
,
)),
viirs_data
.
longitude
.
values
.
reshape
((
3232
*
3200
,
)),
anc_dir
,
ndvi_file
,
ndvi
)
eco
=
anc
.
py_get_Olson_eco
(
viirs_data
.
latitude
.
values
.
reshape
((
3232
*
3200
,
)),
viirs_data
.
longitude
.
values
.
reshape
((
3232
*
3200
,
)),
anc_dir
,
eco
)
tpw
=
anc
.
py_get_GEOS
(
viirs_data
.
latitude
.
values
.
reshape
((
3232
*
3200
,
)),
viirs_data
.
longitude
.
values
.
reshape
((
3232
*
3200
,
)),
start_time
,
anc_dir
,
geos1
,
geos2
,
geos_lnd
,
geos_ocn
,
geos_cnst
,
tpw
,
snowfr
,
icefr
,
ocnfr
,
landicefr
,
sfct
)
print
(
tpw
[:
10
])
#print(geos_data['tpw'][:10])
#print(geos_data['snowfr'][:10])
#print(geos_data['icefr'][:10])
#print(geos_data['ocnfr'][:10])
#print(geos_data['landicefr'][:10])
#print(geos_data['sfct'][:10])
with
open
(
thresh_file
)
as
f
:
text
=
f
.
read
()
thresholds
=
yml
.
safe_load
(
text
)
...
...
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