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setup template based layout for projects

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1 parent 5a52abb commit a48e29b6c405e5da38f0be647a683fdb600719a1 @cboettig committed Mar 30, 2013
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+<!-- Must not involve indentation (of 4 or more spaces) if template is to be pulled into markdown files! -->
+<div class="row">
+<div class="span10">
+<div class="span6">
+<h2> Abstract </h2>
+{{ page.abstract }}
+</div>
+<div class="span3">
+<div class="borderleft">
+<h3> Collaborators </h3>
+{{ project_collaborators }}
+<h3> Funding and Support/Affiliation </h3>
+{{ project_funding }}
+</div>
+</div>
+</div>
+</div>
+<hr>
+<div class="row">
+<div calss="span10">
+<div class="span3">
+<h4> <a href="/tags.html#{{ page.tag }}" style="color:#b58900;"><i class="icon-tags" ></i>Tagged notebook entries</a> </h4>
+{{ project_entries }}
+</div>
+<div class="span3">
+<h4><a href="https://github.com/cboettig/{{ page.github }}/issues" style="color:#d33682;"> <i class="icon-list"></i> Active Issues / Next Steps</a> </h4>
+{{ project_issues }}
+</div>
+<div class="span3">
+<h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
+{{ project_feed }}
+</div>
+</div>
+<hr>
+<div class="row">
+<div calss="span10">
+<div class="span3">
+<h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
+{{ project_publications }}
+</div>
+<div class="span3">
+ <h4><a href="https://github.com/cboettig/{{ page.github }}" style="color:#6c71c4;"><i class="icon-github"></i> Recent Commits</a> </h4>
+{{ project_commits }}
+</div>
+<div class="span3">
+<h4> Data sets </h4>
+{{ project_data }}
+</div>
+</div>
+</div>
+
+
+
@@ -1,86 +0,0 @@
----
-title: adaptive-dynamics
-layout: project
----
-
-{% capture project %}adaptive-dynamics{% endcapture %}
-
-<div class="row">
- <div class="span6">
- <h2> Abstract </h2>
- This project is not currently active. I still stay loosely abrest of this literature, so the reading list is somewhat more recent.
- </div>
-
- <div class="span3">
- <h3> Collaborators </h3>
- <ul>
- <li> Joshua Weitz </li>
- <li> Jonathan Dushoff </li>
- <li> Ulf Dieckmann </li>
- <li> Rupert Mazzucco </li>
- </ul>
-
- <h3> Funding and Support/Affiliation </h3>
- <ul>
- <li> <a href="http://www.iiasa.ac.at/web/home/about/news/Apply-now-for-the-Young-Scientists-Summer-Program.en.html">IIASA YSSP</a> </li>
- <li> National Academy of Sciences and NSF Grant No. OISE-0738129 </li>
- </ul>
- </div>
-</div>
-
-<!-- add icons to title text -->
-
-<hr>
-
-<div class="row">
- <div calss="span10">
-
- <div class="span3">
- <h4> <a href="/tags.html#{{ project }}" style="color:#b58900;"><i class="icon-tags" ></i>Tagged notebook entries</a> </h4>
- {% for post in site.tags.adaptive-dynamics limit:8 %}
- <p> <a href="{{ post.url }}">{{ post.title }}</a>
- <span style="font-style:italic"> {{ post.date | date_to_string }}</span></p>
- {% endfor %}
- </div>
- <div class="span3">
- <h4><a href="https://github.com/cboettig/AdaptiveDynamics/issues" style="color:#d33682;"> <i class="icon-list"></i> Active Issues / Next Steps</a> </h4>
- {% octokit_issues AdaptiveDynamics%}
- </div>
- <div class="span3">
- <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
- {% mendeley_feed 529981/adaptive-dynamics, 4 %}
- </div>
- </div>
-</div>
-
-<hr>
-
-<div class="row">
- <div calss="span10">
- <div class="span3">
- <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
- <ul>
- <li >Carl Boettiger, Jonathan Dushoff, Joshua S Weitz (2010) <strong>Fluctuation domains in adaptive evolution</strong>, 6-13. <em>Theoretical Population Biology</em> 77 (1). <a rel="datacite:doi" href="http://dx.doi.org/10.1016/j.tpb.2009.10.003">doi</a>:10.1016/j.tpb.2009.10.003 (<a href="http://www.mendeley.com/download/public/98752/3107791751/8b066644aca2e396fd5e120d563026c8d560dc77/dl.pdf">pdf</a>) (<a href="http://arxiv.org/abs/1004.4233">arXiv</a>) (<a href="https://github.com/cboettig/fluctuationDomains">code</a>) (<a href="http://datadryad.org/handle/10255/dryad.37625">data</a>)</li>
