I. Regular Papers:
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, New features of the version 3 of the HYDRUS (2D/3D) computer software package, Journal of Hydrology and Hydromechanics, a Thematic Issue "HYDRUS Applications to Subsurface Flow and Contaminant Transport Problems", (in press).
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, Recent developments and applications of the HYDRUS computer software packages, Vadose Zone Journal, 15(7), pp. 25, doi: 10.2136/vzj2016.04.0033, 2016.
- Šimůnek, J., D. Jacques, G. Langergraber, S. A. Bradford, M. Šejna, and M. Th. van Genuchten, Numerical modeling of contaminant transport with HYDRUS and its specialized modules, Invited paper for the Special Issue "Water Management in Changing Environment", Editor M. S. Mohan Kumar, Journal of the Indian Institute of Science, 93(2) 265-284, ISSN: 0970-4140 Coden-JIISAD, 2013.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, HYDRUS: Model use, calibration and validation, Special issue on Standard/Engineering Procedures for Model Calibration and Validation, Transactions of the ASABE, 55(4), 1261-1274, 2012.
- van Genuchten, M. Th., J. Šimůnek, F. L. Leij, N. Toride, and M. Šejna, STANMOD: Model use, calibration and validation, special issue Standard/Engineering Procedures for Model Calibration and Validation, Transactions of the ASABE, 5(4), 1353-1366, 2012.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, Development and applications of the HYDRUS and STANMOD software packages, and related codes, Vadose Zone Journal, doi:10.2136/VZJ2007.0077, Special Issue “Vadose Zone Modeling”, 7(2), 587-600, 2008.
- Šimůnek, J., J. M. Köhne, R. Kodešová, and M. Šejna, Simulating nonequilibrium movement of water, solutes, and particles using HYDRUS: A review of recent applications, Soil and Water Research, 3(Special Issue 1), S42-S51, 2008.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, Modeling Subsurface Water Flow and Solute Transport with HYDRUS and Related Numerical Software Packages, In: Garcia-Navarro & Playán (eds.), Numerical Modelling of Hydrodynamics for Water Resources, An International Workshop, Centro Politecnico Superior, University of Zaragoza Spain, June 18-21 2007. Taylor & Francis Group, London, ISBN 978-0-415-44056-1, 95-114, 2007.
- Štastný, M., and M. Šejna, The Effects of Steam Chemistry on Condensation Process. Power Plant Chemistry, Germany, (2005 - in print)
- Štastný, M., and M. Šejna, The effect of expansion rate on the steam flow with hetero-homogeneous condensation in nozzles. Journal of Power and Energy, Proceedings of the Institution of Mechanical Engineers, London, (2005 - in print)
- Štastný, M., and M. Šejna, The effect of expansion rate on the steam flow with hetero-homogeneous condensation in nozzles. Proceedings of 6th European Conference on Turbomachinery - Fluid Dynamics and Thermodynamics, Lille, France (2005).
- Štastný, M., and M. Šejna, Numerical Simulation of the Steam Flow with Condensation in a Nozzle. Proceedings of 14th International Conference on the Properties of Water and Steam, Kyoto, Japan (2004).
- Štastný, M., and M. Šejna, Two-Population Numerical Model of Hetero-homogeneous Condensation of the Steam Flowing in Turbine Cascades. Proceedings of 4th European Conference on Turbomachinery - Fluid Dynamics and Thermodynamics, pp. 803 – 812, Firenze, Italy (2001).
- Štastný, M., and M. Šejna, Numerical Model of the Flow with Condensation of the Steam Containing Impurities. Proceedings of Second IMACS Conference on Mathematical Modelling and Computational Methods in Mechanics, Physics, Biomechanics and Geodynamics, University of West Bohemia, 25-29, (2001).
- Štastný, M., and M. Šejna, Analysis of Heterohomogeneous Condensation of the Steam Flowing in a Turbine Cascade by Numerical Two-Population Model. Power Plant Chemistry, Vol.2, No.9, s.542 – 546, Germany, (2000).
- Štastný, M., R. B. Dooley, O. Jonas, and M. Šejna, Heterohomogeneous Condensation of Steam Flowing through a Turbine Cascade. Proceedings of the 13th International Conference on the Properties of Water and Steam, p. 918 –925, NRC Research Press, Ottawa, Kanada, (2000).
- Štastný, M., and M. Šejna, Numerical Analysis of Heterohomogeneous Condensation of the Steam Flowing in Turbine Cascade. IMechE Conference Transactions, Third European Conference on Turbomachinery-FluidDynamics and Thermodynamics, March 2-5, London, Volume B, Paper C557/082/99, 815–826, London UK (1999).
