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Add the "state of ground" to bring in the extra snow depth reports #1368

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Add the "state of ground" to bring in the extra snow depth reports #1368

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1c8096f
Add state of ground to increase the snow depth reports.
jiaruidong2017 Nov 9, 2024
365675d
Update the defined index with zero snow depth.
jiaruidong2017 Nov 13, 2024
aee4dc2
Merge branch 'develop' into feature/snow-sogr
jiaruidong2017 Nov 13, 2024
0c02522
Move python code to parm/gdas/snow/ directory to aviod extra copy.
jiaruidong2017 Nov 13, 2024
e57ac67
Modif to only replace the missing/filled snod values.
jiaruidong2017 Nov 13, 2024
4376049
Merge branch 'develop' into feature/snow-sogr
jiaruidong2017 Nov 13, 2024
244693c
Address reviewer's comments.
jiaruidong2017 Nov 14, 2024
76a5e94
Fix py norms error.
jiaruidong2017 Nov 14, 2024
2a72e4d
Add the mapping_path indicating the script backend requirements.
jiaruidong2017 Nov 15, 2024
a2d87fd
Merge branch 'develop' into feature/snow-sogr
jiaruidong2017 Nov 15, 2024
fbd1bb9
Add comments
jiaruidong2017 Nov 15, 2024
db46314
Merge branch 'develop' into feature/snow-sogr
jiaruidong2017 Nov 22, 2024
91f160e
Update the missing value for elevation from bufr file.
jiaruidong2017 Nov 22, 2024
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17 changes: 10 additions & 7 deletions parm/snow/obs/config/bufr_sfcsno_mapping.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -17,7 +17,6 @@ bufr:
query: "[*/CLON, */CLONH]"
stationIdentification:
query: "*/RPID"

stationElevation:
query: "[*/SELV, */HSMSL]"

Expand All @@ -26,11 +25,8 @@ bufr:
query: "[*/SNWSQ1/TOSD, */MTRMSC/TOSD, */STGDSNDM/TOSD]"
transforms:
- scale: 1000.0
filters:
- bounding:
variable: totalSnowDepth
lowerBound: 0
upperBound: 10000000
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For my understanding:

  • is this introducing a 10 m limit on snow depth obs?
  • if they are above 10 m, are they discarded, or set to 10.?

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I previously put this large number (10000m) here for removing the missing values. Here, we don't need this any more because we need to set the missing snod values to 0 when sogr satisfies the defined conditions.

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We might still have missing values though wouldn't we?

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The missing values will be removed after applying sogr conditions.

groundState:
query: "[*/GRDSQ1/SOGR, */STGDSNDM/SOGR]"

encoder:
variables:
Expand Down Expand Up @@ -65,11 +61,18 @@ encoder:
coordinates: "longitude latitude"
source: variables/stationIdentification
longName: "Identification of Observing Location"
units: "m"
units: "index"

# ObsValue
- name: "ObsValue/totalSnowDepth"
coordinates: "longitude latitude"
source: variables/totalSnowDepth
longName: "Total Snow Depth"
units: "mm"

- name: "ObsValue/groundState"
coordinates: "longitude latitude"
source: variables/groundState
longName: "STATE OF THE GROUND"
units: "index"

9 changes: 6 additions & 3 deletions parm/snow/obs/config/sfcsno_snow.yaml.j2
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Original file line number Diff line number Diff line change
Expand Up @@ -5,9 +5,12 @@
halo size: 250e3
obsdatain:
engine:
type: bufr
type: script
script file: "{{ USHgfs }}/bufr2ioda_sfcsno_bufr_encoder.py"
args:
input_path: '{{ DATA }}/obs/{{ OPREFIX }}sfcsno.tm00.bufr_d'
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Suggestion:
Make the mapping file as input to the Python script for create_obs_group

args:
 input_path:  '{{ DATA }}/obs/{{ OPREFIX }}sfcsno.tm00.bufr_d'
 mapping_path: = "./obs/bufr_sfcsno_mapping.yaml"

This will make it clear that the script backend requires two inputs: bufr file and the mapping file

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Thanks @emilyhcliu for the suggestions. I made the changes as suggested.

