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v.vol.rst - Interpolates point data to a 3D raster map using regularized spline with tension (RST) algorithm.
vector, voxel, surface, interpolation, RST, 3D, no-data filling
v.vol.rst v.vol.rst --help v.vol.rst [-c] input=name [cross_input=name] [wcolumn=name] [tension=float] [smooth=float] [smooth_column=name] [where=sql_query] [deviations=name] [cvdev=name] [maskmap=name] [segmax=integer] [npmin=integer] [npmax=integer] [dmin=float] [wscale=float] [zscale=float] [cross_output=name] [elevation=name] [gradient=name] [aspect_horizontal=name] [aspect_vertical=name] [ncurvature=name] [gcurvature=name] [mcurvature=name] [--overwrite] [--help] [--verbose] [--quiet] [--ui] Flags: -c Perform a cross-validation procedure without volume interpolation --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 vector points map cross_input=name Name of input surface raster map for cross-section wcolumn=name Name of column containing w-values attribute to interpolate tension=float Tension parameter Default: 40. smooth=float Smoothing parameter Default: 0.1 smooth_column=name Name of column with smoothing parameters where=sql_query WHERE conditions of SQL statement without ’where’ keyword Example: income < 1000 and population >= 10000 deviations=name Name for output deviations vector point map cvdev=name Name for output cross-validation errors vector point map maskmap=name Name of input raster map used as mask segmax=integer Maximum number of points in a segment Default: 50 npmin=integer Minimum number of points for approximation in a segment (>segmax) Default: 200 npmax=integer Maximum number of points for approximation in a segment (>npmin) Default: 700 dmin=float Minimum distance between points (to remove almost identical points) wscale=float Conversion factor for w-values used for interpolation Default: 1.0 zscale=float Conversion factor for z-values Default: 1.0 cross_output=name Name for output cross-section raster map elevation=name Name for output elevation 3D raster map gradient=name Name for output gradient magnitude 3D raster map aspect_horizontal=name Name for output gradient horizontal angle 3D raster map aspect_vertical=name Name for output gradient vertical angle 3D raster map ncurvature=name Name for output change of gradient 3D raster map gcurvature=name Name for output Gaussian curvature 3D raster map mcurvature=name Name for output mean curvature 3D raster map
v.vol.rst interpolates values to a 3-dimensional raster map from 3-dimensional point data (e.g. temperature, rainfall data from climatic stations, concentrations from drill holes etc.) given in a 3-D vector point file named input. The size of the output 3D raster map elevation is given by the current 3D region. Sometimes, the user may want to get a 2-D map showing a modelled phenomenon at a crossection surface. In that case, cross_input and cross_output options must be specified, with the output 2D raster map cross_output containing the crossection of the interpolated volume with a surface defined by cross_input 2D raster map. As an option, simultaneously with interpolation, geometric parameters of the interpolated phenomenon can be computed (magnitude of gradient, direction of gradient defined by horizontal and vertical angles), change of gradient, Gauss-Kronecker curvature, or mean curvature). These geometric parameteres are saved as 3D raster maps gradient, aspect_horizontal, aspect_vertical, ncurvature, gcurvature, mcurvature, respectively. Maps aspect_horizontal and aspect_vertical are in degrees. At first, data points are checked for identical positions and points that are closer to each other than given dmin are removed. Parameters wscale and zscale allow the user to re-scale the w-values and z-coordinates of the point data (useful e.g. for transformation of elevations given in feet to meters, so that the proper values of gradient and curvatures can be computed). Rescaling of z-coordinates (zscale) is also needed when the distances in vertical direction are much smaller than the horizontal distances; if that is the case, the value of zscale should be selected so that the vertical and horizontal distances have about the same magnitude. Regularized spline with tension method is used in the interpolation. The tension parameter controls the distance over which each given point influences the resulting volume (with very high tension, each point influences only its close neighborhood and the volume goes rapidly to trend between the points). Higher values of tension parameter reduce the overshoots that can appear in volumes with rapid change of gradient. For noisy data, it is possible to define a global smoothing parameter, smooth. With the smoothing parameter set to zero (smooth=0) the resulting volume passes exactly through the data points. When smoothing is used, it is possible to output a vector map deviations containing deviations of the resulting volume from the given data. The user can define a 2D raster map named maskmap, which will be used as a mask. The interpolation is skipped for 3-dimensional cells whose 2-dimensional projection has a zero value in the mask. Zero values will be assigned to these cells in all output 3D raster maps. If the number of given points is greater than 700, segmented processing is used. The region is split into 3-dimensional "box" segments, each having less than segmax points and interpolation is performed on each segment of the region. To ensure the smooth connection of segments, the interpolation function for each segment is computed using the points in the given segment and the points in its neighborhood. The minimum number of points taken for interpolation is controlled by npmin , the value of which must be larger than segmax and less than 700. This limit of 700 was selected to ensure the numerical stability and efficiency of the algorithm. SQL support Using the where parameter, the interpolation can be limited to use only a subset of the input vectors. # preparation as in above example v.vol.rst elevrand_3d wcol=soilrange elevation=soilrange zscale=100 where="soilrange > 3" Cross validation procedure Sometimes it can be difficult to figure out the proper values of interpolation parameters. In this case, the user can use a crossvalidation procedure using -c flag (a.k.a. "jack-knife" method) to find optimal parameters for given data. In this method, every point in the input point file is temporarily excluded from the computation and interpolation error for this point location is computed. During this procedure no output grid files can be simultanuously computed. The procedure for larger datasets may take a very long time, so it might be worth to use just a sample data representing the whole dataset. Example (based on Slovakia3d dataset): v.info -c precip3d g.region n=5530000 s=5275000 w=4186000 e=4631000 res=500 -p v.vol.rst -c input=precip3d wcolumn=precip zscale=50 segmax=700 cvdev=cvdevmap tension=10 v.db.select cvdevmap v.univar cvdevmap col=flt1 type=point Based on these results, the parameters will have to be optimized. It is recommended to plot the CV error as curve while modifying the parameters. The best approach is to start with tension, smooth and zscale with rough steps, or to set zscale to a constant somewhere between 30-60. This helps to find minimal RMSE values while then finer steps can be used in all parameters. The reasonable range is tension=10...100, smooth=0.1...1.0, zscale=10...100. In v.vol.rst the tension parameter is much more sensitive to changes than in v.surf.rst, therefore the user should always check the result by visual inspection. Minimizing CV does not always provide the best result, especially when the density of data are insufficient. Then the optimal result found by CV is an oversmoothed surface.
The vector points map must be a 3D vector map (x, y, z as geometry). The module v.in.db can be used to generate a 3D vector map from a table containing x,y,z columns. Also, the input data should be in a projected coordinate system, such as Universal Transverse Mercator. The module does not appear to have support for geographic (Lat/Long) coordinates as of May 2009. v.vol.rst uses regularized spline with tension for interpolation from point data (as described in Mitasova and Mitas, 1993). The implementation has an improved segmentation procedure based on Oct-trees which enhances the efficiency for large data sets. Geometric parameters - magnitude of gradient (gradient), horizontal (aspect_horizontal) and vertical (aspect_vertical)aspects, change of gradient (ncurvature), Gauss-Kronecker (gcurvature) and mean curvatures (mcurvature) are computed directly from the interpolation function so that the important relationships between these parameters are preserved. More information on these parameters can be found in Mitasova et al., 1995 or Thorpe, 1979. The program gives warning when significant overshoots appear and higher tension should be used. However, with tension too high the resulting volume will have local maximum in each given point and everywhere else the volume goes rapidly to trend. With a smoothing parameter greater than zero, the volume will not pass through the data points and the higher the parameter the closer the volume will be to the trend. For theory on smoothing with splines see Talmi and Gilat, 1977 or Wahba, 1990. If a visible connection of segments appears, the program should be rerun with higher npmin to get more points from the neighborhood of given segment. If the number of points in a vector map is less than 400, segmax should be set to 400 so that segmentation is not performed when it is not necessary. The program gives a warning when the user wants to interpolate outside the "box" given by minimum and maximum coordinates in the input vector map. To remedy this, zoom into the area encompassing the input vector data points. For large data sets (thousands of data points), it is suggested to zoom into a smaller representative area and test whether the parameters chosen (e.g. defaults) are appropriate. The user must run g.region before the program to set the 3D region for interpolation.
