Testing release webhook; please ignore

:

.editorconfig

@@ -0,0 +1,15 @@
+root = true
+
+[*]
+indent_style = spaces
+indent_size = 2
+end_of_line = lf
+charset = utf-8
+trim_trailing_whitespace = true
+insert_final_newline = true
+
+[*.{json,yml}]
+indent_size = 2
+
+[*.md]
+trim_trailing_whitespace = false

.eslintrc.json

@@ -0,0 +1,22 @@
+{
+    "env": {
+        "browser": true,
+        "es6": true,
+        "node": true
+    },
+    "extends": "eslint:recommended",
+    "parserOptions": {
+        "sourceType": "module"
+    },
+    "rules": {
+        "no-unused-vars": ["warn", { "vars": "all", "args": "after-used" }],
+        "no-console": ["off", { "allow": ["warn", "error"] } ],
+        "no-empty": ["error", { "allowEmptyCatch": true }],
+        "indent": [ "warn", 2 ],
+        "linebreak-style": [ "error", "unix" ],
+        "quotes": [ "warn", "single" ],
+        "semi": [ "warn", "always" ],
+        "no-extra-semi": [ "warn" ],
+        "no-debugger": [ "warn" ]
+    }
+}

.gitignore

@@ -9,18 +9,6 @@ pids
 *.seed
 *.pid.lock
 
-# Directory for instrumented libs generated by jscoverage/JSCover
-lib-cov
-
-# Coverage directory used by tools like istanbul
-coverage
-
-# nyc test coverage
-.nyc_output
-
-# Grunt intermediate storage (http://gruntjs.com/creating-plugins#storing-task-files)
-.grunt
-
 # node-waf configuration
 .lock-wscript
 
@@ -29,6 +17,7 @@ build/Release
 
 # Dependency directories
 node_modules
+bower_components
 jspm_packages
 
 # Optional npm cache directory
@@ -45,3 +34,7 @@ jspm_packages
 
 # Yarn Integrity file
 .yarn-integrity
+
+# Copied fonts
+examples/fonts
+dist

.travis.yml

@@ -15,4 +15,4 @@ deploy:
   skip_cleanup: true
   overwrite: true
   on:
-    tags: true
+    tags: true

README.md

@@ -1,25 +1,28 @@
 # Distill Templates
 
-This is the repository for the distill web framework. If you're interesting in just using the framework to write an article for the [Distill journal](http://distill.pub), visit http://distill.pub/guide/. 
-
-The general process for using this framework is to hotlink the compiled code in your dev environment. 
-
-```html
-<script src="http://distill.pub/template.v1.js"></script>
-```
-
-You can also install it as a local dependency through npm or with [yarn](https://yarnpkg.com).
-
-```
-npm install --D distill-template
-```
-
-If you're interested in submitting pull requests or developing on the framework itself, read on.
-
 ## Development
 
-Run `yarn start` to start a watching build rollup server. To view the sample pages in the repo, you can run `yarn serve` as a separate process which starts a static server. `yarn build` will run a one-time build.
+Run `yarn start` to start a watching build rollup server.
 
 ## Testing
 
 Run `yarn test`. That's it.
+
+
+## TODO:
+
+-[ ] auto detection/adding behavior
+  * title
+  * appendix
+  * footnote list ?
+-[x] should work without distill-appendix
+-[x] YML author without ":" should work?
+-[ ] throw warning on <hr>
+-[ ] h numbering:
+  h2: position relative
+  a: position: absolute;
+  right: calc(100% + 16px);
+  /* text-align: right; */
+  /* width: 80px; */
+  /* font-size: 20px; */
+  /* font-weight: 200; */

bin/render

@@ -1,18 +1,20 @@
 #!/usr/bin/env node
 
-var fs = require("fs"),
-    jsdom = require("jsdom").jsdom,
-    serializeDocument = require("jsdom").serializeDocument,
-    distill = require("../dist/template.js"),
-    program = require('commander');
+const fs = require('fs');
+const jsdom = require('jsdom').jsdom;
+const serialize = require('jsdom').serializeDocument;
+const program = require('commander');
+const transforms = require('../dist/transforms.js');
 
 program
   .version('0.0.1')
   .option('-i, --input <path>', 'path to input file.')
   .parse(process.argv);
 