- Šimůnek, J., K. Huang, M. Šejna, M. Th. van Genuchten, J. Majerçák, V. Novak, and J. Sutor, The HYDRUS-ET Software Package for Simulating the One-Dimensional Movement of Water, Heat and Multiple Solutes in Variably-Saturated Media. Version 1.1. Institute of Hydrology, Slovak Academy of Sciences, Bratislava, Slovakia, 184 p., 1997
- Štastný, M., R. B. Dooley, O. Jonas, and M. Šejna, Behaviour of chemicals in the steam flow through phase transition zone of turbines and its mathematical modelling, Proc. Workshop on Fiftth International Conference on Chemistry in Fossil Plants, June 10-12, Charlotte, NC, USA, 1997.
- Štastný, M., O. Jonas, M. Šejna, Numerical Analysis of the flow with condensation and chemicals in steam in a turbine cascade, Proceedings of the EPRI Workshop, 24.10. - 26.10.1995, Rochester, USA, 1996.
- Damasková, H., J. Šimůnek, and M. Šejna, Modeling nitrate transport under transient flow conditions, In: ModelCARE'96: Poster session volume, Intern. Conf. on Calibration and Reliability in Groundwater Modelling, Ed. P. van der Heijde, K Kovar, and L. Konikow,, Intern. Ground Water Modeling Center, Golden, CO, 61-70, 1996.
- Štastný, M., and M. Šejna, Condensation Effects in Transonic Flow through Turbine Cascade, Proceedings of the 12-th International Conference of the Properties of Water and Steam, New York, Begel House, 711-719, 1995.
- Šimůnek, J., D. L. Suarez, and M. Šejna, An Interactive graphics-based user interface for the UNSATCHEM model, Proc. Workshop on Computer Applications in Water Management, Information Series No 79, Ed. L. Ahuja, J. Leppert, K. Rojas, and E. Seely, Colorado Water Resour. Res. Institute, Fort Collins, CO, 280-282, 1995.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, An Interactive graphics-based user interface for the SWMS_2D code, Proc. Workshop on Computer Applications in Water Management, Information Series No 79, Ed. L. Ahuja, J. Leppert, K. Rojas, and E. Seely, Colorado Water Resour. Res. Institute, Fort Collins, CO, 271-273, 1995.
- Suarez, D. L., J. Šimůnek, and M. Šejna, Using UNSATCHEM with user-friendly interface as a water management tool, Proc. Workshop on Computer Applications in Water Management, Information Series No 79, Ed. L. Ahuja, J. Leppert, K. Rojas, and E. Seely, Colorado Water Resour. Res. Institute, Fort Collins, CO, 162-166, 1995.
- Šimůnek, J., M. Šejna, M. Th. van Genuchten, and D. L. Suarez, The SWMS_2D code with a user-friendly interface in a Windows environment, Proc. Workshop on Computer Applications in Water Management, Information Series No 79, Ed. L. Ahuja, J. Leppert, K. Rojas, and E. Seely, Colorado Water Resour. Res. Institute, Fort Collins, CO, 157-161, 1995.
- Šejna M., and J. Lain, Numerical Modelling of Wet Steam Flow with Homogeneous Condensation on Unstructured Triangular Meshes, ZAMM (Z.angew.Math.Mech.) 74, 5, T375-T378, 1994.
- Šejna M., Numerical Modelling of Unsteady Wet Steam Flow, ZAMM (Z.angew.Math.Mech.) 73, 6, T578-T581, 1993.
II. Abstracts:
- Šimůnek, J., M. Šejna, M. Kandelous, N. Lazarovitch, and M. Th. van Genuchten, Special boundary conditions in HYDRUS (2D/3D) for irrigation systems, SSSA annual meeting, San Antonio, TX, October 17-19, 2011.
- Brodsky, L., R. Kodesova, K. Spazierova, J. Šimůnek, and M. Sejna, FLOREO – a system for flash flood monitoring and forecasting in the Czech Republic, Geophysical Research Abstracts, Vol. 13, EGU2011-5082, 2011, EGU General Assembly, Vienna, Austria, April 3-9, 2011.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, Modeling nonequilibrium and preferential flow and transport with HYDRUS, Soil Science Society America annual meeting, Agronomy Abstracts, published on a CD-ROM as abstract 783-3, ASA, Madison, 2008.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, Modeling nonequilibrium and preferential flow and transport with HYDRUS, Invited presentation, Geophysical Research Abstracts, Vol. 10, EGU2008-A-01730, 2008, SRef-ID: 1607-7962/gra/EGU2008-A-01730, EGU General Assembly 2008.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, New Features and New Developments in HYDRUS Software Packages, The Second HYDRUS Workshop, March 28, 2008, Dept. of Soil Science and Geology, Czech University of Life Sciences, Prague, Czech Republic, pp. 6, 2008.
