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The World Ocean Atlas (WOA) 2005 climatology provides results for water temperature, salinity and several water quality and biology properties. The data is provided by [http://www.nodc.noaa.gov NOAA NODC].
==Introduction==
The ConvertToHDF5 action converts the climatological data for the following properties:

- Dissolved Oxygen

- Phosphate

- Nitrate

- Silicate

For temperature and salinity fields, refer to [[ConvertToHDF5#LEVITUS|ConverToHDF5 LEVITUS FORMAT]] because these fields have a lower resolution(1º) than Levitus(0.25º).

===Spacial Coverage===
The resulting [[HDF5]] files have a spatial resolution of 1 degree latitute and longitude. The resulting grid spans from -180º to 180º rather than the original 0º to 360º format. Thus, the lower left corner of the hdf5 grid is -180º longitude, 90ºS longitude.

===Units===
The data in netcdf format provided by [http://www.nodc.noaa.gov/OC5/WOA05/pr_woa05.html NOAA] is in uM for the nutrients and ml/l for dissolved oxygen. There is an option to convert to MOHID units, namelly mg/L for nutrients and mg/l for oxygen.

===Kepler data folder===
For those users working in MARETEC/HIDROMOD network, the following data folder contains the converted files, sample ConvertToHDF5 files(with WOA geometry and grid) and WOA05 documentation:
\\kepler\DataCenter\DadosBase\Oceanografia\World Ocean Atlas 2005\

==Input file (ConvertToHDF5Action.dat)==
<begin_file>
ACTION : char - 'CONVERT WOA FORMAT' to use this module
FILEPATH : char - Path to WOA05 original netcdf files(n0112an1.nc for e.g.)
with ending slash
OUTPUTFILENAME : char - Path to WOA05 file generated from NETCDF file
MOHID_UNITS : 0/1 - Convert uunits to mg/l
<<begin_woafiles>>
(netcdf file) char - WOA05 netcdf file in path defined in FILEPATH, one per line
(netcdf file2) char e.g.: n0112an1.nc i0112an1.nc p0112an1.nc o0112an1.nc
...
<<end_woafiles>>
CONVERT_TO_ASCII : 0 - Flag to convert to ascii file: not implemented
CONVERT_TO_HDF5 : 1 - Flag to convert to hdf5 file
XX_VARIABLE : char - 'longitude'
YY_VARIABLE : char - 'latitude'
ZZ_VARIABLE : char - 'depth'
TIME_VARIABLE : char - 'time'
<end_file>

''Remarks:''

- only CONVERT_TO_HDF5 : 1 is implemented
- files in block begin/end_woafiles are all concatenated into one hdf5 file
- FILEPATH must have an ending slash

==Sample==
All sample files are named ''ConvertToHDF5Action.dat''.

=== Convert ===
<begin_file>
ACTION : CONVERT WOA FORMAT

!WOA05_o2sat.hdf5 WOA05_nut_uM.hdf5 WOA05_nut_mg_l.hdf5
OUTPUTFILENAME : WOA05_nut_uM.hdf5
MOHID_UNITS : 0

!filepath with ending slash!
FILEPATH : Z:\netcdf\monthly\

<<begin_woafiles>>
n0112an1.nc
i0112an1.nc
p0112an1.nc
<<end_woafiles>>

CONVERT_TO_ASCII : 0
CONVERT_TO_HDF5 : 1

XX_VARIABLE : lon
YY_VARIABLE : lat
ZZ_VARIABLE : depth
TIME_VARIABLE : time
<end_file>

''Remarks''
The converted files(O2 Saturation and Nutrients in uM and mg/l) are in kepler folder:
\\kepler\DataCenter\DadosBase\Oceanografia\World Ocean Atlas 2005\Data\data\
Since the conversion only is done one time for the whole grid, there is no need to convert every time.
=== Extrapolate ===
Extrapolate data for all regions for the interpolation(triagulation) to work fine.

<begin_file>
ACTION : INTERPOLATE GRIDS

TYPE_OF_INTERPOLATION : 1

FATHER_FILENAME : \\kepler\DataCenter\DadosBase\Oceanografia\World Ocean Atlas 2005\Data\data\WOA05_nut_mg_l.hdf5
FATHER_GRID_FILENAME : ..\WOA05_Grid_3D.dat

OUTPUTFILENAME : ..\WOA05_nut_mg_l_alldata.hdf5
NEW_GRID_FILENAME : ..\WOA05_Grid_3D.dat

START : -9999 1 1 0 0 0
END : -9999 12 1 0 0 0

INTERPOLATION3D : 1
FATHER_GEOMETRY : ..\WOA05_Geometry_3D_nuts.dat
NEW_GEOMETRY : ..\WOA05_Geometry_3D_nuts.dat
AUX_GRID_FILENAME : ..\WOA05_Grid_3D.dat
AUX_OUTPUTFILENAME : ..\AuxAllPointsWithData.hdf5

POLI_DEGREE : 1
DO_NOT_BELIEVE_MAP : 1
EXTRAPOLATE_2D : 2
<end_file>

=== Interpolate ===
Finally, interpolate to the final grid and geometry (same as the [[#Interpolate 3D MOHID(.hdf5) files to a new grid| Interpolate 3D sample]]):
<begin_file>
ACTION : INTERPOLATE GRIDS

TYPE_OF_INTERPOLATION : 1
FATHER_FILENAME : ..\WOA05_nut_mg_l_alldata.hdf5
OUTPUTFILENAME : ..\NS_Nuts_3D.hdf5
FATHER_GRID_FILENAME : ..\WOA05_Grid_3D.dat
NEW_GRID_FILENAME : ..\NorthSea_submodel__.new

START : -9999 1 1 0 0 0
END : -9999 12 1 0 0 0

INTERPOLATION3D : 1
FATHER_GEOMETRY : ..\WOA05_Geometry_3D_nuts.dat
NEW_GEOMETRY : ..\GeometryModel3D.dat
AUX_OUTPUTFILENAME : ..\AuxCadizMonthlyLevitus.hdf5
AUX_GRID_FILENAME : ..\NorthSea_submodel__.new

POLI_DEGREE : 1
DO_NOT_BELIEVE_MAP : 1
<end_file>

[[Category:Tools]]
[[Category:Hdf5]]

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Guillaume: 1 revision

192.168.20.177 at 12:20, 15 January 2008