Merge pull request #22 from biotaphy/release-1.0-documentation

Release 1.0 documentation
biotaphy · Mar 14, 2019 · 4853d9f · 4853d9f
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diff --git a/README.md b/README.md
@@ -1,6 +1,8 @@
 # BiotaPhy analyses
 
+![Latest release](https://img.shields.io/github/release/biotaphy/analyses.svg)
 [![Build Status](https://travis-ci.org/biotaphy/analyses.svg?branch=master)](https://travis-ci.org/biotaphy/analyses) [![Coverage Status](https://coveralls.io/repos/github/biotaphy/analyses/badge.svg?branch=master)](https://coveralls.io/github/biotaphy/analyses?branch=master)
+![License Badge](https://img.shields.io/github/license/biotaphy/analyses.svg)
 
 The BiotaPhy Analyses repository is an open source project, initially,
 containing tools generated as part of the BiotaPhy project for computing bio

diff --git a/_sphinx_config/analyses/ancestral_distribution.rst b/_sphinx_config/analyses/ancestral_distribution.rst
@@ -250,3 +250,7 @@ generate plots of the ancestral distributions by providing a directory to the
 
 References
 ==========
+
+Folk, R. A., Visger, C. J., Soltis, P. S., Soltis, D. E., & Guralnick, R. P. (2018). Geographic range dynamics drove ancient hybridization in a lineage of angiosperms. The American Naturalist, 192(2), 171-187.
+
+Smith, S. A., & Donoghue, M. J. (2010). Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic biology, 59(3), 322-341.
diff --git a/_sphinx_config/pages/references.rst b/_sphinx_config/pages/references.rst
@@ -1,2 +1,6 @@
 References
 ==========
+
+Folk, R. A., Visger, C. J., Soltis, P. S., Soltis, D. E., & Guralnick, R. P. (2018). Geographic range dynamics drove ancient hybridization in a lineage of angiosperms. The American Naturalist, 192(2), 171-187.
+
+Smith, S. A., & Donoghue, M. J. (2010). Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic biology, 59(3), 322-341.
diff --git a/docs/sphinx/.doctrees/analyses/ancestral_distribution.doctree b/docs/sphinx/.doctrees/analyses/ancestral_distribution.doctree
diff --git a/docs/sphinx/.doctrees/environment.pickle b/docs/sphinx/.doctrees/environment.pickle
diff --git a/docs/sphinx/.doctrees/pages/format_json.doctree b/docs/sphinx/.doctrees/pages/format_json.doctree
diff --git a/docs/sphinx/.doctrees/pages/references.doctree b/docs/sphinx/.doctrees/pages/references.doctree
diff --git a/docs/sphinx/_sources/analyses/ancestral_distribution.rst.txt b/docs/sphinx/_sources/analyses/ancestral_distribution.rst.txt
@@ -250,3 +250,7 @@ generate plots of the ancestral distributions by providing a directory to the
 
 References
 ==========
+
+Folk, R. A., Visger, C. J., Soltis, P. S., Soltis, D. E., & Guralnick, R. P. (2018). Geographic range dynamics drove ancient hybridization in a lineage of angiosperms. The American Naturalist, 192(2), 171-187.
+
+Smith, S. A., & Donoghue, M. J. (2010). Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic biology, 59(3), 322-341.
diff --git a/docs/sphinx/_sources/pages/references.rst.txt b/docs/sphinx/_sources/pages/references.rst.txt
@@ -1,2 +1,6 @@
 References
 ==========
+
+Folk, R. A., Visger, C. J., Soltis, P. S., Soltis, D. E., & Guralnick, R. P. (2018). Geographic range dynamics drove ancient hybridization in a lineage of angiosperms. The American Naturalist, 192(2), 171-187.
+
+Smith, S. A., & Donoghue, M. J. (2010). Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic biology, 59(3), 322-341.
diff --git a/docs/sphinx/analyses/ancestral_distribution.html b/docs/sphinx/analyses/ancestral_distribution.html
@@ -308,6 +308,8 @@ <h2>Output<a class="headerlink" href="#output" title="Permalink to this headline
 </div>
 <div class="section" id="references">
 <h2>References<a class="headerlink" href="#references" title="Permalink to this headline">¶</a></h2>
+<p>Folk, R. A., Visger, C. J., Soltis, P. S., Soltis, D. E., &amp; Guralnick, R. P. (2018). Geographic range dynamics drove ancient hybridization in a lineage of angiosperms. The American Naturalist, 192(2), 171-187.</p>
+<p>Smith, S. A., &amp; Donoghue, M. J. (2010). Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic biology, 59(3), 322-341.</p>
 </div>
 </div>
 

diff --git a/docs/sphinx/pages/references.html b/docs/sphinx/pages/references.html
@@ -53,6 +53,8 @@ <h3>Navigation</h3>
 
   <div class="section" id="references">
 <h1>References<a class="headerlink" href="#references" title="Permalink to this headline">¶</a></h1>
+<p>Folk, R. A., Visger, C. J., Soltis, P. S., Soltis, D. E., &amp; Guralnick, R. P. (2018). Geographic range dynamics drove ancient hybridization in a lineage of angiosperms. The American Naturalist, 192(2), 171-187.</p>
+<p>Smith, S. A., &amp; Donoghue, M. J. (2010). Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic biology, 59(3), 322-341.</p>
 </div>
 
 

diff --git a/docs/sphinx/searchindex.js b/docs/sphinx/searchindex.js