-let htmlString = fs.readFileSync(program.input, "utf8");
-var dom = jsdom(htmlString, {features: {ProcessExternalResources: false, FetchExternalResources: false}});
-distill.render(dom, {});
-let transformedHtml = serializeDocument(dom);
+const htmlString = fs.readFileSync(program.input, 'utf8');
+const data = {};
+const dom = jsdom(htmlString, {features: {ProcessExternalResources: false, FetchExternalResources: false, runScripts: 'dangerously'}});
+transforms.render(dom, data);
+transforms.distillify(dom, data);
+const transformedHtml = serialize(dom);
 process.stdout.write(transformedHtml);

components/appendix-distill.js

@@ -1,28 +0,0 @@
-export default function(dom, data) {
-  let el = dom.querySelector('dt-appendix > div');
-  if (el) {
-    let newHTML = "";
-
-    newHTML += `<h3>Updates and Corrections</h3>
-    <p><a href="${data.githubCompareUpdatesUrl}">View all changes</a> to this article since it was first published. If you see a mistake or want to suggest a change, please <a class="github-issue" href="${data.githubUrl}/issues/new">create an issue on GitHub</a>.</p>`;
-
-    newHTML += `<h3 id="citation">Citations and Reuse</h3>
-    <p>Diagrams and text are licensed under Creative Commons Attribution <a href="https://creativecommons.org/licenses/by/2.0/">CC-BY 2.0</a>, unless noted otherwise, with the <a class="github" href="${data.githubUrl}">source available on GitHub</a>. The figures that have been reused from other sources don't fall under this license and can be recognized by a note in their caption: “Figure from …”.</p>
-
-    <p>For attribution in academic contexts, please cite this work as</p>
-    <pre class="citation short">${data.concatenatedAuthors}, "${data.title}", ${data.journal.title}, ${data.publishedYear}. http://doi.org/${data.doi}</pre>
-
-    <p>BibTeX citation</p>
-<pre class="citation long">@article{${data.slug},
-  author = {${data.bibtexAuthors}},
-  title = {${data.title}},
-  journal = {${data.journal.title}},
-  year = {${data.publishedYear}},
-  url = {${data.url}},
-  doi = {${data.doi}}
-}</pre>`;
-
-    let existingHTML = el.innerHTML;
-    el.innerHTML = existingHTML + newHTML;
-  }
-}

