Table Of ContentGUIDE TO PROCESS
BASED MODELING
OF LAKES AND
COASTAL SEAS
Anders Omstedt
Second Edition
Guide to Process Based Modeling of Lakes
and Coastal Seas
Anders Omstedt
Guide to Process Based
Modeling of Lakes
and Coastal Seas
Second Edition
123
ProfessorAnders Omstedt
Department ofMarine Sciences,
Oceanography
University of Gothenburg
Göteborg
Sweden
SPRINGER–PRAXIS BOOKS INGEOPHYSICAL SCIENCES
SUBJECTADVISORYEDITOR:PhilippeBlondel,C.Geol.,F.G.S.,Ph.D.,M.Sc.,F.I.O.A.,
SeniorScientist, Department of Physics,University ofBath, Bath, UK
Additional material tothis bookcanbedownloaded from http://extras.springer.com
ISBN978-3-319-17989-6 ISBN978-3-319-17990-2 (eBook)
DOI 10.1007/978-3-319-17990-2
LibraryofCongressControlNumber:2015941138
SpringerChamHeidelbergNewYorkDordrechtLondon
©SpringerInternationalPublishingSwitzerland2015
Thisworkissubjecttocopyright.AllrightsarereservedbythePublisher,whetherthewholeorpart
of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations,
recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission
orinformationstorageandretrieval,electronicadaptation,computersoftware,orbysimilarordissimilar
methodologynowknownorhereafterdeveloped.
The use of general descriptive names, registered names, trademarks, service marks, etc. in this
publicationdoesnotimply,evenintheabsenceofaspecificstatement,thatsuchnamesareexemptfrom
therelevantprotectivelawsandregulationsandthereforefreeforgeneraluse.
The publisher, the authors and the editors are safe to assume that the advice and information in this
book are believed to be true and accurate at the date of publication. Neither the publisher nor the
authorsortheeditorsgiveawarranty,expressorimplied,withrespecttothematerialcontainedhereinor
foranyerrorsoromissionsthatmayhavebeenmade.
Coverdesign:JimWilkie
Projectmanagement:OPSLtd,GtYarmouth,Norfolk,UK
Printedonacid-freepaper
SpringerInternationalPublishingAGSwitzerlandispartofSpringerScience+BusinessMedia
(www.springer.com)
Foreword by Urban Svensson
(Computer-aided Fluid Engineering AB)
The Ekman spiral, the benthic boundary layer, and the wind-induced near-surface
flowinalakeareallexamplesofenvironmentalboundarylayers.Theatmospheric
boundary layer is another member of this class of flows. As heat and matter are
transported across these boundary layers, it is clear that all contributions to the
understanding of the nature of these flows are of great value.
ThecomputercodeProgramforBoundaryLayersintheEnvironment(PROBE)
isintendedtobeatoolforuseinthestudyoftheseclassesofflows.Thehistoryof
PROBE goes back to 1975 when I was a student at Imperial College, London.
ProfessorBrianSpaldingsupervisedmeinanumberofsmallprojectsdealingwith
environmental flow and heat transfer. One of these considered the seasonal ther-
mocline in lakes—a project that was later (1978) presented as my Ph.D. In 1982,
I took up a position at the Swedish Meteorological and Hydrological Institute
(SMHI).TogetherwithmycolleaguesatSMHI,PROBEwasfurtherdevelopedand
alsousedinreal-worldproblems. Amongthemajordevelopmentsduringtheearly
1980s, I would like to single out frazil ice dynamics (work done by Anders
Omstedt), heat transfer in lakes including sediments (work done by Jörgen
Sahlberg), and transport across the benthic boundary layer (work done by
Lars-Arne Rahm). In 1986, I left SMHI, and soon thereafter, my involvement in
PROBEended.Duringthelast20years,AndersOmstedtandJörgenSahlberghave
successfully continued the development of PROBE and have linked biogeochem-
ical variables to the code.
This book gives a detailed account of PROBE. Emphasisis placed on thebasic
equations (both physical and biogeochemical) and the methods for their solution.
Asthecomputer codeandexercisesarealsoincluded,thereader shouldbeableto
getafullunderstandingof(andbeabletorepeat)mostofthesimulationspresented
in the book.
Finally, I should like to say that it gives me great pleasure to see that the work
I once initiated is now the subject of a book.
v
ö
Foreword by J rgen Sahlberg
(Swedish Meteorological and Hydrological Institute)
AlargestepwastakenbyAndersOmstedtin1990whenheusedPROBEtomodel
the whole Baltic Sea as 13 sub-basins—including the Kattegat, the Belt Sea, and
Öresund—andasaresult achievedhigh vertical resolutionineachbasin. Thiswas
the first attempt to use PROBE on more than one coupled sub-basin. This model,
called PROBE-Baltic, has been further developed during the last 20 years and has
been used in many different applications: For example, it is capable of simulating
the effect of climate change on salinity, temperature, and ice conditions in the
Baltic. During the last 5–10 years, PROBE has also been used for solving bio-
geochemical equations in both the PROBE-Baltic model and the closely related
Coastal Zone model. Anders has used the PROBE-Baltic model to investigate the
uptakeandreleaseofcarbondioxideintheBalticandbottomoxygenconditionsas
a result of different physical forcing.
My own contribution during the last ten years has been the development of the
Coastal Zone model—an extension of the PROBE-Baltic model. It was developed
mainlytodescribethenitrogen,phosphorus,oxygen,andphytoplanktonconditions
in coastal waters around Sweden. Today, it covers the whole of the Swedish coast
and is applied to more than 600 coupled sub-basins. The model has also been
applied to Lake Mälaren (situated close to Stockholm).
