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<noinclude>__NOEDITSECTION__<center>__NOTOC__<span style="font-size:2.5em;">CSDMS 2016 Annual Meeting<br>'''Capturing Climate Change'''</span><br><br>
<noinclude>__NOEDITSECTION__<center><span style="font-size:2.5em;">__NOTOC__The joint 2016 CSDMS - SEN<sup>*</sup> Annual Meeting<br>'''Capturing Climate Change'''</span><br><br>
<span style="font-size:1.8em;">May 17 -19<sup>th</sup> 2016, Boulder Colorado, USA</span><br>
<span style="font-size:1.8em;">May 17 -19<sup>th</sup> 2016, Boulder Colorado, USA</span><br>
</center><br><br>
</center><br><br>
<span style="font-size:1.2em;"><font color="red">Optional:</font> May 16<sup>th</sup> 2016, [[Form:CSDMS_annual_meeting#Pre-conference one-day Software Carpentry bootcamp|pre-conference bootcamp]]<br></span><br>
<div style="float:right;">{{TOC limit|3}}</div>
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::<span class="plainlinks">[{{server}}{{localurl:Special:Userlogin|returnto=Form:CSDMS_annual_meeting }} Log in]</span> (<font size="0.6">or [[Special:RequestAccount | create account]] for non-CSDMS members</font>) <font color="gray" size="0.6"><br>Forgot username? <span class="plainlinks">[http://csdms.colorado.edu/wiki/Search_username Search]</span> or email:[mailto:CSDMSweb@colorado.edu CSDMSweb@colorado.edu]</font>}}
::<span class="plainlinks">[{{server}}{{localurl:Special:Userlogin|returnto=Form:CSDMS_annual_meeting }} Log in]</span> (<font size="0.6">or [[Special:RequestAccount | create account]] for non-CSDMS members</font>) <font color="gray" size="0.6"><br>Forgot username? <span class="plainlinks">[https://csdms.colorado.edu/wiki/Search_username Search]</span> or email:[mailto:CSDMSweb@colorado.edu CSDMSweb@colorado.edu]</font>}}
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::::* '''Register'''  
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::::* '''Abstract submission'''
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::::* '''Academia or Government, registration fee: $200'''<br>
::::* '''Academia or Government, registration fee: $200''' ''(After April 1st: $300)''<br>
::::* '''Industry, registration fee: $1,500<br><font color="gray" size="0.6">''Third party website''</font>
::::* '''Industry, registration fee: $1,500 ''' ''(After April 1st: $1,600)''<br>
::::* '''Add $30 when joining pre-conference bootcamp'''<br><font color="gray" size="0.6">''Third party website''</font>
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::<span class="plainlinks">[[image:Pay_button.png|link=https://www.regonline.com/csdmsmeeting2015]]</span>
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=Objectives and general description=
=Objectives and general description=
The joint CSDMS - SEN'''<sup>*</sup>''' 2016 annual meeting will focus on “advances in simulating the imprint of climate change on the land and seascapes, including the processes that influence them”. We would like presentations to either focus on the impacts of present and future climate change, or how climate change has impacted the earth in the past. Topics of interests also include modeling research that integrate different disciplines, different scales, and the synergy between models and experimental data. As in past meetings, keynote speakers are by invitation only, and poster presentations are the general media.
The meeting will include:
# ''State-of-the art keynote presentations'' in earth-surface dynamics and modeling
# ''Hands-on clinics'' related to community models, tools and approaches
# ''Transformative software products and approaches'' designed to be accessible, easy to use, and relevant
# ''Breakout sessions for Working, Focus Research Groups and the Initiatives''
# ''Poster Sessions''
and more!<br><br>
''Poster Information'': The poster boards are configured for 4' wide by 6' tall (portrait orientation) posters. The deadline to submit abstracts is April 15, 2016.<br><br>


The meeting includes: 1) ''State-of-the art keynote presentations'' in earth-surface dynamics and modeling; 2) ''Hands-on clinics'' related to community models, tools and approaches; 3) ''Transformative software products and approaches'' designed to be accessible, easy to use, and relevant;  4) ''Breakout sessions for Working, Focus Research Groups and the Initiatives'' ; 5) ''Poster Sessions''; and more.<br><br>
<!--=Announcements=
''Poster Information'': The poster boards are configured for 4' wide by 6' tall (portrait orientation) posters. The deadline to submit abstracts is April 1, 2015.<br><br>
 
=Announcements=
# If you are participating in the clinics listed below, please bring your HPCC login information to the meeting. If you do not have an account, apply for one here by May 15: https://csdms.colorado.edu/wiki/HPCC_account_request<br>
# If you are participating in the clinics listed below, please bring your HPCC login information to the meeting. If you do not have an account, apply for one here by May 15: https://csdms.colorado.edu/wiki/HPCC_account_request<br>
#* WMT and the Dakota iterative systems toolkit<br>
#* WMT and the Dakota iterative systems toolkit<br>
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#* The keynote talks of this meeting will be available live online through one of the following links: http://www.fin.ucar.edu/it/mms/cg-live.htm, or http://ucarconnect.ucar.edu/live#.VVTV2NNVhHw
#* The keynote talks of this meeting will be available live online through one of the following links: http://www.fin.ucar.edu/it/mms/cg-live.htm, or http://ucarconnect.ucar.edu/live#.VVTV2NNVhHw
#* See the agenda below to plan which keynote talk you would like to follow. Time is presented as Mountain Standard Time (or UTC−07hrs).  
#* See the agenda below to plan which keynote talk you would like to follow. Time is presented as Mountain Standard Time (or UTC−07hrs).  
 
-->
=Agenda=
=Agenda=
Click [[Media:Agenda_CSDMS_2015.pdf|here]] to view the final agenda
Click [[Media:2016_Annual_Meeting_Draft_Agenda_1.0.pdf|here]] to view the draft agenda of 12/29/2015.
<!--
<br><br>
==Keynote Speakers==
==Keynote Speakers==
As of now:<br>
{{Keynote-clinics
{{Keynote-clinics
| name = Brian Fath
| name = Jean Braun
| affiliation = Towson University; International Institute for Applied Systems Analysis
| affiliation = Institut des Sciences de la Terre, Universitaire de Grenoble
| participants =  
| participants =  
| title = Quo Vadis Ecosystem? Insights from Ecological Modelling and Systems Ecology
| title = Links Between Mantle Convection, Tectonics, Erosion and Climate: Recent Model Developments and Results
| abstract = The question of ecosystem dynamics is relevant from a scientific and management perspective. Knowing the natural tendencies and trajectories of ecosystems will assist in planning for their development and restoration. One key feature is how the ecosystem uses the available energy flows to move further from thermodynamic equilibrium and increase its overall complexity in terms of total biomass, biodiversity, network connectivity, and information. In this presentation, I review some of the main concepts that have been used to identify these dynamic trajectories. Namely, it can be shown using network analysis that a number of ecological goal functions pertaining to energy, exergy, biomass, embodied energy, entropy, and information are complementary displaying various angles of the same general complexification phenomena.<br>  
| abstract = Plate tectonics is the primary process controlling the Earth’s surface topography. In recent years, geodynamicists have emphasised the role that deep mantle flow may play in directly creating long wavelength, low amplitude topography (a so-called “dynamic” contribution to surface topography). In parallel, geomorphologists have investigated how surface processes (erosion, transport and sedimentation) may affect dynamic topography, with the aim of better understanding its signature in the geological record. To achieve this, we have developed a new class of surface processes models that represent the combined effects of physical erosion and chemical alteration within continental interiors. In developing these models, we have paid much attention to maintaining high efficiency and stability such that they could be used to model large continental areas with sufficient spatial resolution to represent the processes at the appropriate scale. I will briefly present these algorithms as well as the results of two separate studies in which we explain the anomalously rapid erosion of surface material during the passage of a continent over a fixed source of dynamic topography driven by upward flow in the mantle. I will also comment on how these models are strongly dependent on precipitation patterns and, ultimately, will need to be fully coupled to climate models to provide more meaningful constraints on the past evolution of surface topography. <br>  
}}{{Keynote-clinics
}}
| name = Randy LeVeque
{{Keynote-clinics
| affiliation = University of Washington
| name = Enrique Curchitser
| affiliation = Institute of Marine and Coastal Sciences, Rutgers University
| participants =  
| participants =  
| title = The GeoClaw Software
| title = draft - Multi-Scale Modeling of Ocean Boundary Currents
| abstract = GeoClaw is an open source Fortran/Python package based on Clawpack (conservation laws package), which implements high-resolution finite volume methods for solving wave propagation problems with adaptive mesh refinement.  GeoClaw was originally developed for tsunami modeling and been validated via benchmarking workshops of the National Tsunami Hazard Mitigation Program for use in hazard assessment studies funded through this program.  Current project include developing new tsunami inundation maps for the State of Washington and the development of new probabilistic tsunami hazard assessment (PTHA) methodologies.  The GeoClaw code has also been extended to the study of storm surge and forms the basis for D-Claw, a debris flow and landslide code being developed at the USGS and recently used to model the 2014 Oso, Washington landslide, for example.
| abstract =
}}{{Keynote-clinics
}}
| name = Stefano Nativi
{{Keynote-clinics
| affiliation = Institute of Atmospheric Pollution Research of the National Research Council of Italy (CNR-IIA)
| name = Mark Rounsevell
| participants =
| affiliation = University of Edinburgh
| title = GEOSS and its Common Infrastructure
| abstract = Established in 2005, GEO (http://www.earthobservations.org/) is a voluntary partnership of governments and organizations that envisions “a future wherein decisions and actions for the benefit of humankind are informed by coordinated, comprehensive and sustained Earth observations and information.” GEO Member governments include 96 nations and the European Commission, and 87 Participating Organizations comprised of international bodies with a mandate in Earth observations. Together, the GEO community is creating a Global Earth Observation System of Systems (GEOSS) that will link Earth observation resources world-wide across multiple Societal Benefit Areas - agriculture, biodiversity, climate, disasters, ecosystems, energy, health, water and weather - and make those resources available for better informed decision-making. Through the GEOSS Common Infrastructure (GCI), GEOSS resources, including Earth observation data (satellite, airborne, in situ, models), information services, standards and best practices, can be searched, discovered and accessed by scientists, policy leaders, decision makers, and those who develop and provide information services across the entire spectrum of users.<br><br>The presentation will cover the GCI overall architecture and some possible future developments.
 
}}{{Keynote-clinics
| name = Kyle Straub
| affiliation = Tulane
| participants =  
| participants =  
| title = Signals of Relative Sea Level perturbations: Defining the divide between autogenic signal shredding vs. preservation in the stratigraphic record
| title = draft - Integrative assessment modeling and Climate Change
| abstract = Kyle M. Straub and Qi Li<br>Tulane University, Department of Earth and Environmental Sciences<br><br>Recent theoretical work suggests that autogenic processes in sediment transport systems have the capacity to shred signals of environmental and tectonic perturbations prior to transfer to the stratigraphic record. We view this theory as a major conceptual and quantitative breakthrough in long time scale Earth-surface processes and stratigraphy, but the general theory still needs to be adapted to deal with specific types of signals. Many argue that the tug of Relative Sea Level (RSL) change represents the most important boundary condition forcing affecting continental margin transport systems. However, we still lack quantitative theory to explain what properties RSL cycles must have to be stored in stratigraphy, thus limiting the usefulness of stratigraphy for defining paleo-environments. Results from our previously conducted laboratory experiments suggest that RSL cycles with amplitudes less than a channel depth and of periodicities less than the amount of time necessary to deposit, on average, one channel depth of stratigraphy over a delta-top are susceptible to signal shredding. Our hypothesis is supported using existing data sets and new numerical and physical experiments in which the surface process response and preserved record of RSL cycles of varying magnitudes and periodicities is constrained. Quantitative theory and predictions produced from this work is benchmarked against stratigraphy from the Late Miocene to Quaternary stratigraphy of the Mississippi Delta. During this time interval a significant change in the magnitude and periodicity of RSL cycles occurred. RSL cycles in the Late Miocene for the Mississippi Delta are predicted to be shredded, while more recent cycles are predicted to be preserved.
| abstract =  
}}{{Keynote-clinics
}}
| name = Lejo Flores
{{Keynote-clinics
| affiliation = Boise State University
| name = Wonsuck Kim
| affiliation = University of Texas
| participants =  
| participants =  
| title = Modeling the Critical Zone: Challenges and opportunities for network science
| title = draft - Sediment Experimentalists Network Activities and Future Direction
| abstract =
| abstract =  
}}{{Keynote-clinics
}}
| name = Phaedra Upton
{{Keynote-clinics
| affiliation = GNS Science
| name = Jean-Francois Lamarque
| affiliation = National Center for Atmospheric Research
| participants =  
| participants =  
| title = Models meet Data, Earth Surface meet Geodynamics
| title = draft - Community Earth System Model
| abstract = Phaedra Upton, Peter O. Koons, Sam G. Roy, Jamie D. Howarth, Dave Craw<br><br> The Earth’s surface is a boundary layer between internally-driven geodynamics and atmospheric forcing.  In much of what we do as landscape modellers, our analysis of Earth surface can be enhanced by consideration and understanding of the substrate acted upon by hillslope, riverine and glacial processes.  To explore the influence of crustal strength on patterns of fluvial incision, we use a conservative scaling rule to relate rock erodibility to field measurements of cohesive strength.  In other models, grain sizes produced upon the erosion of rock are made a function of field measured fracture density values.  By combining 3D geodynamic codes with landscape evolution models we are able to explore the sensitivity of surface processes to topographic and tectonic stresses, geological history, fault damage, seismic accelerations, pore pressures, and fluid flow.  We present several examples where useful interpretations were made by integrating field, lab, and experimental data with geodynamic models, landscape evolution models, or a combination of both.  Our examples are bias toward collisional settings – the Himalaya, the Southern Alps and Taiwan, but the approach is equally valid when considering strike-slip or extensional settings.
| abstract =
}}{{Keynote-clinics
}}
| name = Forrest Hoffman
{{Keynote-clinics
| affiliation = Oakridge National Laboratory
| name = Nikki Lovenduski
| affiliation = Department of Atmospheric and Ocean Sciences and Institute of Arctic and Alpine Research, University of Colorado, Boulder
| participants =  
| participants =  
| title =Computational Approaches for Model, Experiment, and Data Integration Supporting Site Characterization and Model Evaluation
| title = Ocean Carbon Uptake and Acidification: Can We Predict the Future?
| abstract =Forrest M. Hoffman, Jitendra Kumar, James T. Randerson, William J. Riley, David M. Lawrence, Damian M. Maddalena, Zachary L. Langford, and William W. Hargrove<br><br>Understanding and predicting the response of vegetated ecosystems to climate change and quantifying the resulting carbon cycle feedbacks requires a coherent program of field and laboratory experiments, data synthesis and integration, model development and evaluation, characterization of knowledge gaps, and understanding of ecosystem structure and function. The U.S. Department of Energy supports such a program, which produces community data, models, and analysis capabilities aimed at projecting the impacts of environmental change on future atmospheric carbon dioxide levels, predicting changes in extreme events, and assessing impacts on energy production and use. Two computational approaches--one for quantifying representativeness of field sites and one for systematically assessing model performance--will be presented.<br><br>Resource and logistical constraints limit the frequency and extent of observations, particularly in the harsh environments of the arctic and the tropics, necessitating the development of a systematic sampling strategy to maximize coverage and objectively represent variability at desired scales. These regions host large areas of potentially vulnerable ecosystems that are poorly represented in Earth system models (ESMs), motivating two new field campaigns, called Next Generation Ecosystem Experiments (NGEE) for the Arctic and Tropics, funded by the U.S. Department of Energy. We developed a Multivariate Spatio-Temporal Clustering (MSTC) technique to provide a quantitative methodology for stratifying sampling domains, informing site selection, and determining the representativeness of measurement sites and networks. We applied MSTC to model results and data for the State of Alaska to characterize projected changes in ecoregions and to identify field sites for sampling important environmental gradients.<br><br>As ESMs have become more complex, there is a growing need for comprehensive and multi-faceted evaluation, analysis, and diagnosis of model results. The relevance of model predictions hinges in part on the assessment and reduction of uncertainty in predicted biogeochemical cycles, requiring repeatable, automated analysis methods and new observational and experimental data to constrain model results and inform model development. The goal of the International Land Model Benchmarking (ILAMB) project is to assess and improve the performance of land models by confronting ESMs with best-available observational data sets. An international team of ILAMB participants is developing a suite of agreed-upon model evaluation metrics and associated data at site, regional, and global scales. We are developing Open Source software tools for quantifying the fidelity of model performance, allowing modeling groups to assess confidence in the ability of their models to predict responses and feedbacks to global change.
| abstract = The oceans have absorbed a large fraction of anthropogenic carbon dioxide emissions, having consequences for ocean biogeochemistry and ecosystems via ocean acidification. Simulations with Earth System Models can be used to predict the future evolution of ocean carbon uptake and acidification in the coming decades and beyond, but there is substantial uncertainty in these model predictions, particularly on regional scales. Such uncertainty challenges decision makers faced with protecting the future health of ocean ecosystems.  Uncertainty can be separated into three component parts: (1) uncertainty due to internal variability, (2) uncertainty due to model structure, and (3) uncertainty due to emission scenario. Here, we isolate and quantify the evolution of these three sources of prediction uncertainty in ocean carbon uptake over the next century using output from two sets of ensembles from the Community Earth System Model (CESM) along with output from models participating in the Fifth Coupled Model Intercomparison Project (CMIP5).  We find that the three sources of prediction uncertainty in ocean carbon uptake are not constant, but instead vary with prediction lead time and the scale of spatial averaging.  In order to provide valuable predictions to decision makers, we should invest in reducing the main sources of uncertainty. <br>
}}{{Keynote-clinics
}}
| name = Mary Hill
{{Keynote-clinics
| affiliation = University of Kansas
| name = Bette Otto-Blisner
| affiliation = NCAR
| participants =  
| participants =  
| title = Testing model analysis frameworks
| title = Draft: Continental Modeling
| abstract = Model analysis frameworks specify ideas by which models and data are combined to simulate a system on interest. A given modeling framework will provide methods for model parameterization, data and model error characterization, sensitivity analysis (including identifying observations and parameters important to calibration and prediction), uncertainty quantification, and so on. Some model analysis frameworks suggest a narrow range of methods, while other frameworks try to place a broader range of methods in context. Testing is required to understand how well a model analysis framework is likely to work in practice. Commonly models are constructed to produce predictions, and here the accuracy and precision of predictions are considered.<br><br> The design of meaningful tests depends in part on the timing of system dynamics. In some circumstances the predicted quantity is readily measured and changes quickly, such as for weather (temperature, wind and precipitation), floods, and hurricanes. In such cases meaningful tests involve comparing predictions and measured values and tests can be conducted daily, hourly or even more frequently. The benchmarking tests in rainfall-runoff modeling, such as HEPEX, are in this category. The theoretical rating curves of Kean and Smith provide promise for high flow predictions. Though often challenged by measurement difficulties, short timeframe systems provide the simplest circumstance for conducting meaningful tests of model analysis frameworks.<br><br> If measurements are not readily available and(or) the system responds to changes over decades or centuries, as generally occurs for climate change, saltwater intrusion of groundwater systems, and dewatering of aquifers, prediction accuracy needs to be evaluated in other ways. For example, in recent work two methods were used to identify the likely accuracy of different methods used to construct models of groundwater systems (including parameterization methods): (1) results of complex and simple models were compared and (2) cross-validation experiments. These and other tests can require massive computational resources for any but the simplest of problems. In this talk we discuss the importance of model framework testing in these longer-term circumstances and provide examples of tests from several recent publications. We further suggest that for these long-term systems, the design and performance of such tests are essential for the responsible development of model frameworks, are critical for models of these environmental systems to provide enduring insights, and are one of the most important uses of high performance computing in natural resource evaluation.
| abstract =
}}{{Keynote-clinics
}}
| name = Raleigh Hood
{{Keynote-clinics
| affiliation = University of Maryland
| name = Jon Pelletier
| affiliation = University of Arizona
| participants =  
| participants =  
| title = Modeling Chesapeake Bay
| title = Modeling the Impact of Vegetation Changes on Erosion Rates and Landscape Evolution
| abstract =In this presentation several modeling efforts in Chesapeake Bay will be reviewed that highlight how we can use 3-dimensional, time-dependent hydrodynamic models to provide insight into biogeochemical and ecological processes in marine systems. Two modeling studies will be discussed which illustrate the application of individual based modeling approaches to simulate the impact of 3-dimensional currents and mixing on pelagic organisms and how these interact with behavior to determine the fate of planktonic species. There are many applications of this approach related to fish and invertebrate (e.g., oyster) larvae transport and fate and also plankton that can be used to inform management efforts.<br><br>A long-term operational modeling project will be discussed that combines mechanistic and empirical modeling approaches to provide nowcasts and short-term forecasts of Sea Nettles, HAB, pathogen and also physical and biogeochemical properties for research, management and public uses in Chesapeake Bay. This is a powerful technique can be expanded to any marine system that has a hydrodynamic model and any marine organism for which the habitat can be defined. <br><br>Finally, a new research project will be reviewed where we are assessing the readiness of a suite of existing estuarine community models for determining past, present and future hypoxia events within the Chesapeake Bay, in order to accelerate the transition of hypoxia model formulations and products from academic research to operational centers. This work, which will ultimately provide the ability to do operational oxygen modeling in Chesapeake Bay (e.g., oxygen weather forecasts), can be extended to other coastal water bodies and any biogeochemical property.
| abstract = In landscape evolution models, climate change is often assumed to be synonymous with changes in rainfall. In many climate changes, however, the dominant driver of landscape evolution is changes in vegetation cover. In this talk I review case studies that attempt to quantify the impact of vegetation changes on landscape evolution, including examples from hillslope/colluvial, fluvial, and aolian environments, spatial scales of ~10 m to whole continents, and time scales from decadal to millennial. Particular attention is paid to how to parameterize models using paleoclimatic and remote sensing data.  
}}{{Keynote-clinics
}}
| name = Ehab Meselhe
{{Keynote-clinics
| affiliation = The Water Institute of the Gulf
| name = Zach Tessler
| affiliation = Environmental CrossRoads Initiative, CUNY Advanced Science Research Center
| participants =  
| participants =  
| title = Coastal Eco-System Integrated Compartment Model (ICM)
| title = From Relative Sea Level Rise to Coastal Risk: Estimating Contemporary and Future Flood Risk in Deltas
| abstract =The Integrated Compartment Model (ICM) is a comprehensive and computationally efficient numerical tool that can be used to provide insights about coastal ecosystems and evaluate restoration and protection strategies.  It includes physical and ecological processes, such as, hydrology, nutrients, vegetation, and morphology.  The ICM can be used to estimate the individual and cumulative effects of restoration projects or strategies on the landscape and ecosystem and the level of impact/risk to communities. The ICM utilizes habitat suitability indices (HSIs) to predict broad spatial patterns of habitat change.  It also provides input parameters to a more dynamic fish and shellfish community models to quantitatively predict potential changes in important fishery resources in the future.<br><br>The model is also used to examine the impact of climate change and future environmental scenarios (e.g. precipitation, Eustatic sea level rise, subsidence, nutrient loading, riverine runoff, storms, etc.) on the landscape and on the effectiveness of restoration or protection strategies.<br><br> The ICM is publically accessible code and research groups in the coastal ecosystem restoration and protection field are encouraged to explore its utility as a computationally efficient tool to examine ecosystems’ response to physical or ecological changes either due to future projections or to the implementation of restoration strategies.
| abstract = Deltas are highly sensitive to local human activities, land subsidence, regional water management, global sea-level rise, and climate extremes.  In this talk, I’ll discuss a recently developed risk framework for estimating the sensitivity of deltas to relative sea level rise, and the expected impact on flood risk. We apply this framework to an integrated set of global environmental, geophysical, and social indicators over 48 major deltas to quantify how delta flood risk due to extreme events is changing over time.  Although geophysical and relative sea-level rise derived risks are distributed across all levels of economic development, wealthy countries effectively limit their present-day threat by gross domestic product–enabled infrastructure and coastal defense investments. However, when investments do not address the long-term drivers of land subsidence and relative sea-level rise, overall risk can be very sensitive to changes in protective capability. For instance, we show how in an energy-constrained future scenario, such protections will probably prove to be unsustainable, raising relative risks by four to eight times in the Mississippi and Rhine deltas and by one-and-a-half to four times in the Chao Phraya and Yangtze deltas. This suggests that the current emphasis on short-term solutions on the world’s deltas will greatly constrain options for designing sustainable solutions in the long term.
}}{{Keynote-clinics
}}
| name = Jean-Arthur Olive
{{Keynote-clinics
| affiliation = MIT / WHOI Joint Program in Oceanography
| name = Don Deangelis
| affiliation = USGS
| participants =  
| participants =  
| title = Modes of extensional faulting controlled by surface processes
| title = Ecological Applications of Agent Based Models
| abstract = Jean-Arthur Olive, Mark D. Behn, and Luca C. Malatesta <br><br>We investigate the feedbacks between surface processes and tectonics in an extensional setting by coupling a 2-D geodynamical model with a landscape evolution law. Focusing on the evolution of a single normal fault, we show that surface processes significantly enhance the amount of horizontal extension a fault can accommodate before being abandoned in favor of a new fault. In simulations with very slow erosion rates, a 15 km- thick brittle layer extends via a succession of crosscutting short-lived faults (heave < 5 km). By contrast, when erosion rates are comparable to the regional extension velocity deformation is accommodated on long-lived faults (heave >10 km). Using simple scaling arguments, we quantify the effect of surface mass removal on the force balance acting on a growing normal fault. This leads us to propose that the major range-bounding normal faults observed in many continental rifts owe their large offsets to erosional and depositional processes.
| abstract =
}}{{Keynote-clinics
}}<!---->
| name = Nick Cohn
| affiliation = Oregon State University
| participants =
| title = Towards assessing the coastal zone as an integrated system: the development of a coupled nearshore and aeolian dune model
| abstract = N. Cohn, E.B. Goldstein, P. Ruggiero, L. J. Moore, O. Duran, J.A. Roelvink, B. Hoonhout<br><br> Coastal environments are complex because of the interplay between aeolian and nearshore processes. Waves, currents, tides, and winds drive significant short term (<weekly) changes to coastal landforms which augment longer term (> annual) geomorphic trends. Great strides have been made in recent years regarding our ability to model coastal geomorphic change in this range of societally relevant time scales. However, a great disparity exists in modeling coastal evolution because subaqueous and subaerial processes are typically assessed completely independent of one another. By neglecting the co-evolution of subtidal and supratidal regions within our current framework, we are precluded from fully capturing non-linear dynamics of these complex systems. This has implications for predicting coastal change during both fair weather and storm conditions, hindering our ability to answer important scientific questions related to coastal vulnerability and beach building.<br><br>Recognizing these historic limitations, here we present the outline for a coupled subaqueous (XBeach) and subaerial (Coastal Dune Model) morphodynamic modeling system that is in active development with the goal of exploring coastal co-evolution on daily to decadal timescales. Furthermore we present recently collected datasets of beach and dune morphology in the Pacific Northwest US that will be used to validate trends observed within the coupled model platform.
}}{{Keynote-clinics
| name = Jennifer Glaubius
| affiliation = University of Kansas
| participants =
| title = Coupled Human and Natural Systems: Testing the Impact of Agricultural Terraces on Landscape Evolution
| abstract =Jennifer E. Glaubius and Xingong Li<br><br>Humans alter natural geomorphic systems by modifying terrain morphology and through on-going actions that change patterns of sediment erosion, transport, and deposition. Long-term interactions between humans and the environment can be examined using numerical modeling. Human modifications of the landscape such as land cover change and agricultural tillage have been implemented within some landscape evolution models, yet little effort has been made to incorporate agricultural terraces. Terraces of various forms have been constructed for millennia in the Mediterranean, Southeast Asia, and South America; in those regions some terraces have undergone cycles of use, abandonment, and reuse. Current implementations of terraces in existing models are as static objects that uniformly impact landscape evolution, yet empirical studies have shown that terrace impact depends upon whether they are maintained or abandoned. We previously tested a simple terrace model that included a single terrace wall on a synthetic hillside with 20% slope for the impacts of maintenance and abandonment. In this research we modify the terrace model to include a wider variety of terrace forms and couple it with a landscape evolution model to test the extent terraced terrain morphology is related to terrace form. We also test how landscape evolution, after abandonment of terraced fields, differs based on length of time the terraces were maintained. We argue that construction and maintenance of terraces has a significant impact on the spatial patterning of sediment erosion and deposition and thus landscape evolution modeling of terraced terrain requires coupling with a dynamic model of terrace use.
}}
<br>
 