components/appendix.js

@@ -1,72 +0,0 @@
-const templateHTML = `
-<style>
-  dt-appendix {
-    display: block;
-    font-size: 14px;
-    line-height: 24px;
-    margin-bottom: 0;
-    border-top: 1px solid rgba(0,0,0,0.1);
-    color: rgba(0,0,0,0.5);
-    background: rgb(250, 250, 250);
-    padding-top: 36px;
-    padding-bottom: 60px;
-  }
-  dt-appendix h3 {
-    font-size: 16px;
-    font-weight: 500;
-    margin-top: 18px;
-    margin-bottom: 18px;
-    color: rgba(0,0,0,0.65);
-  }
-  dt-appendix .citation {
-    font-size: 11px;
-    line-height: 15px;
-    border-left: 1px solid rgba(0, 0, 0, 0.1);
-    padding-left: 18px;
-    border: 1px solid rgba(0,0,0,0.1);
-    background: rgba(0, 0, 0, 0.02);
-    padding: 10px 18px;
-    border-radius: 3px;
-    color: rgba(150, 150, 150, 1);
-    overflow: hidden;
-    margin-top: -12px;
-  }
-  dt-appendix .references {
-    font-size: 12px;
-    line-height: 20px;
-  }
-  dt-appendix a {
-    color: rgba(0, 0, 0, 0.6);
-  }
-  dt-appendix ol,
-  dt-appendix ul {
-    padding-left: 24px;
-  }
-</style>
-
-<div class="l-body">
-</div>
-`;
-
-export default function(dom, data) {
-  let el = dom.querySelector('dt-appendix')
-  if (el) {
-    let userHTML = el.innerHTML;
-    el.innerHTML = templateHTML;
-    let newHTML = "";
-
-    // If we have some footnotes on the page, render a container for the footnote list.
-    if (dom.querySelector("dt-fn")) {
-      newHTML = newHTML + `<h3>Footnotes</h3><dt-fn-list></dt-fn-list>`;
-    }
-
-    // If we have any citations on the page, render a container for the bibliography.
-    if (dom.querySelector("dt-cite")) {
-      newHTML = newHTML + `<h3>References</h3><dt-bibliography></dt-bibliography>`;
-    }
-
-    let div = el.querySelector("div.l-body")
-    div.innerHTML = userHTML + newHTML;
-  }
-
-}

components/bibliography.js

@@ -1,27 +0,0 @@
-import bibtexParse from "bibtex-parse-js";
-
-export default function(dom, data) {
-  let el = dom.querySelector('script[type="text/bibliography"]');
-  let bibliography = {};
-  //TODO If we don't have a local element, make a request for the document.
-  if (el) {
-    let rawBib = el.textContent;
-    let parsed = bibtexParse.toJSON(rawBib);
-    if(parsed) {
-      parsed.forEach(e => {
-        for (var k in e.entryTags){
-          var val = e.entryTags[k];
-          val = val.replace(/[\t\n ]+/g, " ");
-          val = val.replace(/{\\["^`\.'acu~Hvs]( )?([a-zA-Z])}/g,
-                            (full, x, char) => char);
-          val = val.replace(/{\\([a-zA-Z])}/g,
-                            (full, char) => char);
-          e.entryTags[k.toLowerCase()] = val;
-        }
-        bibliography[e.citationKey] = e.entryTags;
-        bibliography[e.citationKey].type = e.entryType;
-      });
-    }
-  }
-  data.bibliography = bibliography;
-}

components/citation.js

@@ -1,254 +0,0 @@
-export default function(dom, data) {
-  let css = `
-    dt-cite {
-      color: hsla(206, 90%, 20%, 0.7);
-    }
-    dt-cite .citation-number {
-      cursor: default;
-      white-space: nowrap;
-      font-family: -apple-system, BlinkMacSystemFont, "Roboto", Helvetica, sans-serif;
-      font-size: 75%;
-      color: hsla(206, 90%, 20%, 0.7);
-      display: inline-block;
-      line-height: 1.1em;
-      text-align: center;
-      position: relative;
-      top: -2px;
-      margin: 0 2px;
-    }
-    figcaption dt-cite .citation-number {
-      font-size: 11px;
-      font-weight: normal;
-      top: -2px;
-      line-height: 1em;
-    }
-  `;
-
-  let style = dom.createElement("style");
-  style.textContent = css;
-  dom.querySelector("body").appendChild(style);
-
-  let citations = data.citations;
-  /*if (data.citations) {
-    citations = Object.keys(data.citations).map(c => data.citations[c]);
-    citations.sort((a, b) => {
-      return a.author.localeCompare(b.author);
-    });
-  }*/
-  
-  var appendCiteHoverDiv = (function() {
-    function nodeFromString(str) {
-      var div = dom.createElement("div");
-      div.innerHTML = str;
-      return div.firstChild;
-    }
-    var hover_boxes_container = nodeFromString(`<div id="cite-hover-boxes-container"></div>`)
-    dom.querySelector("body").appendChild(hover_boxes_container);
-    var hover_n = 0;
-    return function appendHoverDiv(content) {
-      var id = `dt-cite-hover-box-${hover_n}`;
-      hover_n += 1;
-      var str = `<div style="display:none;" class="dt-hover-box" id="${id}" >${content}</div>`;
-      var div = nodeFromString(str);
-      hover_boxes_container.appendChild(div);
-      return id;
-    }
-  })();
-
-  var citeTags = [].slice.apply(dom.querySelectorAll("dt-cite"));
-  citeTags.forEach((el,n) => {
-    var key = el.getAttribute("key");
-    if (key) {
-      var keys = key.split(",");
-      var cite_string = inline_cite_short(keys);
-      var cite_hover_str = "";
-      keys.map((key,n) => {
-        if (n>0) cite_hover_str += "<br><br>";
-        cite_hover_str += hover_cite(data.bibliography[key]);
-      });
-      var ref_id = appendCiteHoverDiv(cite_hover_str);
-      //cite_hover_str = cite_hover_str.replace(/"/g, "&#39;")
-      var orig_string = el.innerHTML;
-      if (orig_string != "") orig_string += " ";
-      el.innerHTML = `<span id="citation-${n}" data-hover-ref="${ref_id}">${orig_string}<span class="citation-number">${cite_string}</span></span>`;
-    }
-  });
-
-  let bibEl = dom.querySelector("dt-bibliography");
-  if (bibEl) {
-    let ol = dom.createElement("ol");
-    citations.forEach(key => {
-      let el = dom.createElement("li");
-      el.innerHTML = bibliography_cite(data.bibliography[key]);
-      ol.appendChild(el);
-    })
-    bibEl.appendChild(ol);
-  }
-
-  function inline_cite_short(keys){
-    function cite_string(key){
-      if (key in data.bibliography){
-        var n = data.citations.indexOf(key)+1;
-        return ""+n;
-      } else {
-        return "?";
-      }
-    }
-    return "["+keys.map(cite_string).join(", ")+"]";
-  }
-
-  function inline_cite_long(keys){
-    function cite_string(key){
-      if (key in data.bibliography){
-        var ent = data.bibliography[key];
-        var names = ent.author.split(" and ");
-        names = names.map(name => name.split(",")[0].trim())
-        var year = ent.year;
-        if (names.length == 1) return names[0] + ", " + year;
-        if (names.length == 2) return names[0] + " & " + names[1] + ", " + year;
-        if (names.length  > 2) return names[0] + ", et al., " + year;
-      } else {
-        return "?";
-      }
-    }
-    return keys.map(cite_string).join(", ");
-  }
-
-  function author_string(ent, template, sep, finalSep){
-    var names = ent.author.split(" and ");
-    let name_strings = names.map(name => {
-      name = name.trim();
-      if (name.indexOf(",") != -1){
-        var last = name.split(",")[0].trim();
-        var firsts = name.split(",")[1];
-      } else {
-        var last = name.split(" ").slice(-1)[0].trim();
-        var firsts = name.split(" ").slice(0,-1).join(" ");
-      }
-      var initials = "";
-      if (firsts != undefined) {
-        initials = firsts.trim().split(" ").map(s => s.trim()[0]);
-        initials = initials.join(".")+".";
-      }
-      return template.replace("${F}", firsts)
-                     .replace("${L}", last)
-                     .replace("${I}", initials);
-    });
-    if (names.length > 1) {
-      var str = name_strings.slice(0, names.length-1).join(sep);
-      str += (finalSep || sep) + name_strings[names.length-1];
-      return str;
-    } else {
-      return name_strings[0];
-    }
-  }
-
-  function venue_string(ent) {
-    var cite = (ent.journal || ent.booktitle || "")
-    if ("volume" in ent){
-      var issue = ent.issue || ent.number;
-      issue = (issue != undefined)? "("+issue+")" : "";
-      cite += ", