Add built-in citation support using new citeproc library.

This deprecates the use of the external pandoc-citeproc
filter; citation processing is now built in to pandoc.

* Add dependency on citeproc library.
* Add Text.Pandoc.Citeproc module (and some associated unexported
  modules under Text.Pandoc.Citeproc).  Exports `processCitations`.
  [API change]
* Add data files needed for Text.Pandoc.Citeproc:  default.csl
  in the data directory, and a citeproc directory that is just
  used at compile-time.  Note that we've added file-embed as a mandatory
  rather than a conditional depedency, because of the biblatex
  localization files. We might eventually want to use readDataFile
  for this, but it would take some code reorganization.
* Text.Pandoc.Loging: Add `CiteprocWarning` to `LogMessage` and use it
  in `processCitations`. [API change]
* Add tests from the pandoc-citeproc package as command tests (including
  some tests pandoc-citeproc did not pass).
* Remove instructions for building pandoc-citeproc from CI and
  release binary build instructions.  We will no longer distribute
  pandoc-citeproc.
* Markdown reader: tweak abbreviation support.  Don't insert a
  nonbreaking space after a potential abbreviation if it comes right before
  a note or citation.  This messes up several things, including citeproc's
  moving of note citations.
* Add `csljson` as and input and output format. This allows pandoc
  to convert between `csljson` and other bibliography formats,
  and to generate formatted versions of CSL JSON bibliographies.
* Add module Text.Pandoc.Writers.CslJson, exporting `writeCslJson`. [API
  change]
* Add module Text.Pandoc.Readers.CslJson, exporting `readCslJson`. [API
  change]
* Added `bibtex`, `biblatex` as input formats.  This allows pandoc
  to convert between BibLaTeX and BibTeX and other bibliography formats,
  and to generated formatted versions of BibTeX/BibLaTeX bibliographies.
* Add module Text.Pandoc.Readers.BibTeX, exporting `readBibTeX` and
  `readBibLaTeX`. [API change]
* Make "standalone" implicit if output format is a bibliography format.
  This is needed because pandoc readers for bibliography formats put
  the bibliographic information in the `references` field of metadata;
  and unless standalone is specified, metadata gets ignored.
  (TODO: This needs improvement. We should trigger standalone for the
  reader when the input format is bibliographic, and for the writer
  when the output format is markdown.)
* Carry over `citationNoteNum` to `citationNoteNumber`.  This was just
  ignored in pandoc-citeproc.
* Text.Pandoc.Filter: Add `CiteprocFilter` constructor to Filter.
  [API change] This runs the processCitations transformation.
  We need to treat it like a filter so it can be placed
  in the sequence of filter runs (after some, before others).
  In FromYAML, this is parsed from `citeproc` or `{type: citeproc}`,
  so this special filter may be specified either way in a defaults file
  (or by `citeproc: true`, though this gives no control of positioning
  relative to other filters).  TODO: we need to add something to the
  manual section on defaults files for this.
* Add deprecation warning if `upandoc-citeproc` filter is used.
* Add `--citeproc/-C` option to trigger citation processing.
  This behaves like a filter and will be positioned
  relative to filters as they appear on the command line.
* Rewrote the manual on citatations, adding a dedicated Citations
  section which also includes some information formerly found in
  the pandoc-citeproc man page.
* Look for CSL styles in the `csl` subdirectory of the pandoc user data
  directory.  This changes the old pandoc-citeproc behavior, which looked
  in `~/.csl`.  Users can simply symlink `~/.csl` to the `csl`
  subdirectory of their pandoc user data directory if they want
  the old behavior.
* Add support for CSL bibliography entry formatting to LaTeX, HTML,
  Ms writers.  Added CSL-related CSS to styles.html.

1 files changed, 245 insertions, 0 deletions

diff --git a/test/command/science.csl b/test/command/science.csl
new file mode 100644
index 000000000..2a9864cb2
--- /dev/null
+++ b/test/command/science.csl
@@ -0,0 +1,245 @@
+<?xml version="1.0" encoding="utf-8"?>
+<style xmlns="http://purl.org/net/xbiblio/csl" class="in-text" version="1.0" demote-non-dropping-particle="sort-only" default-locale="en-US">
+  <info>
+    <title>Science</title>
+    <id>http://www.zotero.org/styles/science</id>
+    <link href="http://www.zotero.org/styles/science" rel="self"/>
+    <link href="http://www.sciencemag.org/about/authors/prep/res/refs.dtl" rel="documentation"/>
+    <author>
+      <name>Julian Onions</name>
+      <email>julian.onions@gmail.com</email>
+    </author>
+    <contributor>
+      <name>Sebastian Karcher</name>
+    </contributor>
+    <contributor>
+      <name>Greg Barendt</name>
+    </contributor>
+    <category citation-format="numeric"/>
+    <category field="science"/>
+    <issn>0036-8075</issn>
+    <eissn>1095-9203</eissn>
+    <summary>The Science journal style.</summary>
+    <updated>2014-06-18T08:06:38+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="editor">
+    <names variable="editor" delimiter=", ">
+      <name initialize-with=". " delimiter=", " delimiter-precedes-last="always"/>
+      <label form="short" prefix=", " text-case="capitalize-first"/>
+    </names>
+  </macro>
+  <macro name="author">
+    <names variable="author">
+      <name sort-separator=", " initialize-with=". " delimiter=", " delimiter-precedes-last="always"/>
+      <label form="short" prefix=", " text-case="capitalize-first"/>
+      <et-al font-style="italic"/>
+      <substitute>
+        <names variable="editor"/>
+      </substitute>
+    </names>
+  </macro>
+  <macro name="access">
+    <choose>
+      <if variable="page" match="none">
+        <text macro="access-value"/>
+      </if>
+      <else-if is-numeric="page" match="none">
+        <text macro="access-value"/>
+      </else-if>
+    </choose>
+  </macro>
+  <macro name="access-value">
+    <choose>
+      <if variable="DOI">
+        <text variable="DOI" prefix=", doi:"/>
+      </if>
+      <else>
+        <group prefix=" (" suffix=")">
+          <text value="available at "/>
+          <text variable="URL"/>
+        </group>
+      </else>
+    </choose>
+  </macro>
+  <macro name="title">
+    <choose>
+      <if type="bill book graphic legal_case legislation motion_picture report song" match="any">
+        <text variable="title" font-style="italic"/>
+      </if>
+      <else>
+        <text variable="title"/>
+      </else>
+    </choose>
+  </macro>
+  <macro name="article-details">
+    <group delimiter=", ">
+      <group delimiter=". ">
+        <text macro="title"/>
+        <text form="short" variable="container-title" font-style="italic"/>
+        <text variable="volume" font-weight="bold"/>
+      </group>
+      <text variable="page"/>
+    </group>
+    <text macro="issued" prefix=" (" suffix=")"/>
+    <text macro="access"/>
+  </macro>
+  <macro name="publisher">
+    <group delimiter=", ">
+      <text variable="publisher"/>
+      <text variable="publisher-place"/>
+    </group>
+  </macro>
+  <macro name="volume">
+    <text variable="volume" prefix="vol. "/>
+  </macro>
+  <macro name="pages">
+    <label variable="page" form="short" suffix=" "/>
+    <text variable="page" form="short"/>
+  </macro>
+  <macro name="issued">
+    <date variable="issued" delimiter=" ">
+      <date-part name="year"/>
+    </date>
+  </macro>
+  <macro name="edition">
+    <choose>
+      <if is-numeric="edition">
+        <group delimiter=" ">
+          <text term="edition" form="short"/>
+          <number variable="edition" form="numeric"/>
+        </group>
+      </if>
+      <else>
+        <text variable="edition" suffix="."/>
+      </else>
+    </choose>
+  </macro>
+  <citation collapse="citation-number">
+    <sort>
+      <key variable="citation-number"/>
+    </sort>
+    <layout prefix="(" suffix=")" delimiter=", ">
+      <text variable="citation-number" font-style="italic"/>
+    </layout>
+  </citation>
+  <bibliography et-al-min="6" et-al-use-first="1" second-field-align="flush">
+    <layout suffix=".">
+      <text variable="citation-number" suffix=". "/>
+      <group delimiter=", ">
+        <text macro="author"/>
+        <choose>
+          <if type="thesis">
+            <group delimiter=" ">
+              <group delimiter=", ">
+                <group>
+                  <!-- Always print, even if no university given -->
+                  <text value="thesis"/>
+                </group>
+                <text macro="publisher"/>
+              </group>
+              <text macro="issued" prefix="(" suffix=")"/>
+            </group>
+          </if>
+          <else-if type="bill book graphic legal_case legislation motion_picture song chapter paper-conference" match="any">
+            <group delimiter=" ">
+              <choose>
+                <if type="chapter paper-conference" match="any">
+                  <group delimiter=", ">
+                    <group delimiter=" ">
+                      <text term="in"/>
+                      <text variable="container-title" font-style="italic"/>
+                    </group>
+                    <text macro="editor"/>
+                  </group>
+                </if>
+                <else>
+                  <text macro="title"/>
+                </else>
+              </choose>
+              <group prefix="(" suffix=")" delimiter="; ">
+                <group delimiter=", ">
+                  <text macro="publisher"/>
+                  <text macro="edition"/>
+                  <text macro="issued"/>
+                </group>
+                <text variable="URL"/>
+              </group>
+            </group>
+            <group delimiter=" of ">
+              <group>
+                <label variable="volume" form="short" suffix=" "/>
+                <number variable="volume"/>
+              </group>
+              <text variable="collection-title" font-style="italic"/>
+            </group>
+            <choose>
+              <if type="chapter paper-conference" match="any">
+                <text macro="pages"/>
+              </if>
+            </choose>
+          </else-if>
+          <else-if type="article-journal">
+            <choose>
+              <if variable="page">
+                <choose>
+                  <if is-numeric="page" match="none">
+                    <group>
+                      <group delimiter=", ">
+                        <text variable="container-title" form="short" font-style="italic"/>
+                        <group>
+                          <text term="in press"/>
+                        </group>
+                      </group>
+                      <text macro="access"/>
+                    </group>
+                  </if>
+                  <else>
+                    <text macro="article-details"/>
+                  </else>
+                </choose>
+              </if>
+              <else>
+                <text macro="article-details"/>
+              </else>
+            </choose>
+          </else-if>
+          <else-if type="report">
+            <group>
+              <group delimiter=", ">
+                <text variable="title" quotes="true"/>
+                <text variable="collection-title" font-style="italic"/>
+              </group>
+              <group prefix=" (" suffix=")" delimiter=", ">
+                <group delimiter=" ">
+                  <text variable="genre" form="short"/>
+                  <number variable="number"/>
+                </group>
+                <text variable="publisher"/>
+                <text variable="publisher-place"/>
+                <text macro="issued"/>
+              </group>
+            </group>
+            <text macro="pages"/>
+            <text macro="access"/>
+          </else-if>
+          <else>
+            <group>
+              <group delimiter=", ">
+                <text macro="editor"/>
+                <group delimiter=". ">
+                  <text macro="title"/>
+                  <text form="short" variable="container-title" font-style="italic"/>
+                  <text variable="volume" font-weight="bold"/>
+                </group>
+              </group>
+              <text macro="issued" prefix=" (" suffix=")"/>
+            </group>
+            <text macro="pages"/>
+            <text macro="access"/>
+          </else>
+        </choose>
+      </group>
+    </layout>
+  </bibliography>
+</style>