mapping_path: '{{ DATA }}/obs/bufr_sfcsno_mapping.yaml'
obsfile: '{{ DATA }}/obs/{{ OPREFIX }}sfcsno.tm00.bufr_d'
mapping file: '{{ DATA }}/obs/bufr_sfcsno_mapping.yaml'
obsdataout:
engine:
type: H5File
Expand Down Expand Up @@ -54,7 +57,7 @@
where:
- variable:
name: MetaData/stationElevation
minvalue: -999.0
maxvalue: 999999999.9
- filter: Domain Check # land only
where:
- variable:
Expand Down
2 changes: 1 addition & 1 deletion sorc/bufr-query
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Submodule bufr-query updated 36 files
+4 −2 CMakeLists.txt
+5 −5 cmake/Targets.cmake
+4 −2 core/CMakeLists.txt
+8 −0 core/include/bufr/BufrParser.h
+25 −2 core/include/bufr/DataContainer.h
+523 −1 core/include/bufr/DataObject.h
+5 −7 core/include/bufr/DataProvider.h
+8 −3 core/include/bufr/File.h
+3 −0 core/include/bufr/NcepDataProvider.h
+3 −0 core/include/bufr/WmoDataProvider.h
+66 −1 core/src/bufr/BufrReader/BufrParser.cpp
+51 −11 core/src/bufr/BufrReader/Query/DataProvider/DataProvider.cpp
+8 −0 core/src/bufr/BufrReader/Query/DataProvider/NcepDataProvider.cpp
+7 −0 core/src/bufr/BufrReader/Query/DataProvider/WmoDataProvider.cpp
+12 −5 core/src/bufr/BufrReader/Query/File.cpp
+56 −0 core/src/bufr/DataContainer.cpp
+11 −2 core/src/encoders/netcdf/Encoder.cpp
+31 −0 docs/python_api.rst
+1 −0 docs/uml/BUFR_BigPicture.puml
+25 −28 python/CMakeLists.txt
+17 −10 python/DataObjectFunctions.cpp
+4 −4 python/DataObjectFunctions.h
+4 −0 python/py_bufr.cpp
+17 −1 python/py_data_container.cpp
+2 −1 python/py_file.cpp
+49 −0 python/py_mpi.cpp
+23 −0 python/py_mpi.h
+15 −2 python/py_parser.cpp
+12 −8 test/CMakeLists.txt
+2 −2 test/testinput/bufrtest_fieldname_validation.py
+88 −0 test/testinput/bufrtest_python_mpi_test.py
+21 −12 test/testinput/bufrtest_python_test.py
+3 −0 tools/bufr2netcdf/CMakeLists.txt
+140 −44 tools/bufr2netcdf/bufr2netcdf.cpp
+1 −1 tools/build_scripts/bufr_query_cpp_lint.py
+11 −3 tools/show_queries/QueryPrinter.cpp
44 changes: 44 additions & 0 deletions ush/ioda/bufr2ioda/bufr2ioda_sfcsno_bufr_encoder.py
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Original file line number Diff line number Diff line change
@@ -0,0 +1,44 @@
import numpy as np
import bufr
from pyioda.ioda.Engines.Bufr import Encoder


def mask_container(container, mask):
new_container = bufr.DataContainer()
for var_name in container.list():
var = container.get(var_name)
paths = container.get_paths(var_name)
new_container.add(var_name, var[mask], paths)

return new_container


def create_obs_group(input_path, mapping_path):
"""Create the ioda snow observations
This method:
- reads state of ground (sogr) and snow depth (snod)
- applys sogr conditions to the missing snod values
- removes the filled/missing snow values and creates the masked container
- encoders the new container.

Parameters
----------
input_path: The input bufr file
mapping_path: The input bufr2ioda mapping file

"""

YAML_PATH = mapping_path
container = bufr.Parser(input_path, YAML_PATH).parse()

sogr = container.get('variables/groundState')
snod = container.get('variables/totalSnowDepth')
snod[(sogr <= 11.0) & snod.mask] = 0.0
snod[(sogr == 15.0) & snod.mask] = 0.0
container.replace('variables/totalSnowDepth', snod)

masked_container = mask_container(container, (~snod.mask))

data = next(iter(Encoder(YAML_PATH).encode(masked_container).values()))

return data
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