==Clinic Leaders==
==Clinic Leaders==
===Tuesday (1<sup>st</sup> day)===
===Tuesday (1<sup>st</sup> day)===
{{Keynote-clinics
{{Keynote-clinics
| name = Mark Piper & Eric Hutton
| name = Irina Overeem & Mark Piper
| affiliation = CSDMS, University of Colorado
| affiliation = CSDMS Integration Facility, INSTAAR, University of Colorado Boulder
| participants = People attending: {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics1::1) WMT and Dakota iterative toolkit]]|format=count}}
| participants =  
| title = WMT and the Dakota iterative systems toolkit
| title = Using TopoFlow in the classroom
| abstract = Dakota (https://dakota.sandia.gov) is an open-source software toolkit, designed and developed at Sandia National Laboratories, that provides a library of iterative systems analysis methods, including sensitivity analysis, uncertainty quantification, optimization, and parameter estimation. Dakota can be used to answer questions such as:<br><br>·What are the important parameters in my model?<br>·How safe, robust, and reliable is my model?<br>·What parameter values best match my observational data?<br><br>Dakota has been installed on the CSDMS supercomputer, beach, and is available to all registered users. The full set of Dakota methods can be invoked from the command line on beach; however, this requires detailed knowledge of Dakota, including how to set up a Dakota input file, and how to pass parameters and responses between a model and Dakota. To make Dakota more accessible to the CSDMS community, a subset of its functionality has been configured to run through the CSDMS Web Modeling Tool (WMT; https://csdms.colorado.edu/wmt). WMT provides access to the following Dakota methods:<br><br>·vector, centered, list and multidimensional parameter studies<br>·design and analysis of computer experiments with Monte Carlo and Latin Hypercube sampling methods<br>·uncertainty quantification with sampling, polynomial chaos expansion and stocastic collocation techniques<br><br>In this clinic, we'll provide an overview of Dakota, then, through WMT, set up and perform a series of numerical experiments with Dakota on beach, and evaluate the results.<br>
| abstract = TopoFlow is a spatially distributed hydrologic model that includes meteorology, snow melt, evapotranspiration, infiltration and flow routing components. It can model many different physical processes in a watershed with the goal of accurately predicting how various hydrologic variables will evolve in time in response to climatic forcings. In the past year, CSDMS IF staff integrated TopoFlow into the CSDMS Web Modeling Tool (WMT, https://csdms.colorado.edu/wmt) and developed new lesson plans for use with it.<br><br>The first part of this clinic focuses on the technical aspects of working with TopoFlow in WMT, including how to: load and couple components, get information on a component, set parameters, upload data files, save a model, and run a model. We’ll discuss features of the TopoFlow implementation in WMT, and explain choices that were made in bringing TopoFlow to the web.<br><br>In the second part of the clinic, we’ll focus on science and education. We will run several TopoFlow simulations on the CSDMS HPCC through WMT. Participants will explore parameter settings, submit runs, and view netCDF output using NASA’s Panoply tool. <br><br>The learning outcomes of this clinic are to have better insight into the behavior of TopoFlow components, and the implementation of these in WMT. Participants will learn how to do TopoFlow model runs, and will have access to TopoFlow online labs and teaching resources lesson plans.
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Gopal Bhatt
| name = Ehab Mesehle & Eric White
| affiliation = Pennsylvania State University
| affiliation = The Water Institute of the Gulf
| participants = People attending: {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics1::2) Develop catchment models with PIHM]]|format=count}}
| participants =  
| title = Accessing National Data and Distributed Models for Catchment Simulation
| title = Coastal Ecosystem Integrated Compartment Model (ICM): Modeling Framework
| abstract = Chris Duffy, Gopal Bhatt, Lorne Leonard<br><br>The objective of the clinic is: (1) to introduce the concept of essential terrestrial variables (ETVs) and HydroTerre1 as a continental scale ETV-repository for catchment modeling, and (2) to demonstrate the use of ETV’s with the Penn State Integrated Hydrologic Model (PIHM) for simulating the catchment water cycle. PIHM2 is a multi-process, multi-scale hydrologic model where the hydrologic processes are fully coupled using the semi-discrete finite volume method. PIHMgis3 is an open source, platform independent, and extensible distributed modeling framework for setup, execute, and analyze model simulations. Through the procedural framework of PIHMgis, participants will be introduced to multiple data processing tools, and presented with a live demonstration of (i) accessing HydroTerre ETV service, (ii) ETV geodata translator for PIHM, (iii) automated ingestion of model parameters from national geospatial databases, (iv) conditional domain decomposition of the watershed into quality triangular mesh elements for numerical simulation, (v) performing multi-state distributed hydrologic model simulations on desktop, and (vi) visualization of model results as time-series plots and geo-spatial maps. In the clinic, an application is developed for a small-scale hillslope catchment Susquehanna-Shalehills Critical Zone Observatory (SSHCZO), which serves as a guided example of the desktop workflow, which is readily used to develop your own catchment simulation.<br><br>1 http://www.hydroterre.psu.edu/HydroTerre/Help/Ethos.aspx<br><br>2 http://www.pihm.psu.edu/index.html<br><br>3 http://www.pihm.psu.edu/pihmgis_home.html
| abstract = The Integrated Compartment Model (ICM) was developed as part of the 2017 Coastal Master Plan modeling effort. It is a comprehensive and numerical hydrodynamic model coupled to various geophysical process models. Simplifying assumptions related to some of the flow dynamics are applied to increase the computational efficiency of the model.  The model can be used to provide insights about coastal ecosystems and evaluate restoration strategies. It builds on existing tools where possible and incorporates newly developed tools where necessary. It can perform decadal simulations (~ 50 years) across the entire Louisiana coast. It includes several improvements over the approach used to support the 2012 Master Plan, such as: additional processes in the hydrology, vegetation, wetland and barrier island morphology subroutines, increased spatial resolution, and integration of previously disparate models into a single modeling framework. The ICM includes habitat suitability indices (HSIs) to predict broad spatial patterns of habitat change, and it provides an additional integration to a dynamic fish and shellfish community model which quantitatively predicts potential changes in important fishery resources. It can be used to estimate the individual and cumulative effects of restoration and protection projects on the landscape, including a general estimate of water levels associated with flooding. The ICM is also used to examine possible impacts of climate change and future environmental scenarios (e.g. precipitation, Eustatic sea level rise, subsidence, tropical storms, etc.) on the landscape and on the effectiveness of restoration projects. The ICM code is publically accessible, and coastal restoration and protection groups interested in planning-level modeling are encouraged to explore its utility as a computationally efficient tool to examine ecosystem response to future physical or ecological changes, including the implementation of restoration and protection strategies.
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Phaedra Upton & Sam Roy
| name = Mary Hill
| participants = People attending: {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics1::3) Influence of faults on Fluvial incision rates and patterns]]|format=count}}
| affiliation = University of Kansas
| affiliation = GNS Science & University of Maine
| participants =  
| title = Exploring the influence of fault damage and fault slip on the patterns and rates of fluvial incision using CHILD and Matlab
| title = MODFLOW: Example applications and what we can learn from this amazingly successful piece of environmental modeling software.
| abstract = Sam Roy<sup>1</sup>, Phaedra Upton<sup>2</sup>, Peter O. Koons<sup>1</sup> and Greg E. Tucker<sup>3</sup><br><br><small><sup>1</sup> Department of Earth Sciences, University of Maine, Orono, ME, USA<br><sup>2</sup> GNS Science, Lower Hutt, New Zealand<br><sup>3</sup> CIRES and Department of Geological Sciences, University of Colorado, Boulder, CO, USA</small><br><br>The interplay between tectonics and surface processes has long been recognized and explored through field observations, laboratory studies, and analogue and numerical modeling.  However, the dependencies that link tectonics and the surface are complex and often difficult to unravel and visualize with current methods and concepts.  To address these difficulties, it is common to create predictive models with algorithms that simplify these natural processes and limit their dependencies on one another.<br><br>In this clinic, we share some simple methods for isolating two tectonic processes: fault damage and fault slip, and explore how they influence the rates and patterns of surface processes. These tectonic processes are introduced as 3D patterns of rock damage and kinematics in a landscape evolution model using Matlab and CHILD. First, we discuss methods for scaling rock damage to erodibility for use in a stream power model. The erodibility field is based on the generic 3D geometry of planar fault damage zones. Next, we include fault slip by using a 3D kinematic solution for dip-slip, oblique-slip, and strike-slip motion. These models include a single slip plane that divides a block of crust into fixed and mobile components. Finally, we combine the rock damage and kinematic fields to observe their combined influence. In these combined models, rock damage becomes a function of the amount of motion accommodated by the slip plane. Throughout the clinic we will explain our methods, interpret model results, discuss their limitations, and postulate ways to improve upon them. The simple methods we employ in this clinic lay a foundation of understanding that can be broadened by use of dynamic, fully coupled models.
| abstract =
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Zhen Cheng (Charlie) & Tian-Jian Hsu (Tom)
| name = Scott Peckham and Allen Pope, University of Colorado, Boulder
| affiliation = University of Delaware
| affiliation = USC, ISI
| participants = People attending: {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics1::4) Modeling Coastal Sediment Transport Using OpenFOAM]]|format=count}}
| participants =  
| title = Modeling Coastal Sediment Transport Using OpenFOAM®
| title = Geoscience Paper of the Future: Training Session on Best Practices for Publishing Your Research Products
| abstract =During a clinic session in the 2013 CSDMS annual meeting, the OpenFOAM®, an open source computational fluid dynamics (CFD) platform, was first introduced by Dr. Xiaofeng Liu (now at Penn State University) for modeling general earth surface dynamics. OpenFOAM® provides various libraries, solvers and toolboxes for solving various fluid physics via finite volume method. The objective of this clinic is to further discuss its recent development and applications to coastal sediment transport. The clinic will start with an overview of a range of coastal applications using OpenFOAM®. We will then focus on a recently released solver, SedFOAM, for modeling sand transport by using an Eulerian two-phase flow methodology. Specifically, we will focus on applying the model to study wave-driven sheet flows and the occurrence of momentary bed failure. The code can be downloaded via CSDMS code repository and participants will receive a hands-on training of the coding style, available numerical schemes in OpenFOAM®, computational domain setup, input/output and model result analysis. Knowledge of C++, object-oriented programming, and parallel computing is not required but will be helpful.  
| abstract = The Geoscience Paper of the Future (GPF) Initiative was created to encourage geoscientists to publish papers together with their associated digital research products following best practices of reproducible articles, open science, and digital scholarship. A GPF includes: 1) Data available in a public repository, including metadata, a license specifying conditions of use, and a citation using a unique and persistent identifier; 2) Software available in a public repository, with documentation, a license for reuse, and a unique and citable using a persistent identifier; 3) Provenance of the results by explicitly describing method steps and their outcome in a workflow sketch, a formal workflow, or a provenance record. Learn to write a GPF and submit to a special section of AGU’s Earth and Space Sciences Journal.  More at http://www.ontosoft.org/gpf/.
}}
}}
===Wednesday (2<sup>nd</sup> day)===
===Wednesday (2<sup>nd</sup> day)===
{{Keynote-clinics
{{Keynote-clinics
| name = Brad Murray & Andrew Ashton
| name = Wonsuck Kim
| affiliation = Duke University
| affiliation = The University of Texas at Austin
| participants = People attending: {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics2::1) Coastal Evolution Modeling (CEM)]]|format=count}}
| participants =  
| title = Coastline Evolution Model (CEM)
| title = SEN
| abstract =The Coastline Evolution Model (CEM) addresses coastline changes that arise from gradients in the net alongshore transport, over timescales that are long compared to storm cycles, and spatial scales that are larger than the cross-shore extent of the shoreface (kilometers on typical open ocean coasts). In the model, coastline morphodynamic feedbacks arise as coastline shapes determine spatial patterns of sediment flux, and gradients in that flux cause changes in shape. In this model system, waves approach from a wide range of directions, and the influences of the whole ‘wave climate’ combine to determine coastline changes and patterns. Wave shadowing—in which protruding coastline features change the local wave climates affecting other parts of the coastline—also plays a key role in coastline evolution in this model. A number of other processes or influences have been added to the model, including: river sediment input and delta evolution; effects of the composition of underlying rocks; two-way interactions between beach sediment and cliff erosion; and human shoreline stabilization.<br><br>This clinic will combine 1) explanations of model principles, assumptions, and limitations with 2) the opportunity for participants to gain some familiarity with running the model, by conducting their own simple model experiments.
| abstract =
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Eric Hutton & Mark Piper
| name = Eric Hutton & Mark Piper
| affiliation = CSDMS, University of Colorado
| affiliation = CSDMS Integration Facility, INSTAAR, University of Colorado Boulder
| participants = People attending: {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics2::2) Basic Model Interface clinic]]|format=count}}
| participants =  
| title =Wrapping Existing Models with the Basic Modeling Interface
| title = BMI: Live!
| abstract = In order to simplify conversion of an existing model to a reusable, plug-and-play model component, CSDMS has developed a simple interface called the Basic Model Interface (BMI) that model developers are asked to implement. In this context, an interface is a named set of functions with prescribed function names, argument types and return types. By design, the BMI functions are straightforward to implement in C, C++, Fortran, Java and Python. Also by design, the BMI functions are noninvasive. A BMI-compliant model does not make any calls to CSDMS components or tools and is not modified to use CSDMS data structures. BMI therefore introduces no dependencies into a model and the model can still be used in a stand-alone manner.<br><br>Models that provide a BMI can be incorporated into a modeling framework, such as the CSDMS model coupling framework, where they gain new capabilities provided by the framework. The CSDMS framework allows coupling of models even if they differ in:<br><br>• programming language,<br>• variable names,<br>• variable units,<br>• time-stepping scheme or<br>• computational grid is different.<br><br>Framework models also gain the ability to write output variables to NetCDF files, a graphical user interface, and the ability to run within the CSDMS Web Tool.<br><br>This clinic will explain the key concepts of BMI (and CSDMS Standard Names), and will demonstrate, through example, how to implement a BMI for an existing model. It will also include an overview of the CSDMS Standard Names, which provide a uniform way to map input and output variable names between component models as part of a BMI implementation. Participants are encouraged to read the associated CSDMS wiki pages in advance. See<br><br>• [[BMI_Description|BMI Description]]<br>• [[CSDMS_Standard_Names|CSDMS Standard Names]]
| abstract = CSDMS has developed the Basic Model Interface (BMI) to simplify the conversion of an existing model in C, C++, Fortran, Java, or Python into a reusable, plug-and-play component. By design, the BMI functions are straightforward to implement. However, in practice, the devil is in the details.<br><br>In this hands-on clinic, we will take a model -- in this case, an implementation of the two-dimensional heat equation in Python -- and together, we will write the BMI functions to transform it into a component. As we develop, we’ll unit test our component with nose, and we’ll explore how to use the component with a Jupyter Notebook. Optionally, we can set up a GitHub repository to store and to track changes to the code we write.<br><br>To get the most out of this clinic, come prepared to code! We have a lot to write in the time allotted. We recommend that clinic attendees have a laptop with the Anaconda Python distribution installed. We also request that you skim:<br><br>&#10501; BMI description (https://csdms.colorado.edu/wiki/BMI_Description)<br>&#10501; BMI documentation (http://bmi-forum.readthedocs.org/en/latest)<br><br>before participating in the clinic.
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Jon Goodall
| name = Courtney Harris, Julia Moriarty & Irina Overeem and Eric Hutton
| affiliation = University of Virginia
| affiliation = VIMS & Univ. of Colorado
| participants = People attending:  {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics2::3) Integrated Modeling Concepts]]|format=count}}
| participants =  
| title = Integrated Modeling Concepts
| title = Regional Ocean Modeling System (ROMS): An introductory web-based model implementation
| abstract = This clinic is intended for early career researchers interested in gaining an understanding of basic integrated modeling concepts as they relate to modeling earth science systems. The class will present key literature in the field, core concepts and terminology, and different integrated modeling systems. Past, present, and future trends for designing integrating modeling systems will be discussed. Participants will also gain experience applying integrated modeling concepts using CSDMS for simplified integrated modeling examples.
| abstract = Participants in this clinic will learn how to run a Regional Ocean Modeling System (ROMS) test case for an idealized continental shelf model domain within the CSDMS Web Modeling Toolkit (WMT). The model implementation that we will use includes wave forcing, a riverine source, suspended sediment transport.<br><br>ROMS is an open source, three-dimensional primitive equation hydrodynamic ocean model that uses a structured curvilinear horizontal grid and a stretched terrain following vertical grid. For more information see https://www.myroms.org. It currently has more than 4,000 registered users, and the full model includes modules for sediment transport and biogeochemistry, and several options for turbulence closures and numerical schemes. In part because ROMS was designed to provide flexibility for the choice of model parameterizations and processes, and to run in parallel, implementing the code can seem daunting, but in this clinic, we will present an idealized ROMS model that can be run on the CSDMS cluster via the WMT.  One goal is to provide a relatively easy introduction to the numerical modeling process that can be used within upper level undergraduate and graduate classes to explore sediment transport on continental shelves.<br><br>As a group, we will run an idealized ROMS model on the CSDMS computer, Beach. The group will choose a modification to the standard model. While the modified model runs, we will explore methods for visualizing model output. Participants who have access to WMT can run the model themselves. Clinic participants who have access to Matlab and/or Panoply will be able to browse model output files during the clinic.<br><br>Following the clinic, participants should have access to an example ROMS model run, experience running ROMS within the WMT and with ROMS input and output files, and. ROMS lesson plans.
}}
{{Keynote-clinics
| name = Zheyu Zhou, Xiaofeng Liu & Tom Hsu
| affiliation = Univ. Delaware, Penn State, Univ. Delaware,
| participants =
| title = Modeling coastal processes using OpenFOAM
| abstract =
}}
}}
===Thursday (3<sup>rd</sup> day)===
===Thursday (3<sup>rd</sup> day)===
{{Keynote-clinics
{{Keynote-clinics
| name = Irina Overeem & Mark Piper
| name = Greg Tucker
| affiliation = CSDMS, University of Colorado
| affiliation = CIRES, Univ. of Colorado
| participants = People attending:  {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics3::1) Bringing CSDMS to the Classroom]]|format=count}}
| participants =  
| title = Bringing CSDMS Models into the Classroom
| title = LandLab
| abstract = CSDMS has developed a Web-based Modeling Tool – the WMT. WMT allows users to select models, to edit model parameters, and run the model on the CSDMS High-Performance Computing System.  The web interface makes it straightforward to configure different model components and run a coupled model simulation. Users can monitor progress of simulations and download model output.<br><br> CSDMS has developed educational labs that use the WMT to teach quantitative concepts in geomorphology, hydrology, coastal evolution. These labs are intended to be used by Teaching assistants and Faculty alike. Descriptions of 4-hr hands-on labs have been developed for HydroTrend, Plume, Sedflux, CHILD, ERODE and ROMS-Lite. These labs include instructions for students to run the models and explore dominant parameters in sets of simulations.  Learning objectives are split between topical concepts, on climate change and sediment transport amongst many others, and modeling strategies, modeling philosophy and critical assessment of model results.<br><br>In this clinic, we will provide an overview of the available models and labs, and their themes and active learning objectives. We will discuss the requirements  and logistics of using the WMT in your classroom. We will run some simulations hands-on, and walk through one lab in more detail as a demonstration. Finally, the workshop intends to discuss future developments for undergraduate course use with the participants.
| abstract =
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Greg Tucker
| name = --
| affiliation = CIRES, University of Colorado
| affiliation =  
| participants = People attending:  {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics3::2) Landlab]]|format=count}}
| participants =  
| title = Landlab: A Python library for building, exploring, and coupling 2D surface-process models
| title = Numpy
| abstract = Gregory E. Tucker <sup>1</sup>, Daniel E.J. Hobley <sup>1</sup>, Jordan M. Adams <sup>2</sup>, Sai S. Nudurupati <sup>3</sup>, Eric Hutton <sup>4</sup>, Nicole M. Gasparini <sup>2</sup>, and Erkan Istanbulluoglu <sup>3</sup><br><br><small><sup>1</sup> CIRES and Department of Geological Sciences, University of Colorado at Boulder<br><sup>2</sup> Department of Earth and Environmental Sciences, Tulane University<br><sup>3</sup> Department of Civil and Environmental Engineering, University of Washington<br><sup>4</sup> CSDMS, University of Colorado at Boulder</small><br><br>Writing the software to implement a two-dimensional numerical model can be a daunting exercise, even when the underlying discretization and numerical schemes are relatively simple. The challenge is even greater when the desired model includes ``advanced'' features such as an unstructured grid, a staggered-grid numerical solver, or input/output operations on gridded data. Landlab is a Python-language programming library that makes the process of 2D model-building simpler and more efficient. Landlab's core features include: (1) a gridding engine that lets you create and configure a structured or unstructured grid in just a few lines of code, and to attach data directly to the grid; (2) a library of pre-built process components that saves you from having to re-invent the wheel with common geoscience algorithms (such as flow routing on gridded terrain, linear and nonlinear diffusion, and elastic plate flexure); (3) a mechanism for coupling components together to create integrated model; and (4) a suite of tools for input/output and other common operations. Although Landlab's components are primarily related to earth-surface dynamics (including geomorphology and hydrology), its basic framework is applicable to many types of geophysical system. This clinic provides a hands-on tutorial introduction to Landlab. Participants will learn about Landlab's capabilities, and how to use it to build and run simple 2D models. Familiarity with the Python language and the Numpy library is helpful but not critical.
| abstract =
}}
 
{{Keynote-clinics
| name = Wei Luo
| affiliation = Northern Illinois University
| participants =  
| title = WILSIM as EKT tool
| abstract =
}}
}}
{{Keynote-clinics
{{Keynote-clinics
| name = Jon Pollak & Jon Goodall
| name = Randy LeVeque
| affiliation = CUASHI
| affiliation = University of Washington, Seattle
| participants = People attending:  {{#ask: [[Meeting:+]][[CSDMS_meeting_select_clinics3::3) CUASHI Water Data Center]]|format=count}}
| participants =  
| title = Data Access and Publication with the CUAHSI Water Data Center
| title = GeoClaw Software for Depth Average Flow
| abstract = The CUAHSI Water Data Center (WDC) is community governed, NSF funded facility that enables data access and publication through a web services oriented architecture. The WDC maintains the largest catalog of time series water data in the world, which includes data sources that range from global to local coverage and include data sets that describe climate, streams, and soil. This session will touch upon a number of functions of the WDC including:<br><br>• How can I use WDC services to fulfill NSF Data Management requirements?<br><br>• What data are available through the WDC?<br><br>• How can I access data?<br><br>• How can I write custom software that accesses data published with the WDC?<br><br>Participants should anticipate this information to be presented through slides and should expect to leave with a comprehensive understanding of the research support services offered by the WDC.  
| abstract = GeoClaw (http://www.geoclaw.org) is an open-source software package for solving two-dimensional depth-averaged equations over general topography using high-resolution finite volume methods and adaptive mesh refinement. Wetting-and-drying algorithms allow modeling inundation or overland flows. The primary applications where GeoClaw has been used are tsunami modeling and storm surge, although it has also been applied to dam break floods and it forms the basis for the debris flow and landslide code D-Claw under development at the USGS Cascades Volcano Observatory.<br><br>This tutorial will give an introduction to setting up a tsunami modeling problem in GeoClaw including:<br>&#10501; Overview of capabilities,<br>&#10501; Installing the software,<br>&#10501; Using Python tools provided in GeoClaw to acquire and work with topography datasets and earthquake source models,<br>&#10501; Setting run-time parameters, including specifying adaptive refinement regions,<br>&#10501; Options to output snapshots of the solution or maximum flow depths, arrival times, etc.<br>&#10501; The VisClaw plotting software to visualize results using Python tools or display on Google Earth.<br><br>GeoClaw is distributed as part of Clawpack (http://www.clawpack.org), and available via the CSDMS model repository. Those who wish to install the software in advance on laptops, please see http://www.clawpack.org/installing.html.
}}
}}
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=Participants=
=Participants=
Interested to see who registered for the meeting as of {{#time: m/d/Y|now}}?
Interested to see who registered for the meeting as of {{#time: m/d/Y|now}}?
*[[CSDMS_meeting_2015_participant_list|Participants]]
*[[CSDMS_meeting_2015_participant_list|Participants meeting]]
*[[CSDMS_meeting_2015_abstract_list|Submitted abstracts]]
*[[CSDMS_meeting_2015_abstract_list|Submitted abstracts]]
<br>
<br>
*[[CSDMS_pre-meeting_bootcamp|Participants bootcamp]] May 16<sup>th</sup>
<br><br>


=Reimbursement =
=Reimbursement =
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Within its budget, CSDMS intends to support member applicants to attend the annual meeting. Towards this goal, we encourage members to fully or partially cover their expenses if capable. We additionally thank those in the industry and agency fields for understanding that 1) we cannot compensate federal agency participants since our own funding is from NSF, and 2) we request that our industrial/ corporate participants cover their own costs thereby allowing more academic participants to attend.   
Within its budget, CSDMS intends to support member applicants to attend the annual meeting. Towards this goal, we encourage members to fully or partially cover their expenses if capable. We additionally thank those in the industry and agency fields for understanding that 1) we cannot compensate federal agency participants since our own funding is from NSF, and 2) we request that our industrial/ corporate participants cover their own costs thereby allowing more academic participants to attend.   


To the extent possible, CSDMS intends to reimburse the registration fee, lodging (shared rooms at 100% and single rooms at 50% at Millennium Harvest House Hotel), and a limited amount of travel expenses of qualified registrants - those members who have attended all three days of the meeting and are not industry or federal employees.
To the extent possible, CSDMS intends to reimburse the registration fee, lodging (shared rooms at 100% and single rooms at 50% at conference hotels), and a limited amount of travel expenses for qualified registrants - those members who will attend all three days of the meeting and are not industry or federal employees.


'''Important for foreign travelers requesting reimbursement:''' If you need a visa to travel to USA, select a business visa.  If you need an invitation letter, please email [mailto:csdms@colorado.edu csdms@colorado.edu]  as soon as possible. Also indicate whether specific wording is required in the letter. Second, we will need to copy the entry stamp in your passport sometime during the meeting as proof that you were here on business as required by US tax laws for reimbursement (especially when dealing with airfare.) We are only able to provide reimbursement for airfare within the U.S. All airfare that is being reimbursed must be for airlines that are U.S. flag carriers.   
'''Important for foreign travelers requesting reimbursement:''' If you need a visa to travel to USA, select a business visa.  If you need an invitation letter, please email [mailto:csdms@colorado.edu csdms@colorado.edu]  as soon as possible. Also indicate whether specific wording is required in the letter. Second, we will need to copy the entry stamp in your passport sometime during the meeting as proof that you were here on business as required by US tax laws for reimbursement (especially when dealing with airfare.) We are only able to provide reimbursement for airfare within the U.S. All airfare that is being reimbursed must be for airlines that are U.S. flag carriers.   
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=Travel, Lodging and Conference Center Information=
=Travel, Lodging and Conference Center Information=
The meeting will be held at [http://www2.ucar.edu/campus/center-green-campus UCAR Conference Center]<br>
The meeting will be held at [http://www.colorado.edu/supportcu/sustainability-energy-and-environment-complex/find-us SEEC]<br>
Hotels: [http://www.millenniumhotels.com/usa/millenniumboulder/  Millennium Harvest House Hotel] and the [http://boulderinn.com/ Boulder Inn by Best Western]<br>
Hotel: [http://www.millenniumhotels.com/usa/millenniumboulder/  Millennium Harvest House Hotel] <br>
Transportation:
Transportation:
You can book transportation between DIA and Boulder here: http://greenrideco3.hudsonltd.net/res?USERIDENTRY=CSDMS&LOGON=GO<br>
You can book transportation between DIA and Boulder here: [http://greenrideco3.hudsonltd.net/res?USERIDENTRY=CSDMS&LOGON=GO Green Ride Boulder]. And information on how to find [[Media:Counter_location_Verbiage_from_Customs.pdf|Green Ride Boulder at DIA]].<br>
We will provide a bus between the hotels and the meeting venue each day. We will also provide transportation to the banquet.
We will provide a bus between the hotels and the meeting venue each day. We will also provide transportation to the banquet.
<br><br>
<br><br>


=Student Scholarships=
=Pre-conference one-day Software Carpentry bootcamp=
''Submission for the student scholarships is closed. We will express who will receive the scholarship to all who applied shortly.''<br>
<div style="float:right;">[[File:Boots.gif | 200px ]]</div>CSDMS will host a Pre-conference one-day [http://software-carpentry.org/ Software Carpentry bootcamp] on Monday May 16<sup>th</sup>, 2016. The objective is to teach basic programming skills that will be useful for scientific computing and model development. This is an intensive, hands-on workshop, during which certified instructors will cover basic elements of:
This year CSDMS is offering a limited number of scholarships (up to 12) for graduate students to attend the CSDMS annual meeting. Three scholarships will be offered for the purpose of increasing participation of underrepresented students.
# the Unix bash shell,
To be eligible, graduate students need to meet the following requirements:
# Python programming and NumPy, and
* Attend the whole meeting (May 26-28, 2015)
# Github for version control.
* Submit an abstract
Our instructors are earth scientists and have familiarity with the CSDMS framework, such that lessons and examples will be targeted toward relevant problems in your field. The bootcamp intentionally precedes the CSDMS meeting, so the skills participants develop should be useful in the clinics during the meeting.  
* Be enrolled as a graduate student at the time of the meeting (bring proof)
* Submit a letter of motivation that states why you wish to participate in the meeting, and explain how your participation would enhance diversity in the field of surface dynamics modeling.
 


The CSDMS scholarships will cover:  
'''Note:'''
* Registration costs
* Registration is open till April 1<sup>st</sup> (or until program fill) and is handled through the 2016 meeting site.<br>
* Travel (air fare ''ONLY'' within the United States and local transport)
* The bootcamp is capped at 30 participants (first paid first serve), and it has a $30 registration fee.
* Per diem to help reimburse the cost of meals from 26-28 May 2015 not offered in the conference schedule
* Participant will be responsible for cost / organization of their extra day of hotel accommodation and dinner. Costs will not be reimbursed.
* We will cover coffee and lunch during the bootcamp.
<br><br>
<br><br>
 
=Student Scholarships (two options)=
'''CSDMS'''<br>
:This year CSDMS is offering a limited number of scholarships (up to 12) for graduate students to attend the CSDMS annual meeting. Three scholarships will be offered for the purpose of increasing participation of underrepresented students. To be eligible, graduate students need to meet the following requirements:
:* Attend the whole meeting (May 17-19, 2016)
:* Submit an abstract
:* Be enrolled as a graduate student at the time of the meeting (bring proof)
:* Submit a letter of motivation that states why you wish to participate in the meeting, and explain how your participation would enhance diversity in the field of surface dynamics modeling.
:The CSDMS scholarships will cover:
:* Registration costs
:* Travel (air fare ''ONLY'' within the United States and local transport)
:* Per diem to help reimburse the cost of meals from 17-19 May 2016 not offered in the conference schedule
'''SEN'''<br>
:The Sediment Experimentalist Network (SEN) is sponsoring a data-utilization contest for graduate-student and early-career geoscience modelers who feel passionate about advancing science through experimental data sharing and reuse. The top four winners of the data-utilization contest will have all travel and registration costs paid for.
:To apply:
:* Please check the box during registration to indicate that you are applying for the SEN travel grant.
:* Send your application materials (proposal, professional biography) to sedimentexp@gmail.com by April 1, 2016.
:* Full instructions for the [http://sedimentexperiments.blogspot.com/2016/01/sen-csdms-travel-grant-contest.html travel grant application are available here].<br><br>
=Important dates=
=Important dates=
<font color="gray">
* '''January 15<sup>th</sup>''': Registration opens
* '''February 2<sup>nd</sup>''': Registration opens
* '''March 1<sup>st</sup>''': Deadline for student scholarship applications
* '''March 1<sup>st</sup>''': Deadline for student scholarship applications
* '''April 1<sup>st</sup>''': Deadline for abstract submission & registration
* '''April 1<sup>st</sup>''': Deadline for abstract submission & early registration
* '''April 15<sup>th</sup>: Extended deadline for abstract submission & registration
* '''May 10<sup>th</sup>''': Deadline late registration. ''Notice additional costs do apply.''
* '''May 26-28<sup>th</sup>''': CSDMS annual meeting
<!--* '''April 15<sup>th</sup>: Extended deadline for abstract submission & registration-->
* '''May 29<sup>th</sup>''': CSDMS Executive and Steering committees meeting (''by invitation only'')</font>
*  '''May 16<sup>th</sup>''': <font color="red">Optional</font>: pre-conference bootcamp
* '''May 17-19<sup>th</sup>''': CSDMS annual meeting
* '''May 20<sup>th</sup>''': CSDMS Executive and Steering committees meeting (''by invitation only'')
 
<center>[[image:CSDMS_high_res_weblogo.jpg|300px]][[image:SEN-logo.jpeg|300px]]</center>
'''<sup>*</sup>'''  ''The Sediment Experimentalist Network (SEN) integrates the efforts of sediment experimentalists to build a knowledge base for guidance on best practices for data collection and management. The network facilitates cross-institutional collaborative experiments and communicates with the research community about data and metadata guidelines for sediment-based experiments. This effort aims to improve the efficiency and transparency of sedimentary research for field geologists and modelers as well as experimentalists.''
</noinclude><includeonly>
</noinclude><includeonly>
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== Registration form ==
<center><big>CSDMS Meeting 2015<br> '''Models meet Data, Data meet Models'''</big></center><br><br>
<center><big>Joint CSDMS - SEN Meeting 2016<br> '''Capturing Climate Change'''</big></center><br><br>
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|All submitted registrations will be reviewed by a CSDMS program committee. <br>
|All submitted registrations will be reviewed by a CSDMS program committee. <br>
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|-
|-
|Please direct all inquiries to Lauren Borkowski: [mailto:csdms@colorado.edu csdms@colorado.edu] with subject title: "CSDMS Meeting 2015"
|Please direct all inquiries to Lynn McCready: [mailto:csdms@colorado.edu csdms@colorado.edu] with subject title: "Joint CSDMS - SEN Meeting 2016"
|}<br><br>
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{{CSDMS_meeting_scholar_pre-meeting}}
{{{for template|CSDMS_meeting_scholar_and_pre-meeting}}}
{| class="formtable"
| valign=top style="width:300px;"|Apply for scholarships:
| valign=top | {{{field|CSDMS meeting scholarships|mandatory|input type=radiobutton|default=No|show on select=CSDMS Scholarship=>scholarship_CSDMS;SEN Scholarship=>scholarship_SEN;No=>scholarship_no}}}
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<div id="scholarship_CSDMS">
'''Note''': ''This is only an indication that you would like to apply for the CSDMS offered student scholarships. See the meeting site to actually apply for the CSDMS student scholarships: [https://csdms.colorado.edu/wiki/Form:CSDMS_annual_meeting#Student_Scholarships_(two_options)]''
</div>
<div id="scholarship_SEN">
'''Note''': ''This is only an indication that you would like to apply for the SEN offered scholarships. See the meeting site to actually apply for the SEN student scholarships: [https://csdms.colorado.edu/wiki/Form:CSDMS_annual_meeting#Student_Scholarships_(two_options)]''
</div>
{| class="formtable"
| valign=top style="width:300px;"|Join the pre-conference meeting:
| valign=top | {{{field|CSDMS meeting pre-conference|mandatory|input type=radiobutton|default=No|show on select=Yes=>pre_conference_yes;No=>pre_conference_no}}}
|-
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{{{end template}}}
<div id="pre_conference_yes">
'''Note''': ''Pre-Conference is an one day event, May 16<sup>th</sup> and will '''cost an additional $30'''. No reimbursement will be provided for extra night hotel or dinner.''
</div>


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{| class="formtable"
{| class="formtable"
| valign=top colspan="2"| <br><font color="gray">''Help us schedule the meeting! Select for each day the clinic you would like to attend:''<br>''(See [http://csdms.colorado.edu/wiki/Form:CSDMS_annual_meeting#Clinic_Invitees Clinics] for more information)''</font><br><br>
| valign=top colspan="2"| <br><font color="gray">''Help us schedule the meeting! Select for each day the clinic you would like to attend:''<br>''(See [https://csdms.colorado.edu/wiki/Form:CSDMS_annual_meeting#Clinic_Leaders clinic leaders] for more information)''</font><br><br>
|-
|-
| valign=top style="width:300px;"|Select <b>one clinic</b> for the 1<sup>st</sup> day<br>(<i>Parallel sessions</i>):
| valign=top style="width:300px;"|Select <b>one clinic</b> for the 1<sup>st</sup> day<br>(<i>Parallel sessions</i>):
| valign=top |{{{field|CSDMS_meeting_select_clinics1|mandatory|input type=dropbox|default = 1) WMT and Dakota iterative toolkit}}}
| valign=top |{{{field|CSDMS_meeting_select_clinics1|mandatory|input type=dropbox|default = 1) Using TopoFlow in the classroom}}}
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{| class="formtable"
| valign=top style="width:300px;"|Select <b>one clinic</b> for the 2<sup>nd</sup> day<br>(<i>Parallel sessions</i>):
| valign=top style="width:300px;"|Select <b>one clinic</b> for the 2<sup>nd</sup> day<br>(<i>Parallel sessions</i>):
| valign=top |{{{field|CSDMS_meeting_select_clinics2|mandatory|input type=dropbox|default=1) Coastal Evolution Modeling (CEM)}}}
| valign=top |{{{field|CSDMS_meeting_select_clinics2|mandatory|input type=dropbox|default=1) SEN}}}
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| valign=top style="width:300px;"|Select <b>one clinic</b> for the 3<sup>rd</sup> day<br>(<i>Parallel sessions</i>):
| valign=top |{{{field|CSDMS_meeting_select_clinics3|mandatory|input type=dropbox|default=1) Bringing CSDMS to the Classroom}}}
| valign=top |{{{field|CSDMS_meeting_select_clinics3|mandatory|input type=dropbox|default=1) LandLab}}}
|}
|}
{{{end template}}}
{{{end template}}}

Latest revision as of 17:16, 19 February 2018

The joint 2016 CSDMS - SEN* Annual Meeting
Capturing Climate Change

May 17 -19th 2016, Boulder Colorado, USA



Optional: May 16th 2016, pre-conference bootcamp


Registration

The online conference registration is a three step process:

Step 1:
  • Log in
Log in (or create account for non-CSDMS members)
Forgot username? Search or email:CSDMSweb@colorado.edu
Step 2:
  • Register
  • Abstract submission
Step 3:
  • Academia or Government, registration fee: $200 (After April 1st: $300)
  • Industry, registration fee: $1,500 (After April 1st: $1,600)
  • Add $30 when joining pre-conference bootcamp
    Third party website
Pay button.png

Note 1: You only are successfully registered by fulfilling the above steps
Note 2: Do you want to make changes to you abstract?

  1. Log in.
  2. Select your registration record in "participants" and start making changes by clicking "Edit registration".




Objectives and general description

The joint CSDMS - SEN* 2016 annual meeting will focus on “advances in simulating the imprint of climate change on the land and seascapes, including the processes that influence them”. We would like presentations to either focus on the impacts of present and future climate change, or how climate change has impacted the earth in the past. Topics of interests also include modeling research that integrate different disciplines, different scales, and the synergy between models and experimental data. As in past meetings, keynote speakers are by invitation only, and poster presentations are the general media. The meeting will include:

  1. State-of-the art keynote presentations in earth-surface dynamics and modeling
  2. Hands-on clinics related to community models, tools and approaches
  3. Transformative software products and approaches designed to be accessible, easy to use, and relevant
  4. Breakout sessions for Working, Focus Research Groups and the Initiatives
  5. Poster Sessions

and more!

Poster Information: The poster boards are configured for 4' wide by 6' tall (portrait orientation) posters. The deadline to submit abstracts is April 15, 2016.

Agenda

Click here to view the draft agenda of 12/29/2015.

Keynote Speakers

As of now:

Jean Braun
Institut des Sciences de la Terre, Universitaire de Grenoble
Links Between Mantle Convection, Tectonics, Erosion and Climate: Recent Model Developments and Results
Plate tectonics is the primary process controlling the Earth’s surface topography. In recent years, geodynamicists have emphasised the role that deep mantle flow may play in directly creating long wavelength, low amplitude topography (a so-called “dynamic” contribution to surface topography). In parallel, geomorphologists have investigated how surface processes (erosion, transport and sedimentation) may affect dynamic topography, with the aim of better understanding its signature in the geological record. To achieve this, we have developed a new class of surface processes models that represent the combined effects of physical erosion and chemical alteration within continental interiors. In developing these models, we have paid much attention to maintaining high efficiency and stability such that they could be used to model large continental areas with sufficient spatial resolution to represent the processes at the appropriate scale. I will briefly present these algorithms as well as the results of two separate studies in which we explain the anomalously rapid erosion of surface material during the passage of a continent over a fixed source of dynamic topography driven by upward flow in the mantle. I will also comment on how these models are strongly dependent on precipitation patterns and, ultimately, will need to be fully coupled to climate models to provide more meaningful constraints on the past evolution of surface topography.
Enrique Curchitser
Institute of Marine and Coastal Sciences, Rutgers University
draft - Multi-Scale Modeling of Ocean Boundary Currents
Mark Rounsevell
University of Edinburgh
draft - Integrative assessment modeling and Climate Change
Wonsuck Kim
University of Texas
draft - Sediment Experimentalists Network Activities and Future Direction
Jean-Francois Lamarque
National Center for Atmospheric Research
draft - Community Earth System Model
Nikki Lovenduski
Department of Atmospheric and Ocean Sciences and Institute of Arctic and Alpine Research, University of Colorado, Boulder
Ocean Carbon Uptake and Acidification: Can We Predict the Future?
The oceans have absorbed a large fraction of anthropogenic carbon dioxide emissions, having consequences for ocean biogeochemistry and ecosystems via ocean acidification. Simulations with Earth System Models can be used to predict the future evolution of ocean carbon uptake and acidification in the coming decades and beyond, but there is substantial uncertainty in these model predictions, particularly on regional scales. Such uncertainty challenges decision makers faced with protecting the future health of ocean ecosystems. Uncertainty can be separated into three component parts: (1) uncertainty due to internal variability, (2) uncertainty due to model structure, and (3) uncertainty due to emission scenario. Here, we isolate and quantify the evolution of these three sources of prediction uncertainty in ocean carbon uptake over the next century using output from two sets of ensembles from the Community Earth System Model (CESM) along with output from models participating in the Fifth Coupled Model Intercomparison Project (CMIP5). We find that the three sources of prediction uncertainty in ocean carbon uptake are not constant, but instead vary with prediction lead time and the scale of spatial averaging. In order to provide valuable predictions to decision makers, we should invest in reducing the main sources of uncertainty.
Bette Otto-Blisner
NCAR
Draft: Continental Modeling
Jon Pelletier
University of Arizona
Modeling the Impact of Vegetation Changes on Erosion Rates and Landscape Evolution
In landscape evolution models, climate change is often assumed to be synonymous with changes in rainfall. In many climate changes, however, the dominant driver of landscape evolution is changes in vegetation cover. In this talk I review case studies that attempt to quantify the impact of vegetation changes on landscape evolution, including examples from hillslope/colluvial, fluvial, and aolian environments, spatial scales of ~10 m to whole continents, and time scales from decadal to millennial. Particular attention is paid to how to parameterize models using paleoclimatic and remote sensing data.
Zach Tessler
Environmental CrossRoads Initiative, CUNY Advanced Science Research Center
From Relative Sea Level Rise to Coastal Risk: Estimating Contemporary and Future Flood Risk in Deltas
Deltas are highly sensitive to local human activities, land subsidence, regional water management, global sea-level rise, and climate extremes. In this talk, I’ll discuss a recently developed risk framework for estimating the sensitivity of deltas to relative sea level rise, and the expected impact on flood risk. We apply this framework to an integrated set of global environmental, geophysical, and social indicators over 48 major deltas to quantify how delta flood risk due to extreme events is changing over time. Although geophysical and relative sea-level rise derived risks are distributed across all levels of economic development, wealthy countries effectively limit their present-day threat by gross domestic product–enabled infrastructure and coastal defense investments. However, when investments do not address the long-term drivers of land subsidence and relative sea-level rise, overall risk can be very sensitive to changes in protective capability. For instance, we show how in an energy-constrained future scenario, such protections will probably prove to be unsustainable, raising relative risks by four to eight times in the Mississippi and Rhine deltas and by one-and-a-half to four times in the Chao Phraya and Yangtze deltas. This suggests that the current emphasis on short-term solutions on the world’s deltas will greatly constrain options for designing sustainable solutions in the long term.
Don Deangelis
USGS
Ecological Applications of Agent Based Models

Clinic Leaders

Tuesday (1st day)

Irina Overeem & Mark Piper
CSDMS Integration Facility, INSTAAR, University of Colorado Boulder
Using TopoFlow in the classroom
TopoFlow is a spatially distributed hydrologic model that includes meteorology, snow melt, evapotranspiration, infiltration and flow routing components. It can model many different physical processes in a watershed with the goal of accurately predicting how various hydrologic variables will evolve in time in response to climatic forcings. In the past year, CSDMS IF staff integrated TopoFlow into the CSDMS Web Modeling Tool (WMT, https://csdms.colorado.edu/wmt) and developed new lesson plans for use with it.

The first part of this clinic focuses on the technical aspects of working with TopoFlow in WMT, including how to: load and couple components, get information on a component, set parameters, upload data files, save a model, and run a model. We’ll discuss features of the TopoFlow implementation in WMT, and explain choices that were made in bringing TopoFlow to the web.

In the second part of the clinic, we’ll focus on science and education. We will run several TopoFlow simulations on the CSDMS HPCC through WMT. Participants will explore parameter settings, submit runs, and view netCDF output using NASA’s Panoply tool.

The learning outcomes of this clinic are to have better insight into the behavior of TopoFlow components, and the implementation of these in WMT. Participants will learn how to do TopoFlow model runs, and will have access to TopoFlow online labs and teaching resources lesson plans.
Ehab Mesehle & Eric White
The Water Institute of the Gulf
Coastal Ecosystem Integrated Compartment Model (ICM): Modeling Framework
The Integrated Compartment Model (ICM) was developed as part of the 2017 Coastal Master Plan modeling effort. It is a comprehensive and numerical hydrodynamic model coupled to various geophysical process models. Simplifying assumptions related to some of the flow dynamics are applied to increase the computational efficiency of the model. The model can be used to provide insights about coastal ecosystems and evaluate restoration strategies. It builds on existing tools where possible and incorporates newly developed tools where necessary. It can perform decadal simulations (~ 50 years) across the entire Louisiana coast. It includes several improvements over the approach used to support the 2012 Master Plan, such as: additional processes in the hydrology, vegetation, wetland and barrier island morphology subroutines, increased spatial resolution, and integration of previously disparate models into a single modeling framework. The ICM includes habitat suitability indices (HSIs) to predict broad spatial patterns of habitat change, and it provides an additional integration to a dynamic fish and shellfish community model which quantitatively predicts potential changes in important fishery resources. It can be used to estimate the individual and cumulative effects of restoration and protection projects on the landscape, including a general estimate of water levels associated with flooding. The ICM is also used to examine possible impacts of climate change and future environmental scenarios (e.g. precipitation, Eustatic sea level rise, subsidence, tropical storms, etc.) on the landscape and on the effectiveness of restoration projects. The ICM code is publically accessible, and coastal restoration and protection groups interested in planning-level modeling are encouraged to explore its utility as a computationally efficient tool to examine ecosystem response to future physical or ecological changes, including the implementation of restoration and protection strategies.
Mary Hill
University of Kansas
MODFLOW: Example applications and what we can learn from this amazingly successful piece of environmental modeling software.
Scott Peckham and Allen Pope, University of Colorado, Boulder
USC, ISI
Geoscience Paper of the Future: Training Session on Best Practices for Publishing Your Research Products
The Geoscience Paper of the Future (GPF) Initiative was created to encourage geoscientists to publish papers together with their associated digital research products following best practices of reproducible articles, open science, and digital scholarship. A GPF includes: 1) Data available in a public repository, including metadata, a license specifying conditions of use, and a citation using a unique and persistent identifier; 2) Software available in a public repository, with documentation, a license for reuse, and a unique and citable using a persistent identifier; 3) Provenance of the results by explicitly describing method steps and their outcome in a workflow sketch, a formal workflow, or a provenance record. Learn to write a GPF and submit to a special section of AGU’s Earth and Space Sciences Journal. More at http://www.ontosoft.org/gpf/.

Wednesday (2nd day)

Wonsuck Kim
The University of Texas at Austin
SEN
Eric Hutton & Mark Piper
CSDMS Integration Facility, INSTAAR, University of Colorado Boulder
BMI: Live!
CSDMS has developed the Basic Model Interface (BMI) to simplify the conversion of an existing model in C, C++, Fortran, Java, or Python into a reusable, plug-and-play component. By design, the BMI functions are straightforward to implement. However, in practice, the devil is in the details.

In this hands-on clinic, we will take a model -- in this case, an implementation of the two-dimensional heat equation in Python -- and together, we will write the BMI functions to transform it into a component. As we develop, we’ll unit test our component with nose, and we’ll explore how to use the component with a Jupyter Notebook. Optionally, we can set up a GitHub repository to store and to track changes to the code we write.

To get the most out of this clinic, come prepared to code! We have a lot to write in the time allotted. We recommend that clinic attendees have a laptop with the Anaconda Python distribution installed. We also request that you skim:

⤅ BMI description (https://csdms.colorado.edu/wiki/BMI_Description)
⤅ BMI documentation (http://bmi-forum.readthedocs.org/en/latest)

before participating in the clinic.
Courtney Harris, Julia Moriarty & Irina Overeem and Eric Hutton
VIMS & Univ. of Colorado
Regional Ocean Modeling System (ROMS): An introductory web-based model implementation
Participants in this clinic will learn how to run a Regional Ocean Modeling System (ROMS) test case for an idealized continental shelf model domain within the CSDMS Web Modeling Toolkit (WMT). The model implementation that we will use includes wave forcing, a riverine source, suspended sediment transport.

ROMS is an open source, three-dimensional primitive equation hydrodynamic ocean model that uses a structured curvilinear horizontal grid and a stretched terrain following vertical grid. For more information see https://www.myroms.org. It currently has more than 4,000 registered users, and the full model includes modules for sediment transport and biogeochemistry, and several options for turbulence closures and numerical schemes. In part because ROMS was designed to provide flexibility for the choice of model parameterizations and processes, and to run in parallel, implementing the code can seem daunting, but in this clinic, we will present an idealized ROMS model that can be run on the CSDMS cluster via the WMT. One goal is to provide a relatively easy introduction to the numerical modeling process that can be used within upper level undergraduate and graduate classes to explore sediment transport on continental shelves.

As a group, we will run an idealized ROMS model on the CSDMS computer, Beach. The group will choose a modification to the standard model. While the modified model runs, we will explore methods for visualizing model output. Participants who have access to WMT can run the model themselves. Clinic participants who have access to Matlab and/or Panoply will be able to browse model output files during the clinic.

Following the clinic, participants should have access to an example ROMS model run, experience running ROMS within the WMT and with ROMS input and output files, and. ROMS lesson plans.
Zheyu Zhou, Xiaofeng Liu & Tom Hsu
Univ. Delaware, Penn State, Univ. Delaware,
Modeling coastal processes using OpenFOAM

Thursday (3rd day)

Greg Tucker
CIRES, Univ. of Colorado
LandLab
--

Numpy
Wei Luo
Northern Illinois University
WILSIM as EKT tool
Randy LeVeque
University of Washington, Seattle
GeoClaw Software for Depth Average Flow
GeoClaw (http://www.geoclaw.org) is an open-source software package for solving two-dimensional depth-averaged equations over general topography using high-resolution finite volume methods and adaptive mesh refinement. Wetting-and-drying algorithms allow modeling inundation or overland flows. The primary applications where GeoClaw has been used are tsunami modeling and storm surge, although it has also been applied to dam break floods and it forms the basis for the debris flow and landslide code D-Claw under development at the USGS Cascades Volcano Observatory.

This tutorial will give an introduction to setting up a tsunami modeling problem in GeoClaw including:
⤅ Overview of capabilities,
⤅ Installing the software,
⤅ Using Python tools provided in GeoClaw to acquire and work with topography datasets and earthquake source models,
⤅ Setting run-time parameters, including specifying adaptive refinement regions,
⤅ Options to output snapshots of the solution or maximum flow depths, arrival times, etc.
⤅ The VisClaw plotting software to visualize results using Python tools or display on Google Earth.

GeoClaw is distributed as part of Clawpack (http://www.clawpack.org), and available via the CSDMS model repository. Those who wish to install the software in advance on laptops, please see http://www.clawpack.org/installing.html.



Participants

Interested to see who registered for the meeting as of 05/18/2024?




Reimbursement

4878178960 fe558ee9b0 o TEDxBoulder.jpg

Within its budget, CSDMS intends to support member applicants to attend the annual meeting. Towards this goal, we encourage members to fully or partially cover their expenses if capable. We additionally thank those in the industry and agency fields for understanding that 1) we cannot compensate federal agency participants since our own funding is from NSF, and 2) we request that our industrial/ corporate participants cover their own costs thereby allowing more academic participants to attend.

To the extent possible, CSDMS intends to reimburse the registration fee, lodging (shared rooms at 100% and single rooms at 50% at conference hotels), and a limited amount of travel expenses for qualified registrants - those members who will attend all three days of the meeting and are not industry or federal employees.

Important for foreign travelers requesting reimbursement: If you need a visa to travel to USA, select a business visa. If you need an invitation letter, please email csdms@colorado.edu as soon as possible. Also indicate whether specific wording is required in the letter. Second, we will need to copy the entry stamp in your passport sometime during the meeting as proof that you were here on business as required by US tax laws for reimbursement (especially when dealing with airfare.) We are only able to provide reimbursement for airfare within the U.S. All airfare that is being reimbursed must be for airlines that are U.S. flag carriers.

Travel, Lodging and Conference Center Information

The meeting will be held at SEEC
Hotel: Millennium Harvest House Hotel
Transportation: You can book transportation between DIA and Boulder here: Green Ride Boulder. And information on how to find Green Ride Boulder at DIA.
We will provide a bus between the hotels and the meeting venue each day. We will also provide transportation to the banquet.

Pre-conference one-day Software Carpentry bootcamp

Boots.gif

CSDMS will host a Pre-conference one-day Software Carpentry bootcamp on Monday May 16th, 2016. The objective is to teach basic programming skills that will be useful for scientific computing and model development. This is an intensive, hands-on workshop, during which certified instructors will cover basic elements of:

  1. the Unix bash shell,
  2. Python programming and NumPy, and
  3. Github for version control.

Our instructors are earth scientists and have familiarity with the CSDMS framework, such that lessons and examples will be targeted toward relevant problems in your field. The bootcamp intentionally precedes the CSDMS meeting, so the skills participants develop should be useful in the clinics during the meeting.

Note:

  • Registration is open till April 1st (or until program fill) and is handled through the 2016 meeting site.
  • The bootcamp is capped at 30 participants (first paid first serve), and it has a $30 registration fee.
  • Participant will be responsible for cost / organization of their extra day of hotel accommodation and dinner. Costs will not be reimbursed.
  • We will cover coffee and lunch during the bootcamp.



Student Scholarships (two options)

CSDMS

This year CSDMS is offering a limited number of scholarships (up to 12) for graduate students to attend the CSDMS annual meeting. Three scholarships will be offered for the purpose of increasing participation of underrepresented students. To be eligible, graduate students need to meet the following requirements:
  • Attend the whole meeting (May 17-19, 2016)
  • Submit an abstract
  • Be enrolled as a graduate student at the time of the meeting (bring proof)
  • Submit a letter of motivation that states why you wish to participate in the meeting, and explain how your participation would enhance diversity in the field of surface dynamics modeling.
The CSDMS scholarships will cover:
  • Registration costs
  • Travel (air fare ONLY within the United States and local transport)
  • Per diem to help reimburse the cost of meals from 17-19 May 2016 not offered in the conference schedule

SEN

The Sediment Experimentalist Network (SEN) is sponsoring a data-utilization contest for graduate-student and early-career geoscience modelers who feel passionate about advancing science through experimental data sharing and reuse. The top four winners of the data-utilization contest will have all travel and registration costs paid for.
To apply:
  • Please check the box during registration to indicate that you are applying for the SEN travel grant.
  • Send your application materials (proposal, professional biography) to sedimentexp@gmail.com by April 1, 2016.
  • Full instructions for the travel grant application are available here.

Important dates

  • January 15th: Registration opens
  • March 1st: Deadline for student scholarship applications
  • April 1st: Deadline for abstract submission & early registration
  • May 10th: Deadline late registration. Notice additional costs do apply.
  • May 16th: Optional: pre-conference bootcamp
  • May 17-19th: CSDMS annual meeting
  • May 20th: CSDMS Executive and Steering committees meeting (by invitation only)
CSDMS high res weblogo.jpgSEN-logo.jpeg

* The Sediment Experimentalist Network (SEN) integrates the efforts of sediment experimentalists to build a knowledge base for guidance on best practices for data collection and management. The network facilitates cross-institutional collaborative experiments and communicates with the research community about data and metadata guidelines for sediment-based experiments. This effort aims to improve the efficiency and transparency of sedimentary research for field geologists and modelers as well as experimentalists.

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