GRASS GIS manual: r3.out.netcdf

Note: A new GRASS GIS stable version has been released: GRASS GIS 7.8, available here.
Updated manual page: here

NAME

r3.out.netcdf - Export a 3D raster map as netCDF file.

KEYWORDS

raster3d, export, netCDF, voxel

SYNOPSIS

r3.out.netcdf

r3.out.netcdf --help

r3.out.netcdf [-pm] input=name output=name [null=float] [--overwrite] [--help] [--verbose] [--quiet] [--ui]

Flags:

-p: Export projection information as wkt and proj4 parameter
-m: Use 3D raster mask (if exists) with input map
--overwrite: Allow output files to overwrite existing files
--help: Print usage summary
--verbose: Verbose module output
--quiet: Quiet module output
--ui: Force launching GUI dialog

Parameters:

input=name [required]: Name of input 3D raster map
output=name [required]: Name for netCDF output file
null=float: The value to be used for null values, default is the netCDF standard

DESCRIPTION
Note
Examples
SEE ALSO
AUTHORS

DESCRIPTION

The module r3.out.netcdf exports a 3D raster map as netCDF file. Maps are valid 3D raster maps in the current mapset search path. The output parameter is the name of a netCDF file that will be written in the current working directory. The module is sensitive to mapset region settings (set with g.region) and the vertical unit settings of the 3D raster map. The vertical unit can be set with r3.support.

Note

The resulting netCDF file will have time as third dimension in case a temporal vertical unit is specified for the input map, otherwise the third dimension is assumed as spatial. If the 3D raster map has a time stamp with absolute time, the start time will be used as starting point for the netCDF time series. If the absolute time stamp is missing the date "Jan. 01. 1900 00:00:00" will be used as default. In case of relative time stamp no start time is set in the netCDF file. The number of depths of the 3D raster map are the number of time slices in the netCDF file. You can use t.rast.to.rast3 to convert a space time raster dataset into a 3D raster map representing a space time voxel cube, then export the raster time series as netCDF file.

Spatial coordinates are exported as cell centered coordinates. The projection can be optionally stored in the metadata as crs attributes . The netCDF projection metadata storage follows the spatial_ref GDAL/netCDF suggestion here and the netCDF CF 1.6 convention here using WKT projection information. Additional a PROJ.4 string is stored in the crs attribute section. The export of projection parameters is suppressed when the XY-projection is set.

The range of the 3D raster map is set in the netCDF output file. Optionally a the netCDF missing value and _FillValue can be set using the null option. As default the netCDF floating point _FillValues are used to fill empty cell.

The netCDF library must be installed on the system and activated at configuration time to compile this module.

Examples

g.region s=-90 n=90 w=-180 e=180 b=0 t=5 res=10 res3=10 tbres=1 -p3

#####################################################################
# We create a simple volume map with floating point values
#####################################################################

r3.mapcalc --o expr="volume_float = float(col() + row() + depth())"
r3.info volume_float
 +----------------------------------------------------------------------------+
 | Layer:    volume_float                   Date: Thu Jun 14 08:40:56 2012    |
 | Mapset:   PERMANENT                      Login of Creator: soeren          |
 | Location: TestLL                                                           |
 | DataBase: /1/soeren/grassdata                                              |
 | Title:    volume_float                                                     |
 | Units:    none                                                             |
 | Vertical unit: units                                                       |
 | Timestamp: none                                                            |
 |----------------------------------------------------------------------------|
 |                                                                            |
 |   Type of Map:  3d cell              Number of Categories: 0               |
 |   Data Type:    FCELL                                                      |
 |   Rows:         18                                                         |
 |   Columns:      36                                                         |
 |   Depths:       5                                                          |
 |   Total Cells:  3240                                                       |
 |   Total size:           10114 Bytes                                        |
 |   Number of tiles:      1                                                  |
 |   Mean tile size:       10114 Bytes                                        |
 |   Tile size in memory:  12960 Bytes                                        |
 |   Number of tiles in x, y and  z:   1, 1, 1                                |
 |   Dimension of a tile in x, y, z:   36, 18, 5                              |
 |                                                                            |
 |        Projection: Latitude-Longitude (zone 0)                             |
 |            N:        90N    S:        90S   Res:    10                     |
 |            E:       180E    W:       180W   Res:    10                     |
 |            T:          5    B:          0   Res:     1                     |
 |   Range of data:   min =          3 max =         59                       |
 |                                                                            |
 |   Data Source:                                                             |
 |                                                                            |
 |                                                                            |
 |                                                                            |
 |   Data Description:                                                        |
 |    generated by r3.mapcalc                                                 |
 |                                                                            |
 |   Comments:                                                                |
 |    r3.mapcalc expression="volume_float = float(col() + row() + depth())"   |
 |                                                                            |
 +----------------------------------------------------------------------------+

#####################################################################
# We use the netCDF ncdump tool to have a look at the header 
# and coordinates of the exported netCDF file
#####################################################################

r3.out.netcdf --o input=volume_float output=test_float.nc
ncdump -c test_float.nc
 
netcdf test_float {
dimensions:
        longitude = 36 ;
        latitude = 18 ;
        z = 5 ;
variables:
        float longitude(longitude) ;
                longitude:units = "degrees_east" ;
                longitude:long_name = "Longitude values" ;
                longitude:standard_name = "longitude" ;
                longitude:axis = "X" ;
        float latitude(latitude) ;
                latitude:units = "degrees_north" ;
                latitude:long_name = "Latitude values" ;
                latitude:standard_name = "latitude" ;
                latitude:axis = "Y" ;
        float z(z) ;
                z:units = "meter" ;
                z:long_name = "z coordinate of projection" ;
                z:standard_name = "projection_z_coordinate" ;
                z:positive = "up" ;
                z:axis = "Z" ;
        float volume_float(z, latitude, longitude) ;
                volume_float:valid_min = 3.f ;
                volume_float:valid_max = 59.f ;

// global attributes:
                :Conventions = "CF-1.5" ;
                :history = "GRASS GIS 7 netCDF export of r3.out.netcdf" ;
data:

 longitude = -175, -165, -155, -145, -135, -125, -115, -105, -95, -85, -75, 
    -65, -55, -45, -35, -25, -15, -5, 5, 15, 25, 35, 45, 55, 65, 75, 85, 95, 
    105, 115, 125, 135, 145, 155, 165, 175 ;

 latitude = 85, 75, 65, 55, 45, 35, 25, 15, 5, -5, -15, -25, -35, -45, -55, 
    -65, -75, -85 ;

 z = 0.5, 1.5, 2.5, 3.5, 4.5 ;
}

#####################################################################
# Exporting the projection specific settings and a null value
#####################################################################

r3.out.netcdf --o -p null=-1 input=volume_float output=test_float.nc
ncdump -c test_float.nc 

netcdf test_float {
dimensions:
        longitude = 36 ;
        latitude = 18 ;
        z = 5 ;
variables:
        char crs ;
                crs:crs_wkt = "GEOGCS[\"wgs84\",DATUM[\"WGS_1984\",SPHEROID[\"WGS_1984\",6378137,298.257223563]],PRIMEM[\"Greenwich\",0],UNIT[\"degree\",0.0174532925199433]]" ;
                crs:spatial_ref = "GEOGCS[\"wgs84\",DATUM[\"WGS_1984\",SPHEROID[\"WGS_1984\",6378137,298.257223563]],PRIMEM[\"Greenwich\",0],UNIT[\"degree\",0.0174532925199433]]" ;
                crs:crs_proj4 = " +proj=longlat +no_defs +a=6378137 +rf=298.257223563 +towgs84=0.000,0.000,0.000" ;
        float longitude(longitude) ;
                longitude:units = "degrees_east" ;
                longitude:long_name = "Longitude values" ;
                longitude:standard_name = "longitude" ;
                longitude:axis = "X" ;
        float latitude(latitude) ;
                latitude:units = "degrees_north" ;
                latitude:long_name = "Latitude values" ;
                latitude:standard_name = "latitude" ;
                latitude:axis = "Y" ;
        float z(z) ;
                z:units = "meter" ;
                z:long_name = "z coordinate of projection" ;
                z:standard_name = "projection_z_coordinate" ;
                z:positive = "up" ;
                z:axis = "Z" ;
        float volume_float(z, latitude, longitude) ;
                volume_float:valid_min = 3.f ;
                volume_float:valid_max = 59.f ;
                volume_float:missing_value = -1.f ;
                volume_float:_FillValue = -1.f ;
                volume_float:grid_mapping = "crs" ;

// global attributes:
                :Conventions = "CF-1.5" ;
                :history = "GRASS GIS 7 netCDF export of r3.out.netcdf" ;
data:

 longitude = -175, -165, -155, -145, -135, -125, -115, -105, -95, -85, -75, 
    -65, -55, -45, -35, -25, -15, -5, 5, 15, 25, 35, 45, 55, 65, 75, 85, 95, 
    105, 115, 125, 135, 145, 155, 165, 175 ;

 latitude = 85, 75, 65, 55, 45, 35, 25, 15, 5, -5, -15, -25, -35, -45, -55, 
    -65, -75, -85 ;

 z = 0.5, 1.5, 2.5, 3.5, 4.5 ;
}

#####################################################################
# Assigning time as vertical unit and setting an absolute time stamp
#####################################################################

r3.timestamp map=volume_float date='1 Jan 2001/5 Jan 2001'
r3.support map=volume_float vunit="days"
r3.out.netcdf --o -p null=-1 input=volume_float output=test_float.nc
ncdump -c test_float.nc 

netcdf test_float {
dimensions:
        longitude = 36 ;
        latitude = 18 ;
        time = 5 ;
variables:
        char crs ;
                crs:crs_wkt = "GEOGCS[\"wgs84\",DATUM[\"WGS_1984\",SPHEROID[\"WGS_1984\",6378137,298.257223563]],PRIMEM[\"Greenwich\",0],UNIT[\"degree\",0.0174532925199433]]" ;
                crs:spatial_ref = "GEOGCS[\"wgs84\",DATUM[\"WGS_1984\",SPHEROID[\"WGS_1984\",6378137,298.257223563]],PRIMEM[\"Greenwich\",0],UNIT[\"degree\",0.0174532925199433]]" ;
                crs:crs_proj4 = " +proj=longlat +no_defs +a=6378137 +rf=298.257223563 +towgs84=0.000,0.000,0.000" ;
        float longitude(longitude) ;
                longitude:units = "degrees_east" ;
                longitude:long_name = "Longitude values" ;
                longitude:standard_name = "longitude" ;
                longitude:axis = "X" ;
        float latitude(latitude) ;
                latitude:units = "degrees_north" ;
                latitude:long_name = "Latitude values" ;
                latitude:standard_name = "latitude" ;
                latitude:axis = "Y" ;
        int time(time) ;
                time:units = "days since 2001-01-01 00:00:00" ;
                time:long_name = "Time in days" ;
                time:calendar = "gregorian" ;
                time:positive = "up" ;
                time:axis = "T" ;
        float volume_float(time, latitude, longitude) ;
                volume_float:valid_min = 3.f ;
                volume_float:valid_max = 59.f ;
                volume_float:missing_value = -1.f ;
                volume_float:_FillValue = -1.f ;
                volume_float:grid_mapping = "crs" ;

// global attributes:
                :Conventions = "CF-1.5" ;
                :history = "GRASS GIS 7 netCDF export of r3.out.netcdf" ;
data:

 longitude = -175, -165, -155, -145, -135, -125, -115, -105, -95, -85, -75, 
    -65, -55, -45, -35, -25, -15, -5, 5, 15, 25, 35, 45, 55, 65, 75, 85, 95, 
    105, 115, 125, 135, 145, 155, 165, 175 ;

 latitude = 85, 75, 65, 55, 45, 35, 25, 15, 5, -5, -15, -25, -35, -45, -55, 
    -65, -75, -85 ;

 time = 0, 1, 2, 3, 4 ;
}

AUTHORS

Sören Gebbert

Last changed: $Date$

SOURCE CODE

Available at: r3.out.netcdf source code (history)