Spearfish example (we first simulate 3D soil range data): g.region -dp # define volume g.region res=100 tbres=100 res3=100 b=0 t=1500 -ap3 ### First part: generate synthetic 3D data (true 3D soil data preferred) # generate random positions from elevation map (2D) r.random elevation.10m vector_output=elevrand n=200 # generate synthetic values v.db.addcolumn elevrand col="x double precision, y double precision" v.to.db elevrand option=coor col=x,y v.db.select elevrand # create new 3D map v.in.db elevrand out=elevrand_3d x=x y=y z=value key=cat v.info -c elevrand_3d v.info -t elevrand_3d # remove the now superfluous ’x’, ’y’ and ’value’ (z) columns v.db.dropcolumn elevrand_3d col=x v.db.dropcolumn elevrand_3d col=y v.db.dropcolumn elevrand_3d col=value # add attribute to have data available for 3D interpolation # (Soil range types taken from the USDA Soil Survey) d.mon wx0 d.rast soils.range d.vect elevrand_3d v.db.addcolumn elevrand_3d col="soilrange integer" v.what.rast elevrand_3d col=soilrange rast=soils.range # fix 0 (no data in raster map) to NULL: v.db.update elevrand_3d col=soilrange value=NULL where="soilrange=0" v.db.select elevrand_3d # optionally: check 3D points in Paraview v.out.vtk input=elevrand_3d output=elevrand_3d.vtk type=point dp=2 paraview --data=elevrand_3d.vtk ### Second part: 3D interpolation from 3D point data # interpolate volume to "soilrange" voxel map v.vol.rst input=elevrand_3d wcol=soilrange elevation=soilrange zscale=100 # visualize I: in GRASS GIS wxGUI g.gui # load: 2D raster map: elevation.10m # 3D raster map: soilrange # visualize II: export to Paraview r.mapcalc "bottom = 0.0" r3.out.vtk -s input=soilrange top=elevation.10m bottom=bottom dp=2 output=volume.vtk paraview --data=volume.vtk
deviations file is written as 2D and deviations are not written as attributes.
Hofierka J., Parajka J., Mitasova H., Mitas L., 2002, Multivariate Interpolation of Precipitation Using Regularized Spline with Tension. Transactions in GIS 6, pp. 135-150. Mitas, L., Mitasova, H., 1999, Spatial Interpolation. In: P.Longley, M.F. Goodchild, D.J. Maguire, D.W.Rhind (Eds.), Geographical Information Systems: Principles, Techniques, Management and Applications, Wiley, pp.481-492 Mitas L., Brown W. M., Mitasova H., 1997, Role of dynamic cartography in simulations of landscape processes based on multi-variate fields. Computers and Geosciences, Vol. 23, No. 4, pp. 437-446 (includes CDROM and WWW: www.elsevier.nl/locate/cgvis) Mitasova H., Mitas L., Brown W.M., D.P. Gerdes, I. Kosinovsky, Baker, T.1995, Modeling spatially and temporally distributed phenomena: New methods and tools for GRASS GIS. International Journal of GIS, 9 (4), special issue on Integrating GIS and Environmental modeling, 433-446. Mitasova, H., Mitas, L., Brown, B., Kosinovsky, I., Baker, T., Gerdes, D. (1994): Multidimensional interpolation and visualization in GRASS GIS Mitasova H. and Mitas L. 1993: Interpolation by Regularized Spline with Tension: I. Theory and Implementation, Mathematical Geology 25, 641-655. Mitasova H. and Hofierka J. 1993: Interpolation by Regularized Spline with Tension: II. Application to Terrain Modeling and Surface Geometry Analysis, Mathematical Geology 25, 657-667. Mitasova, H., 1992 : New capabilities for interpolation and topographic analysis in GRASS, GRASSclippings 6, No.2 (summer), p.13. Wahba, G., 1990 : Spline Models for Observational Data, CNMS-NSF Regional Conference series in applied mathematics, 59, SIAM, Philadelphia, Pennsylvania. Mitas, L., Mitasova H., 1988 : General variational approach to the interpolation problem, Computers and Mathematics with Applications 16, p. 983 Talmi, A. and Gilat, G., 1977 : Method for Smooth Approximation of Data, Journal of Computational Physics, 23, p.93-123. Thorpe, J. A. (1979): Elementary Topics in Differential Geometry. Springer-Verlag, New York, pp. 6-94.
g.region, v.in.ascii, r3.mask, v.in.db, v.surf.rst, v.univar
Original version of program (in FORTRAN) and GRASS enhancements: Lubos Mitas, NCSA, University of Illinois at Urbana-Champaign, Illinois, USA, since 2000 at Department of Physics, North Carolina State University, Raleigh, USA firstname.lastname@example.org Helena Mitasova, Department of Marine, Earth and Atmospheric Sciences, North Carolina State University, Raleigh, USA, email@example.com Modified program (translated to C, adapted for GRASS, new segmentation procedure): Irina Kosinovsky, US Army CERL, Champaign, Illinois, USA Dave Gerdes, US Army CERL, Champaign, Illinois, USA Modifications for g3d library, geometric parameters, cross-validation, deviations: Jaro Hofierka, Department of Geography and Regional Development, University of Presov, Presov, Slovakia, firstname.lastname@example.org, http://www.geomodel.sk Last changed: $Date: 2016-11-14 00:05:32 +0100 (Mon, 14 Nov 2016) $
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