SoPhy                 package:SoPhy                 R Documentation

_S_o_i_l _p_h_y_s_i_c_s _t_o_o_l_s

_D_e_s_c_r_i_p_t_i_o_n:

     This package provides a collection of tools that might be useful
     in  soil physics. It is a first version of work in progress.

_D_e_t_a_i_l_s:

     Currently, the following functionalities are provided:

        *  *Physical modelling*

           *  'swms2d' : R interface to SWMS_2d, an algorithm by
              Simunek et. al based on finite elements to simulate water
              flux and solute transport in soil

           *  'xswms2d' : interactive plot to define soil structure and
              to simulate water flux and solute transport

           *  various functions for the modified simulation of the
              water flux or the solute transport in a profile; see
              'calculate.horizons' for an example

        *  *Stochastic modelling*

           *  'flowpattern' stochastic simulation of dye tracer
              profiles

        *  *Estimation of the risk index*

           *  'analyse.profile' : analysis of Brilliant Blue tracer
              experiments w.r.t. the contamination risk index

           *  'BrilliantBlue' : examples of profile pictures

           *  'Pareto' : the Pareto distribution

           *  'risk.index' : esimation of the risk index 

        *  *Estimation of the variability of the tortuosity*

           *  'tortuosity' : estimation of tortuosity from  Brilliant
              Blue tracer experiments

        *  *Graphics*

           *  'my.legend' : legend giving a colour spectrum

           *  'quader' : tools for 3d perspective plot

           *  'read.picture', 'plotRGB' : Conversion of tiff pictures
              to RGBA array and plotting RGB figures

        *  *Code used in publications by Schlather and Huwe*

           *  'sh.jh' : Schlather, M. and Huwe, B. (2005a)

           *  'sh.jch' : Schlather, M. and Huwe, B. (2005b)

_A_c_k_n_o_w_l_e_d_g_e_m_e_n_t:

     The author thanks Rien van Genuchten, Carl A. Mendoza, Rene
     Therrien, and Edward Sudicky for kindly changing the former
     copyright to the GNU copyleft licence, hence making their code
     directly available for this package.

     The work has been financially supported by the German Federal
     Ministry of Research and Technology (BMFT) grant PT BEO
     51-0339476C during 2000-03.

_I_n_s_t_a_l_l_a_t_i_o_n:

     LINUX:  The tiff-library is avalailable from <URL:
     http://www.remotesensing.org/libtiff>. Users of SuSe install
     libtiff and libtiff-devel.

     WINDOWS:  The binaries (libtiff3.dll, zlibl.dll, jpeg62.dll) are
     available from <URL: gnuwin32.sourceforge.net/packages/tiff.htm>.
     Before starting the R session, add in the  system variable $PATH
     the path to the libtiff3.dll file; the standard path to be added 
     is C:\Programme\GnuWin32\bin. Further, make sure that zlib1.dll
     and jpeg62.dll are present.

_A_u_t_h_o_r(_s):

     Martin Schlather, schlath@hsu-hh.de <URL:
     http://www.unibw-hamburg.de/WWEB/math/schlath/schlather.html>

     The Fortran code has been published as 'swms_2d'  by Jirka
     Simunek, T. Vogel and Martinus Th. van Genuchten,  <URL:
     http://www.ussl.ars.usda.gov/MODELS/MODELS.HTM>; the file
     ORTHOFEM.f was written by Edward A. Sudicky   and Carl A. Mendoza,
     based on code by Frank W. Letniowshi and contributions by Rene
     Therrien, and modified by Jirka Simunek.

_R_e_f_e_r_e_n_c_e_s:

     Schlather, M. (2006) SOPHY - a package for the simulation and the
     analysis of water flux in soil _In preparation_

     Schlather, M. and Huwe, B. (2005a) A stochastic model for
     3-dimensional flow patterns in dye tracer experiments. _J.
     Hydrol._ *310*, 17-27.

     Schlather, M. and Huwe, B. (2005b) A risk index for characterising
     flow pattern in soils using dye tracer distributions _J. Contam.
     Hydrol._ *79*, to appear.

     Schlather, M. and Huwe, B. (2006) Modelling inhomogeneous soils:
     Part I, Theory _In preparation_

     Schlather, M. and Huwe, B. (2006) SOPHY - an interactive programme
     for water flow modelling _In preparation_

     Schlather, M., Zeilinger, J. and Huwe, B. (2006) Modelling
     inhomogeneous soils: Part II, Applications _In preparation_

     Simunek., J., Vogel, T., and van Genuchten, M.Th. (1994) _The
     SWMS_2D code for simulating water flow and solute transport in
     two-dimensional variably saturated media, Version 1.21._ Research
     Report No. 132, 197 p., U.S. Salinity Laboratory, USDA, ARS,
     Riverside, California.

