adjusted layout, added menu sidebar #77

cboettig · Mar 29, 2013 · 51d9335 · 51d9335
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commit 51d9335
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Showing 8 changed files with 96 additions and 79 deletions.
diff --git a/_layouts/project.html b/_layouts/project.html
@@ -8,17 +8,34 @@
   <div class="span2">
 <ul class="nav nav-list">
 <li class="nav-header">Active Projects</li>
-<li><a href="/projects/nonparametric-bayes">Nonparametric Bayes</a></li>
+<li 
-<li><a href="/projects/multiple-uncertainty">Multiple Uncertainty</a></li>
+  {% if page.url == '/projects/nonparametric-bayes.html' %} 
-<li><a href="/projects/warning-signals">Early Warning Signals</a></li>
+    class="active" 
-<li><a href="/projects/open-science">Open Science</a></li>
+  {% endif %} ><a href="/projects/nonparametric-bayes.html">Nonparametric Bayes</a></li>
-<li><a href="/projects/ropensci">ropensci</a></li>
+<li {% if page.url == '/projects/multiple-uncertainty.html' %} 
-<li class="nav-header">Earlier Projects</li> 
+    class="active" 
-<li><a href="/projects/adaptive-dynamics">Adaptive Dynamics</a></li>
+  {% endif %} ><a href="/projects/multiple-uncertainty.html">Multiple Uncertainty</a></li>
-<li><a href="/projects/phylogenetics">Phylogenetics</a></li>
+<li {% if page.url == '/projects/warning-signals.html' %} 
+    class="active" 
+  {% endif %} ><a href="/projects/warning-signals.html">Early Warning Signals</a></li>
+<li  {% if page.url == '/projects/open-science.html' %} 
+    class="active" 
+  {% endif %}><a href="/projects/open-science.html">Open Science</a></li>
+<li  {% if page.url == '/projects/ropensci.html' %} 
+    class="active" 
+  {% endif %}><a href="/projects/ropensci.html">ropensci</a></li>
+<li  class="nav-header">Earlier Projects</li> 
+<li  {% if page.url == '/projects/adaptive-dynamics.html' %} 
+    class="active" 
+  {% endif %}><a href="/projects/adaptive-dynamics.html">Adaptive Dynamics</a></li>
+<li  {% if page.url == '/projects/phylogenetics.html' %} 
+    class="active" 
+  {% endif %}><a href="/projects/phylogenetics.html">Phylogenetics</a></li>
 </ul>
   </div>
   <div class="span10">
+    <div class="borderleft">
     {{ content }}
+    </div>
   </div>
 </div>
diff --git a/projects/adaptive-dynamics.html b/projects/adaptive-dynamics.html
@@ -1,18 +1,17 @@
 ---
 title: adaptive-dynamics 
-layout: page
+layout: project 
-published: false
 ---
 
 {% capture project %}adaptive-dynamics{% endcapture %}
 
 <div class="row">
-  <div class="span7">
+  <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="span4 sidebar">
+    <div class="span3">
     <h3> Collaborators </h3>
     <ul>
       <li> Joshua Weitz </li>
@@ -33,16 +32,16 @@ <h3> Funding and Support/Affiliation </h3>
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <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="span4">
+    <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="span4">
+    <div class="span3">
       <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
       {% mendeley_feed 529981/adaptive-dynamics, 4 %}
     </div>
@@ -52,8 +51,8 @@ <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <div class="span3">
       <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
       <ul>
 
@@ -66,14 +65,14 @@ <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publi
       </ul>
 
      </div>
-     <div class="span4">
+     <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="span4">
+    <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>

diff --git a/projects/multiple-uncertainty.html b/projects/multiple-uncertainty.html
@@ -1,5 +1,5 @@
 ---
-title: The impact of Multiple Uncertainties in Conservation Decision Theory
+title: The impact of multiple uncertainty in conservation decisions 
 layout: project
 ---
 
@@ -13,7 +13,8 @@ <h2> Abstract </h2>
   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" style="fontsize:.8em; border-left: 1px solid @backgroundHighlights;">
+    <div class="span3">
+      <div class="borderleft">
       <h3> Collaborators </h3>
       <ul>
         <li> Mike Springborn </li>
@@ -24,6 +25,7 @@ <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>

diff --git a/projects/nonparametric-bayes.html b/projects/nonparametric-bayes.html
@@ -1,18 +1,18 @@
 ---
 title: Nonparametric Bayesian Inference for Conservation Decisions
-layout: page
+layout: project
 ---
 
 {% capture project %}nonparametric-bayes{% endcapture %}
 
 <div class="row">
-  <div class="span7">
+  <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="span4 sidebar">
+    <div class="span3 sidebar">
     <h3> Collaborators </h3>
     <ul>
       <li> Marc Mangel </li>
@@ -32,16 +32,16 @@ <h3> Funding and Support/Affiliation </h3>
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <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="span4">
+    <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="span4">
+    <div class="span3">
       <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
       {% mendeley_feed 634301/theoretical-ecology, 4 %}
     </div>
@@ -51,18 +51,18 @@ <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <div class="span3">
       <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
      </div>
-     <div class="span4">
+     <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="span4">
+    <div class="span3">
       <h4> Data sets </h4>
     </div>
   </div>

diff --git a/projects/open-science.html b/projects/open-science.html
@@ -1,20 +1,19 @@
 ---
 title: My experiments with open science 
-layout: page
+layout: project
-published: false
 ---
 
 {% capture project %}open-science{% endcapture %}
 
 <div class="row">
-  <div class="span7">
+  <div class="span6">
     <h2> Abstract </h2>
     <!-- Pull Readme and parse Abstract with Nokogiri? -->
     This tag unites several projects.  
 
     </div>
 
-    <div class="span4 sidebar">
+    <div class="span3">
     <h3> Collaborators </h3>
     <ul>
       <li>  </li>
@@ -32,16 +31,16 @@ <h3> Funding and Support/Affiliation </h3>
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <div class="span3">
       <h4><a href="https://github.com/cboettig/labnotebook" style="color:#6c71c4;"><i class="icon-github"></i> Recent Commits</a> </h4>
       {% octokit_commits labnotebook%}
     </div>
-    <div class="span4">
+    <div class="span3">
       <h4><a href="https://github.com/cboettig/labnotebook/issues" style="color:#d33682;"> <i class="icon-list"></i> Active Issues / Next Steps</a> </h4>
       {% octokit_issues labnotebook%}
     </div>
-    <div class="span4">
+    <div class="span3">
       <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
       {% mendeley_feed 530031/future-of-science, 4 %}
     </div>
@@ -51,18 +50,18 @@ <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <div class="span3">
       <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
      </div>
-     <div class="span4">
+     <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.open-science 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="span4">
+    <div class="span3">
       <h4> Data sets </h4>
     </div>
   </div>

diff --git a/projects/phylogenetics.html b/projects/phylogenetics.html
@@ -1,19 +1,19 @@
 ---
 title: Comparative phylogenetic methods
-layout: page
+layout: project
 ---
 
 {% capture project %}phylogenetics{% endcapture %}
 
 <div class="row">
-  <div class="span7">
+  <div class="span6">
     <h2> Abstract </h2>
     <!-- Pull Readme and parse Abstract with Nokogiri? -->
     Part of my dissertation research involved the detection and statistical verification of regime shifts in macroevolutionary history using phylogenetic comparative methods.  The statistical work appears in the [pmc]() repository, though it is often applied in my generalization of the regime shift models to the case of a "release of constraint", which is found in the [wrightscape]() repository.  
 
     </div>
 
-    <div class="span4 sidebar">
+    <div class="span3 sidebar">
     <h3> Collaborators </h3>
     <ul>
       <li> Peter Wainwright </li>
@@ -37,16 +37,16 @@ <h3> Funding and Support/Affiliation </h3>
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <div class="span3">
       <h4><a href="https://github.com/cboettig/wrightscape" style="color:#6c71c4;"><i class="icon-github"></i> Recent Commits</a> </h4>
       {% octokit_commits wrightscape%}
     </div>
-    <div class="span4">
+    <div class="span3">
       <h4><a href="https://github.com/cboettig/wrightscape/issues" style="color:#d33682;"> <i class="icon-list"></i> Active Issues / Next Steps</a> </h4>
       {% octokit_issues wrightscape%}
     </div>
-    <div class="span4">
+    <div class="span3">
       <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a> </h4>
       {% mendeley_feed 529971/phylogenetic-methods, 4 %}
     </div>
@@ -56,18 +56,18 @@ <h4><a href="" style="color:#dc322f;"> <i class="icon-bookmark" ></i> Reading</a
 <hr>
 
 <div class="row">
-  <div calss="span12">
+  <div calss="span10">
-    <div class="span4">
+    <div class="span3">
       <h4> <a href="/vita.html" style="color:#2aa198;"><i class="icon-book"></i> Publications</a> </h4>
      </div>
-     <div class="span4">
+     <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.phylogenetics 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="span4">
+    <div class="span3">
       <h4> Data sets </h4>
     </div>
   </div>