SMHI has recently developed a database called “Vattenweb” where all the
Coastal Zone model results may be found and extracted over the Internet. During
the last 30 years, the PROBE model has been used in many different applications
andinmorethan100scientificarticles.Inthefuture,wewillprobablyseeanduse
the PROBE model in cloud computing.
Finally, I would like to thank Urban Svensson and Anders Omstedt for all the
valuable PROBE discussions we have had over the years. Anders deserves special
thanks for his initiative in writing this book.
vii
Preface to the Second Edition
Thesecondeditionwaspreparedsomeyearsafterthefirstone.Interestingprogress
inmodelingcoastalseaswasmadeduringthisperiod,andconcernhasincreasedas
totheimportanceofconsideringmultiple stressors actingontheseas. Coastal seas
are under severe human-induced pressures, such as global climate change, excess
nutrient release, pollution, ammunition dumping, overfishing, and various
engineering-basedmodifications,includingthestronggrowthofcoastalsettlement,
hydro- and nuclear power plants, massive wind farms, and various bridge and
tunnel crossings. Atthesametime,coastal areas areusedformany purposes,such
as intensive agriculture, shipping, and recreation.
Ocean acidification has emerged as a key research priority for marine science,
and only recently, this has been addressed in coastal seas. The combination of
acidification and increasing amounts of anoxic waters associated with eutrophica-
tion puts severe stress onthemarine environment.The detectionandattribution of
anthropogenicchangesincoastalseasarethereforecrucial,andmodeling toolsare
increasingly important.
In the second edition, the presentation of biogeochemical aspects has been
rewrittenandSect.4.8,“ModelingtheDynamicsofCO inRedoxEnvironments,”
2
has been added. Modeling the marine CO –O system makes climate change and
2 2
eutrophication studies possible and is fundamental to understanding the Earth
system. The second editionalso includesnewsectionsondetection and attribution
and on modeling future changes, as well as improved exercises, updated software,
and datasets.
March 2015 Anders Omstedt
ix
Preface to First Edition
GuidetoProcessBasedModelingofLakesandCoastalSeasisbasedonaseriesof
lectures delivered to students at advanced and Ph.D. levels at the Department of
EarthSciences,UniversityofGothenburg.Itisintendedtoprovidethereaderwitha
scientific understanding and well-tested computer code for successful aquatic
studies. The intended reader should have some knowledge of geophysical fluid
dynamics, numerical analysis, and computer programming. The structure of the
Guide allows readers to develop their understanding gradually. Incorporating a
range of exercises with solutions, the Guide is a comprehensive teaching aid.
Learning via a combination of reading, analyzing observations, and building
computermodelsisaveryrewardingprocess.Thisapproachalsomakesitpossible
for the learner to follow scientific developments, test new ideas, and evaluate
research results.
The most characteristic feature of valid science is reproducibility. If scientists
from different research groups cannot reproduce new results, they must conclude
that they are invalid. This is the great strength of science, as it generates a system
for self-correction. Earlier efforts and even some current research efforts have had
problems in this area. Data and models are often gathered and developed at single
institutions by scientists who are largely concerned with completing their research
programs.Thedevelopmentofaddingsupplementarymaterialtopublishedarticles
representsastepforward.Quality-controlledshareddatabasesareurgentlyneeded,
as are peer-reviewed data evaluations. Models introduce an even greater problem,
as they are often undergoing development and are unavailable to the broader sci-
entificcommunity.Theneedtomakemodelcodes,modelforcingdata,andoutput
data available to other groups is therefore fundamental. This Guide seeks to make
aquatic modeling transparent and to share with the reader the joy of discovery
inherent in scientific work.
January 2011 Anders Omstedt
xi
Cover photograph: Observations and mathematical modeling are the two major
tools for learning about aquatic systems. The photograph was taken during turbu-
lence measurements under calm conditions in the Gullmar Fjord on the Swedish
west coast (photograph courtesy of Christian Stranne).
xiii
Acknowledgments
This book started as acollection of lecturenotes for students from theDepartment
of Earth Sciences, Oceanography, University of Gothenburg, and from SMHI.
Many people have contributed to the development of this material, including Leif
Anderson, Lars Axell, Göran Björk, Ulf Cederlöf, Deliang Chen, Moa Edman
(particularly in biogeochemical modeling), Christin Eriksson, Mattias Green, Bo
Gustafsson, Erik Gustafsson, Daniel Hansson, Matti Leppäranta (who made many
usefulcommentsonthisbook),HelmaLindow,ChristianNohr,LeifNyberg,Johan
Rodhe, Anna Rutgersson-Owenius, Bernd Schneider, Hans von Storch, Christian
Stranne, Artur Svansson, Karin Wesslander, and Anna Wåhlin. Special thanks are
extendedtotheBALTEXSecretariatfortheirstrongsupportofBalticSearesearch,
to Jim Overland for many years of friendly discussions, to Urban Svensson for
creating a really useful program, to Anders Stigebrandt for his bold approach to
science, to Jörgen Sahlberg for his firm support, to Gösta Walin for his pure
scientific spirit, and to Hans von Storch for inspiration regarding detection and
attribution studies. Thanks are also due to Krister Boquist, Barry Broman, Phil
Graham, Brian MacKenzie, Anders Moberg, and Jörgen Nilsson for making the
data available. Agneta Malm is acknowledged for help with several figures and
Stephen Sanborn at Proper English for editing the text.
CapablecomputersupportfromMartinJohnssonandMatsOlssonhasmadethe
work easier. The positive spirit at the Department of Earth Sciences and in the
BALTEX research community has made my time working on modeling very
productive and fun.
This work was partly financed by the University of Gothenburg, the Swedish
Research Council, and the BONUS/Baltic-C program. Finally, the author wants to
thank the PRAXIS team for their strong support in getting this book published.
xv