- <li>Carl Boettiger, Joshua Weitz, Simon Levin (2007) <strong>Adaptive Dynamics: Branching Phenomena and the Canonical Equation</strong> <em>Princeton Physics Dept</em>. <a href="http://www.mendeley.com/download/public/98752/3107796951/191a62cc7aca52feb33075b833ac13eba1ed9679/dl.pdf" title="Download file">Download PDF</a> (775.55 KB)</li>
- <li>Carl Boettiger. (2009) Presentation at the International Institute of Applied Systems Analysis, Vienna; Austria. In <em>Nature Precedings,</em> (<a href="http://dx.doi.org/10.1038/npre.2012.6852.1">doi</a>) (<a href="http://www.slideshare.net/cboettig/iiasa-final">slides</a>)</li>
- </ul>
- </div>
-
- <div class="span3">
- <h4><a href="https://github.com/cboettig/AdaptiveDynamics" style="color:#6c71c4;"><i class="icon-github"></i> Recent Commits</a> </h4>
- {% octokit_commits AdaptiveDynamics%}
- </div>
-
- <div class="span3">
- <h4> Software </h4>
- <ul>
- <li> Simulate explicit ecological and evolutionary dynamics leading to branching: <a href="https://github.com/cboettig/AdaptiveDynamics">AdaptiveDynamics</a> (R, C++)</li>
- <li> Illustrate Fluctuation domains: <a href="https://github.com/cboettig/fluctuationDomains">fluctuationDomains</a> (R, C) </li>
- </ul>
-
- </div>
- </div>
-</div>
-
-
-
@@ -0,0 +1,64 @@
+---
+title: Stochastic effects in Adaptive Dynamics
+layout: project
+tag: adaptive-dynamics
+github: AdaptiveDynamics
+abstract: "Research in stochastic effects in Adaptive Dynamics. Adaptive Dynamics extends evolutionary game theory into the context of dynamical systems rather that stationary strategies. Unlike much evolutionary theory, this approach permits rich, density-dependent ecological interactions to drive the evolutionary dynamics rather than more abstract claims about fitness. However, most of the genetic richness is lost, making this more informative about the evoltionary stability of ecological dynamics under evolutionary perturbation than a detailed evolutionary model. While most of adaptive dynamics works in the deterministic limits of ordinary differential equations, my work extends this to the stochastic context."
+
+---
+
+{% capture project_collaborators %}
+- Joshua Weitz
+- Jonathan Dushoff
+- Ulf Dieckmann
+- Rupert Mazzucco
+
+{% endcapture %}
+{% capture project_funding %}
+- [IIASA YSSP](http://www.iiasa.ac.at/web/home/about/news/Apply-now-for-the-Young-Scientists-Summer-Program.en.html)
+- National Academy of Sciences and NSF Grant No. OISE-0738129
+
+{% endcapture %}
+
+{% capture project_issues %}
+{% octokit_issues AdaptiveDynamics%}
+{% endcapture %}
+
+{% capture project_commits %}
+{% octokit_commits AdaptiveDynamics%}
+{% endcapture %}
+
+{% capture project_feed %}
+{% mendeley_feed 529981/adaptive-dynamics, 3 %}
+{% endcapture %}
+
+{% capture project_entries %}
+{% for post in site.tags.adaptive-dynamics limit:8 %}
+<p> <a href="{{ post.url }}">{{ post.title }}</a>
+<span style="font-style:italic"> {{ post.date | date_to_string }}</span></p>
+{% endfor %}
+{% endcapture %}
+
+{% capture project_publications %}
+<ul>
+<li >Carl Boettiger, Jonathan Dushoff, Joshua S Weitz (2010) <strong>Fluctuation domains in adaptive evolution</strong>, 6-13. <em>Theoretical Population Biology</em> 77 (1). <a rel="datacite:doi" href="http://dx.doi.org/10.1016/j.tpb.2009.10.003">doi</a>:10.1016/j.tpb.2009.10.003 (<a href="http://www.mendeley.com/download/public/98752/3107791751/8b066644aca2e396fd5e120d563026c8d560dc77/dl.pdf">pdf</a>) (<a href="http://arxiv.org/abs/1004.4233">arXiv</a>) (<a href="https://github.com/cboettig/fluctuationDomains">code</a>) (<a href="http://datadryad.org/handle/10255/dryad.37625">data</a>)</li>
+<li>Carl Boettiger, Joshua Weitz, Simon Levin (2007) <strong>Adaptive Dynamics: Branching Phenomena and the Canonical Equation</strong> <em>Princeton Physics Dept</em>. <a href="http://www.mendeley.com/download/public/98752/3107796951/191a62cc7aca52feb33075b833ac13eba1ed9679/dl.pdf" title="Download file">Download PDF</a> (775.55 KB)</li>
+<li>Carl Boettiger. (2009) Presentation at the International Institute of Applied Systems Analysis, Vienna; Austria. In <em>Nature Precedings,</em> (<a href="http://dx.doi.org/10.1038/npre.2012.6852.1">doi</a>) (<a href="http://www.slideshare.net/cboettig/iiasa-final">slides</a>)</li>
+</ul>
+{% endcapture %}
+
+{% capture project_data %}