- Šimůnek, J., M. Th. van Genuchten, M. Sejna, N. Toride, and F. J. Leij, The STANMOD computer software for evaluating solute transport in porous media using analytical solutions of convection-dispersion equation, Agronomy Abstracts, 418, ASA, Madison, WI, 2000.
- Šimůnek, J., Sejna M, and M. Th. van Genuchten, The HYDRUS-1D and HYDRUS-2D codes for estimating unsaturated soil hydraulic and solute transport parameters, Agronomy Abstracts, ASA, Madison, WI, 1999.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, The HYDRUS-1D and HYDRUS-2D software packages and their use for estimating unsaturated soil hydraulic and solute transport parameters, Annales Geophysicae Supplement, European Geophysical Society, 1999.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, User-friendly interface for HYDRUS-1D code in Windows environment, Agronomy Abstracts, 59, ASA, Madison, WI, 1997.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, User-friendly interface for HYDRUS-1D code in Windows environment, Annales Geophysicae Supplement II to Vo. 15, European Geophysical Society, C263, 1997.
- Damašková, H., J. Šimůnek, and M. Šejna, Modeling soil water and nitrate movement in the small catchment, Annales Geophysicae, Supplement II to Vo. 14, European Geophysical Society, C378, 1996.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, User-friendly interface for HYDRUS-2D code in Windows environment, Annales Geophysicae, Supplement to Vo. 14, European Geophysical Society, C327, 1996.
- Šimůnek, J., D. L. Suarez, and M. Šejna, User-friendly interface for the UNSATCHEM code in Windows environment, Agronomy Abstracts, 64, ASA, Madison, WI, 1995.
- Suarez, D. L., J. Šimůnek, and Sejna M, UNSATCHEM-2D code for multicomponent solute transport of major ions and its user-friendly interface, Agron. Abstracts, 97, ASA, Madison, WI, 1994.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, User-friendly interface for SWMS_2D code in Windows environment, Agronomy Abstracts, 97, ASA, Madison, WI, 1994.
- Šejna, M., J. Šimůnek, D. L. Suarez, and M. Th. van Genuchten, Unstructured mesh generation and its application in models of two-dimensional transport processes, Agronomy Abstracts, 97, ASA, Madison, WI, 1994.
III. Research Reports:
- Šejna, M., J. Šimůnek, J., and M. Th. van Genuchten, The HYDRUS Software Package for Simulating Two- and Three-Dimensional Movement of Water, Heat, and Multiple Solutes in Variably-Saturated Media, User Manual, Version 2.0, PC Progress, Prague, Czech Republic, pp. 280, 2011.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, The HYDRUS Software Package for Simulating Two- and Three-Dimensional Movement of Water, Heat, and Multiple Solutes in Variably-Saturated Media, Technical Manual, Version 2.0, PC Progress, Prague, Czech Republic, pp. 258, 2011.
- Šimůnek, J., M. Šejna, H. Saito, M. Sakai, and M. Th. van Genuchten, The HYDRUS-1D Software Package for Simulating the Movement of Water, Heat, and Multiple Solutes in Variably Saturated Media, Version 4.0, HYDRUS Software Series 3, Department of Environmental Sciences, University of California Riverside, Riverside, California, USA, pp. 315, 2008.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, The HYDRUS Software Package for Simulating Two- and Three-Dimensional Movement of Water, Heat, and Multiple Solutes in Variably-Saturated Media, User Manual, Version 1.0, PC Progress, Prague, Czech Republic, pp. 161, 2007.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, The HYDRUS Software Package for Simulating Two- and Three-Dimensional Movement of Water, Heat, and Multiple Solutes in Variably-Saturated Media, Technical Manual, Version 1.0, PC Progress, Prague, Czech Republic, pp. 241, 2006.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, The HYDRUS-1D Software Package for Simulating the One-Dimensional Movement of Water, Heat and Multiple Solutes in Variably-Saturated Media. Version 3.0. HYDRUS Software Series 1, Department of Environmental Sciences, University of California, Riverside, 240 p., 2005
- Šejna M.: Numerické simulace proudění páry v energetických zařízeních. Výzkumná zpráva. Západočeská Univerzita v Plzni, 2003
- Šejna M.: Numerické simulace proudění páry v energetických zařízeních. Výzkumná zpráva. Západočeská Univerzita v Plzni, 2002
- Šejna M.: Numerické simulace proudění páry v energetických zařízeních. Výzkumná zpráva. Západočeská Univerzita v Plzni, 2001
- Šimůnek, J., M. Th. van Genuchten, M. Sejna, N. Toride, and F. J. Leij, The STANMOD software package for evaluating solute transport in porous media using analytical solutions of the convection-dispersion equation. Version 1.0. IGWMC-TPS-71, Int. Ground Water Modeling Center, Colorado School of Mines, Golden, CO, 32 p.,1999.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, The HYDRUS-2D software package for simulating two-dimensional movement of water, heat, and multiple solutes in variably saturated media. Version 2.0. IGWMC - TPS - 70, International Ground Water Modeling Center, Colorado School of Mines, Golden, Colorado, 251pp., 1999.
