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== Today's Highlights ==
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== Our Science Goal: The Age of Water and Carbon ==  
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[[File:VirtualOverlayNetworks.jpg|thumb|left|upright|Organic team science would enable the creation of “virtual overlay networks” over existing cyberinfrastructure and other related activities.]]
  
<b>We are starting to describe contributors to the project, help us fill in the blanks:</b>
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This study focuses on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, <i>The Age of Water and Carbon,</i> that melds  theory and practice from limnology and hydrology within the paradigm of [[Organic_Data_Science | Organic Data Science]]. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in [http://criticalzone.org Critical Zone Observatories (CZOs)] and hydrodynamic water quality modeling from the [http://www.gleon.org Global Lake Ecological Observatory Network (GLEON)]  – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, [http://www.lternet.edu/sites/ntl North Temperate Lakes LTER]. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.
  
{{ #ask: [[Is a::researcher]]
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An initial goal is a retrospective analysis based on a fully-coupled catchment-lake-groundwater hydrodynamic model parameterized from national data, calibrated with local data, and implemented to run climate and landuse change scenarios. The target catchments for the initial catchment-lake isoscapes are Trout Lake (Wisconsin) and Shaver Creek (Pennsylvania). As water age and the associated flowpaths are identified, scientists will use that information to infer the sources of organic carbon to lake-catchment ecosystems, their fluxes from the landscape to lakes, the fates as storage, conversion or export, and understanding of the uncertainties surrounding these quantities.  Thus, an outcome of this work will be the first-ever dynamical model for lake water, energy and carbon cycling constrained by a fully coupled catchment mass balance including the effects of the groundwater basin.
| ?expertise
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| ?affiliation
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| default=No researchers are described in this site
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}}
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<b>We are starting to describe models, help us fill in the blanks:</b>
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=== Models Employed ===
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'''Catchment:'''  [http://www.organicdatascience.org/ageofwater/index.php/Select_core_lake_and_catchment_models Penn State Integrated Hydrologic Model (PIHM)]
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<br>'''Lake:''' [http://www.organicdatascience.org/ageofwater/index.php/Select_core_lake_and_catchment_models General Lake Model (GLM)]
  
{{ #ask: [[Is a::model]]
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== The Online Framework ==
| ?author
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The science-driven demands of this research project have motivated the assembly of community-level resources distributed amongst institutions. The complex suite of resources, including data sets, computer models, computing resources, or technological staff must be coordinated and directed toward a common goal.
| ?software_license
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| ?language
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| default=No models are described in this site
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}}
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== What is Organic Data Science ==
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The organic data science platform is a structured environment that can handle this complexity. By documenting the scientific progress, unresolved tasks that must be undertaken are made clear, both as a reminder to the principal investigators, but also to new members who want to contribute. The wiki provides a legacy of documentation, and a trail of how results were obtained. Ultimately, it is envisioned to lead to better scientific products representative of diverse contributions from both the hydrology and limnology communities.
  
<i>Text to be added.</i>
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<b>Organic Data Science</b>.  [http://www.organicdatascience.org See this site for more information about this framework].
  
== Our Science Goal: The Age of Water ==
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== Ongoing Science Activities ==
  
Our starting point is the [[Changing_Connectivity_in_the_Hydroscape | Changing Connectivity in the Hydroscape]]
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# [[Develop a computational model for water and carbon isotopes in lake-catchment systems]]
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# [[Select core lake and catchment models]]
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# [[Implement the catchment model for North Temperate Lakes]]
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# [[Implement the lake model for North Temperate Lakes]]
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# [[Couple the lake and catchment models]]
  
== A Semantic Wiki for Organic Data Science ==
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== Leadership Team ==
  
<i>Text to be added.</i>
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[[File:LeadTeam.JPG|400px|G16 Workshop Leadership Team|border]]
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<br>(Left to Right) Jordan Read, Lele Shu, Chris Duffy, Paul Hanson, Hilary Dugan, Craig Snortheim, Gopal Bhatt
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<br>(Not pictured) Yolanda Gil
  
=== Structuring Content in a Semantic Wiki ===
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= Contributing and Participating =
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<b>[[Contributors | There is a growing set of contributors to the project]].</b>
  
To structure the content of this wiki, we use a semantic wiki framework.
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We welcome new members to the project. By contributing you can:
We use an extension of [http://semantic-mediawiki.org/ Semantic MediaWiki] that enables contributors to use structured semantic properties to describe the contents of the wiki. 
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#Become part of a community that works on large science problems
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#Become involved in science projects that would otherwise be impractical
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#Be more efficient in your workflow
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#Learn about tools that otherwise may seem unapproachable
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#Give direction to projects
  
One way in which this wiki structures content is though pre-defined categoriesPages can have special categories, which gives the wiki pages a pre-defined semantic structure. Special categories include Task, Answer, and Data.
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The contents of this wiki are accessible to everyoneIf you would like to contribute new content, please contact us to obtain an account by emailing us at <b>organic.data.science@gmail.com.</b>
  
In addition, each page has a section called "Structured Properties", where contributors can specify properties and values of the topic of the page.  Any contributor can define new properties on the fly.  Any contributor can change an existing property by one that is used elsewhere, effectively normalizing the use of the property across pages and therefore across objects.
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= Acknowledgments =
  
Another extension in this wiki is that contributor credit is tracked and shown.  At the bottom of each page, the contributors to that page are shown together with the details of their contributions to that page.  Contributors can also have their own pages, which include any background information they wish to share, and where the edits that they have made are automatically summarized and shown.
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This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.
 
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* An example of a <b>task</b> page: [[Document_PIHM_Model | Document PIHM Model]]
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* An example of a <b>data</b> page: [[Knb-lter-ntl.87.8 | knb-lter-ntl.87.8]]
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* An example of a <b>researcher</b> page: [[Jordan_Read | Jordan Read]]
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* An example of a <b>model</b> page: [[PIHM_Software | PIHM Software]]
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<b>A great way to start is to create your own page!  Just type your name on the "Search" box, agree to create a page, save it empty, and then add properties imitating the example researcher page above.</b>
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=== Using Structured Content to Dynamically Create Sections of Wiki Pages ===
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Those properties can then be used to answer queries that aggregate automatically those properties and pages.  Below are some examples of how a query can be stated using those structured properties, and the automatically generated table that answers the query.  These queries can be used to create dynamically generated content.
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{{ #ask: [[Is a::model]]
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| ?author
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| ?software_license
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| ?language
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| default=No models are described in this site
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}}
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{{ #ask: [[Is a::researcher]]
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| ?expertise
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| ?affiliation
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| default=No researchers are described in this site
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}}
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=== Accessing Structured Content Externally ===
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The structured content in this semantic wiki is represented with the [http://www.w3.org/RDF/ W3C RDF] semantic representation standard. 
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This allows others to access and import the content of this wiki into their applications.
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There is extensive documentation about this '''[http://skc.isi.edu/odp/api.php API here]'''.
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=== How to Add Text to a Wiki Page ===
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In addition to structured properties, this wiki also allows adding regular wiki text and content.  When editing, and before adding any text, click on the "Save Page" button at the bottom.  After that select a category.  Then edit.
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See the [[Quick_Guide_to_Using_a_Wiki | Quick Guide to Using a Wiki]], or the detailed [//meta.wikimedia.org/wiki/Help:Contents User's Guide].
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Latest revision as of 15:41, 6 November 2014

Our Science Goal: The Age of Water and Carbon

Organic team science would enable the creation of “virtual overlay networks” over existing cyberinfrastructure and other related activities.

This study focuses on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, The Age of Water and Carbon, that melds theory and practice from limnology and hydrology within the paradigm of Organic Data Science. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in Critical Zone Observatories (CZOs) and hydrodynamic water quality modeling from the Global Lake Ecological Observatory Network (GLEON) – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, North Temperate Lakes LTER. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.

An initial goal is a retrospective analysis based on a fully-coupled catchment-lake-groundwater hydrodynamic model parameterized from national data, calibrated with local data, and implemented to run climate and landuse change scenarios. The target catchments for the initial catchment-lake isoscapes are Trout Lake (Wisconsin) and Shaver Creek (Pennsylvania). As water age and the associated flowpaths are identified, scientists will use that information to infer the sources of organic carbon to lake-catchment ecosystems, their fluxes from the landscape to lakes, the fates as storage, conversion or export, and understanding of the uncertainties surrounding these quantities. Thus, an outcome of this work will be the first-ever dynamical model for lake water, energy and carbon cycling constrained by a fully coupled catchment mass balance including the effects of the groundwater basin.

Models Employed

Catchment: Penn State Integrated Hydrologic Model (PIHM)
Lake: General Lake Model (GLM)

The Online Framework

The science-driven demands of this research project have motivated the assembly of community-level resources distributed amongst institutions. The complex suite of resources, including data sets, computer models, computing resources, or technological staff must be coordinated and directed toward a common goal.

The organic data science platform is a structured environment that can handle this complexity. By documenting the scientific progress, unresolved tasks that must be undertaken are made clear, both as a reminder to the principal investigators, but also to new members who want to contribute. The wiki provides a legacy of documentation, and a trail of how results were obtained. Ultimately, it is envisioned to lead to better scientific products representative of diverse contributions from both the hydrology and limnology communities.

Organic Data Science. See this site for more information about this framework.

Ongoing Science Activities

  1. Develop a computational model for water and carbon isotopes in lake-catchment systems
  2. Select core lake and catchment models
  3. Implement the catchment model for North Temperate Lakes
  4. Implement the lake model for North Temperate Lakes
  5. Couple the lake and catchment models

Leadership Team

G16 Workshop Leadership Team
(Left to Right) Jordan Read, Lele Shu, Chris Duffy, Paul Hanson, Hilary Dugan, Craig Snortheim, Gopal Bhatt
(Not pictured) Yolanda Gil

Contributing and Participating

There is a growing set of contributors to the project.

We welcome new members to the project. By contributing you can:

  1. Become part of a community that works on large science problems
  2. Become involved in science projects that would otherwise be impractical
  3. Be more efficient in your workflow
  4. Learn about tools that otherwise may seem unapproachable
  5. Give direction to projects

The contents of this wiki are accessible to everyone. If you would like to contribute new content, please contact us to obtain an account by emailing us at organic.data.science@gmail.com.

Acknowledgments

This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

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