Add csl file for reference formatting

ecology.csl

@@ -0,0 +1,192 @@
+<?xml version="1.0" encoding="utf-8"?>
+<style xmlns="http://purl.org/net/xbiblio/csl" class="in-text" default-locale="en-US" version="1.0" demote-non-dropping-particle="sort-only">
+  <info>
+    <title>Ecology</title>
+    <id>http://www.zotero.org/styles/ecology</id>
+    <link href="http://www.zotero.org/styles/ecology" rel="self"/>
+    <link href="http://esapubs.org/esapubs/AuthorInstructions.htm" rel="documentation"/>
+    <author>
+      <name>Rintze Zelle</name>
+      <uri>http://twitter.com/rintzezelle</uri>
+    </author>
+    <category citation-format="author-date"/>
+    <category field="biology"/>
+    <issn>0012-9658</issn>
+    <updated>2012-09-27T22:06:38+00:00</updated>
+    <rights license="http://creativecommons.org/licenses/by-sa/3.0/">This work is licensed under a Creative Commons Attribution-ShareAlike 3.0 License</rights>
+  </info>
+  <macro name="container-contributors">
+    <choose>
+      <if type="chapter paper-conference" match="any">
+        <text term="in" suffix=" " font-style="italic"/>
+        <names variable="editor translator" delimiter=", ">
+          <name and="text" initialize-with=". " delimiter=", "/>
+          <label form="long" prefix=", " suffix="."/>
+        </names>
+      </if>
+    </choose>
+  </macro>
+  <macro name="secondary-contributors">
+    <choose>
+      <if type="chapter paper-conference" match="none">
+        <names variable="editor translator" delimiter=", " prefix=" (" suffix=")">
+          <name and="text" initialize-with=". " delimiter=", "/>
+          <label form="short" prefix=", " text-case="capitalize-first" suffix="." strip-periods="true"/>
+        </names>
+      </if>
+    </choose>
+  </macro>
+  <macro name="author">
+    <names variable="author">
+      <name name-as-sort-order="first" and="text" sort-separator=", " initialize-with=". " delimiter=", " delimiter-precedes-last="always"/>
+      <label form="short" prefix=" (" suffix=".)" text-case="capitalize-first" strip-periods="true"/>
+      <substitute>
+        <names variable="editor"/>
+        <names variable="translator"/>
+        <text variable="title"/>
+      </substitute>
+    </names>
+  </macro>
+  <macro name="author-short">
+    <names variable="author">
+      <name form="short" and="text" delimiter=", " initialize-with=". "/>
+      <substitute>
+        <names variable="editor"/>
+        <names variable="translator"/>
+        <choose>
+          <if type="bill book graphic legal_case legislation motion_picture report song" match="any">
+            <text variable="title" form="short" font-style="italic"/>
+          </if>
+          <else>
+            <text variable="title" form="short" quotes="true"/>
+          </else>
+        </choose>
+      </substitute>
+    </names>
+  </macro>
+  <macro name="access">
+    <choose>
+      <if type="webpage">
+        <text variable="URL"/>
+      </if>
+    </choose>
+  </macro>
+  <macro name="publisher">
+    <group delimiter=", ">
+      <choose>
+        <if type="article-journal article-magazine" match="none">
+          <text variable="genre"/>
+          <text variable="publisher"/>
+          <text variable="publisher-place"/>
+        </if>
+      </choose>
+    </group>
+  </macro>
+  <macro name="event">
+    <text variable="event"/>
+    <text variable="event-place" prefix=", "/>
+  </macro>
+  <macro name="issued">
+    <choose>
+      <if variable="issued">
+        <group prefix=" " suffix=".">
+          <date variable="issued">
+            <date-part name="year"/>
+          </date>
+          <choose>
+            <if type="article-journal bill book chapter graphic legal_case legislation motion_picture paper-conference report song" match="none">
+              <date variable="issued">
+                <date-part prefix=", " name="month"/>
+                <date-part prefix=" " name="day"/>
+              </date>
+            </if>
+          </choose>
+        </group>
+      </if>
+      <else>
+        <text prefix=" (" term="no date" suffix=")." form="short"/>
+      </else>
+    </choose>
+  </macro>
+  <macro name="issued-year">
+    <choose>
+      <if variable="issued">
+        <date variable="issued">
+          <date-part name="year"/>
+        </date>
+      </if>
+      <else>
+        <text term="no date" form="short"/>
+      </else>
+    </choose>
+  </macro>
+  <macro name="edition">
+    <choose>
+      <if type="bill book chapter graphic legal_case legislation motion_picture paper-conference report song" match="any">
+        <choose>
+          <if is-numeric="edition">
+            <number variable="edition" form="ordinal" prefix=", "/>
+            <text term="edition" form="long" prefix=" " suffix="."/>
+          </if>
+          <else>
+            <text variable="edition" suffix="."/>
+          </else>
+        </choose>
+      </if>
+    </choose>
+  </macro>
+  <macro name="locators">
+    <choose>
+      <if type="article-journal article-magazine article-newspaper" match="any">
+        <text variable="container-title" prefix=". "/>
+        <text variable="volume" prefix=" "/>
+        <text variable="page" prefix=":"/>
+      </if>
+      <else-if type="bill book chapter graphic legal_case legislation motion_picture paper-conference report song" match="any">
+        <group prefix=". " delimiter=" ">
+          <label variable="page" form="long" text-case="capitalize-first"/>
+          <text variable="page"/>
+          <text macro="container-contributors"/>
+          <text macro="secondary-contributors"/>
+          <text variable="container-title"/>
+        </group>
+      </else-if>
+    </choose>
+  </macro>
+  <macro name="citation-locator">
+    <group>
+      <label variable="locator" form="short"/>
+      <text variable="locator" prefix=" "/>
+    </group>
+  </macro>
+  <citation et-al-min="3" et-al-use-first="1" disambiguate-add-year-suffix="true" collapse="year">
+    <sort>
+      <key variable="issued"/>
+      <key macro="author"/>
+    </sort>
+    <layout prefix="(" suffix=")" delimiter=", ">
+      <group delimiter=" ">
+        <text macro="author-short"/>
+        <text macro="issued-year"/>
+        <text macro="citation-locator"/>
+      </group>
+    </layout>
+  </citation>
+  <bibliography hanging-indent="true" entry-spacing="0">
+    <sort>
+      <key macro="author"/>
+      <key variable="issued"/>
+    </sort>
+    <layout suffix=".">
+      <text macro="author" suffix="."/>
+      <text macro="issued" suffix=" "/>
+      <text variable="title"/>
+      <text macro="locators"/>
+      <text macro="edition"/>
+      <group delimiter=". " prefix=". ">
+        <text macro="publisher"/>
+        <text macro="access"/>
+      </group>
+    </layout>
+  </bibliography>
+</style>

makefile

@@ -1,4 +1,4 @@
 all: data_sharing_ms.pdf
 
 data_sharing_ms.pdf: data_sharing_ms.md data_sharing_refs.bib
-	pandoc -H format.sty -V fontsize=12pt --bibliography data_sharing_refs.bib data_sharing_ms.md -o data_sharing_ms.pdf
+	pandoc -H format.sty -V fontsize=12pt --bibliography data_sharing_refs.bib --csl=ecology.csl data_sharing_ms.md -o data_sharing_ms.pdf