+<strong> Software </strong>
+- Simulate explicit ecological and evolutionary dynamics leading to branching: [AdaptiveDynamics](https://github.com/cboettig/AdaptiveDynamics) (R, C++)
+- Illustrate Fluctuation domains: [fluctuationDomains](https://github.com/cboettig/fluctuationDomains) (R, C)
+
+{% endcapture %}
+
+
+
+
+
+
+{% include project_template.html %}
+
+
@@ -1,75 +0,0 @@
----
-title: The impact of multiple uncertainty in conservation decisions
-layout: project
----
-
-{% capture project %}multiple-uncertainty{% endcapture %}
-
-<div class="row">
- <div class="span10">
- <div class="span6">
- <h2> Abstract </h2>
- <!-- Pull Readme and parse Abstract with Nokogiri? -->
- This project is an exploration into measuring and comparing the value of information in the problem of optimal control/management of a natural resource under multiple sources of uncertainty. Uncertainty about model dynamics, quality of information, and the accuracy of management implementation pose a challenge both in theory and practice of managing natural systems. Different forms of uncertainty may interact, making it impossible to study each in isolation, even in theory and simulation. While managers can often gather additional information to decease uncertainty, not all information is equally valuable. The goal of this project is to help illuminate what kinds of information are most valuable (or kinds of uncertainty are most hazardous) in a way that can be quantified directly in the context of the management optimization problem.
- </div>
-
- <div class="span3">
- <div class="borderleft">
- <h3> Collaborators </h3>
- <ul>
- <li> Mike Springborn </li>
- <li> Jim Sanchirico </li>
- </ul>
-
- <h3> Funding and Support/Affiliation </h3>
- <ul>
- <li> This project is supported through my 20% independent time during my CSTAR postdoc at UC Santa Cruz. </li>
- </ul>
- </div>
- </div>
- </div>
-</div>
-
-<!-- add icons to title text -->
-
-<hr>
-
-<div class="row">
- <div calss="span10">
- <div class="span3">
- <h4> <a href="/tags.html#{{ project }}" style="color:#b58900;"><i class="icon-tags" ></i>Tagged notebook entries</a> </h4>
- {% for post in site.tags.multiple-uncertainty limit:8 %}
- <p> <a href="{{ post.url }}">{{ post.title }}</a>
- <span style="font-style:italic"> {{ post.date | date_to_string }}</span></p>
- {% endfor %}
- </div>
- <div class="span3">
- <h4><a href="https://github.com/cboettig/multiple_uncertainty/issues" style="color:#d33682;"> <i class="icon-list"></i> Active Issues / Next Steps</a> </h4>
- {% octokit_issues multiple_uncertainty%}
- </div>
- <div class="span3">
- <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
- {% mendeley_feed 634301/theoretical-ecology, 4 %}
- </div>
- </div>
-</div>
-
-<hr>
-
-<div class="row">
- <div calss="span10">
- <div class="span3">
- <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
- </div>
- <div class="span3">
- <h4><a href="https://github.com/cboettig/multiple_uncertainty" style="color:#6c71c4;"><i class="icon-github"></i> Recent Commits</a> </h4>
- {% octokit_commits multiple_uncertainty%}
- </div>
- <div class="span3">
- <h4> Data sets </h4>
- </div>
- </div>
-</div>
-
-
-
@@ -0,0 +1,41 @@
+---
+title: The impact of multiple uncertainty in conservation decisions
+layout: project
+tag: multiple-uncertainty
+github: multiple_uncertainty
+abstract: "This project is an exploration into measuring and comparing the value of information in the problem of optimal control or management of a natural resource under multiple sources of uncertainty. Uncertainty about model dynamics, quality of information, and the accuracy of management implementation pose a challenge both in theory and practice of managing natural systems. Different forms of uncertainty may interact, making it impossible to study each in isolation, even in theory and simulation. While managers can often gather additional information to decease uncertainty, not all information is equally valuable. The goal of this project is to help illuminate what kinds of information are most valuable (or kinds of uncertainty are most hazardous) in a way that can be quantified directly in the context of the management optimization problem."
+
+---
+
+{% capture project_funding %}
+
+{% endcapture %}
+
+{% capture project_collaborators %}
+
+- Mike Springborn
+- Jim Sanchirico
+
+{% endcapture %}
+
+{% capture project_issues %}
+{% octokit_issues multiple_uncertainty%}
+{% endcapture %}
+{% capture project_commits %}
+{% octokit_commits multiple_uncertainty%}
+{% endcapture %}
+{% capture project_feed %}
+{% mendeley_feed 634301/theoretical-ecology, 4 %}
+{% endcapture %}
+{% capture project_entries %}
+{% for post in site.tags.multiple-uncertainty limit:8 %}
+<p> <a href="{{ post.url }}">{{ post.title }}</a>
+<span style="font-style:italic"> {{ post.date | date_to_string }}</span></p>
+{% endfor %}
+{% endcapture %}
+{% capture project_data %}
+
+{% endcapture %}
+
+
+{% include project_template.html %}
@@ -1,72 +0,0 @@
----
-title: Nonparametric Bayesian Inference for Conservation Decisions
-layout: project
----
-
-{% capture project %}nonparametric-bayes{% endcapture %}
-
-<div class="row">
- <div class="span6">
- <h2> Abstract </h2>
- <!-- Pull Readme and parse Abstract with Nokogiri? -->
- A repository for my research in nonparametric Bayesian inference for improving ecosystem management under substantial structural uncertainty.
- </div>
-
- <div class="span3 borderleft">
- <h3> Collaborators </h3>
- <ul>
- <li> Marc Mangel </li>
- <li> Steve Munch </li>
- </ul>
-
- <h3> Funding and Support/Affiliation </h3>
- <ul>
- <li> Center for Stock Assessment Research, Southwest Fisheries Science Center, NOAA </li>
- <li> Department of Applied Mathematics and Statistics, Baskins School of Engineering, UC Santa Cruz </li>
- </ul>
- </div>
-</div>
-
-<!-- add icons to title text -->
-
-<hr>
-
-<div class="row">
- <div calss="span10">
- <div class="span3">
- <h4> <a href="/tags.html#{{ project }}" style="color:#b58900;"><i class="icon-tags" ></i>Tagged notebook entries</a> </h4>
- {% for post in site.tags.nonparametric-bayes limit:8 %}
- <p> <a href="{{ post.url }}">{{ post.title }}</a>
- <span style="font-style:italic"> {{ post.date | date_to_string }}</span></p>
- {% endfor %}
- </div>
- <div class="span3">
- <h4><a href="https://github.com/cboettig/{{ project }}/issues" style="color:#d33682;"> <i class="icon-list"></i> Active Issues / Next Steps</a> </h4>
- {% octokit_issues nonparametric-bayes%}
- </div>
- <div class="span3">
- <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
- {% mendeley_feed 634301/theoretical-ecology, 4 %}
- </div>
- </div>
-</div>
-
-<hr>
-
-<div class="row">
- <div calss="span10">
- <div class="span3">
- <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
- </div>
- <div class="span3">
- <h4><a href="https://github.com/cboettig/{{ project }}" style="color:#6c71c4;"><i class="icon-github"></i> Recent Commits</a> </h4>
- {% octokit_commits nonparametric-bayes%}
- </div>
- <div class="span3">
- <h4> Data sets </h4>
- </div>
- </div>
-</div>
-
-
-
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