- Šimůnek, J., K. Huang, M. Šejna, and M. Th. van Genuchten, The HYDRUS-1D software package for simulating the one-dimensional movement of water, heat, and multiple solutes in variably-saturated media. Version 1.0. IGWMC - TPS - 70, International Ground Water Modeling Center, Colorado School of Mines, Golden, Colorado, 186pp., 1998.
- Šimůnek, J., M. Th. van Genuchten, and M. Šejna, The HYDRUS-1D software package for simulating the one-dimensional movement of water, heat, and multiple solutes in variably-saturated media, Program and Abstracts of the International Workshop Characterization and Measurement of the Hydraulic Properties of Unsaturated Porous Media, US Salinity Laboratory, USDA, ARS Riverside, CA, p. 153, 1997.
- Šimůnek, J., D. L. Suarez, and M. Šejna, The UNSATCHEM software package for simulating one-dimensional variably saturated water flow, heat transport, carbon dioxide production and transport, and multicomponent solute transport with major ion equilibrium and kinetic chemistry, Version 2.0, Research Report No. 141, U.S. Salinity Laboratory, USDA, ARS, Riverside, California, 186pp., 1996.
- Šimůnek, J., M. Šejna, and M. Th. van Genuchten, The HYDRUS-2D software package for simulating water flow and solute transport in two-dimensional variably saturated media. Version 1.0. IGWMC - TPS - 53, International Ground Water Modeling Center, Colorado School of Mines, Golden, Colorado, 167pp., 1996.
- Šejna M.: Numerické řešení 2D stlačitelného nevazkého dvoufázového proudění při pou_ití nestrukturované sítě a TVD schémat. Výzkumná zpráva SVÚSS Běchovice č. 92-04008, 1992
- Šejna M., Numerické modelování 2-dimenzionálního nestacionárního stlačitelného proudění mokré páry se spontánní kondenzací. Výzkumná zpráva SVÚSS Běchovice č. 91-04010, 1991
- Šejna M.: Numerické řešení 1-dimensionálního dvoufázového prudění mokré páry v Lavalově dýze. Výzkumná zpráva SVÚSS Běchovice č. 90-04019, 1990
- Šejna M, Kozel K.: Řešení stacionárního transsonického proudění metodou ustalování při u_ití modelu Eulerových rovnic a Runge-Kuttovy metody. Výzkumná zpráva SVÚSS Běchovice č. 88-04024, 1988
III. Miscellaneous:
- Šejna M.: Numerické modelování dvoufázového proudění vodní páry s homogenní kondenzací, Kandidátská disertační práce, Ústav termomechaniky ČSAV, Praha, 1995.
- Lain J., Sejna M.: Unstructured Triangular Meshes and TVD Schemes for Fluid Flow Computations. Sborník Numerical Methods Solving 2D and 3D inviscid and viscous flows II, results of the solution of IBM Academic Initiative 1992, Editor K. Kozel, Fakulta strojní, ČVUT Praha, str. 83 - 94, 1992
- Sejna M., Kozel K.: Numerical Investigation of 1D Unsteady Wet Steam Flow. Sborník semináře Mathematical Modelling in Engineering, Fakulta strojní ČVUT Praha, str. 87-90, 1991
- Šejna M., Kozel K.: Numerická řešení jednorozměrného stacionárního i nestacionárního transsonického proudění, Strojírenství, 41, číslo 2, str. 46-48, 1991
- Šejna M.: Matematický model a numerické řešení dvoufázového transsonického jednodimenzionálního proudění mokré páry v Lavalově dýze. Písemná práce ke kandidátskému minimu. SVÚSS Běchovice 1990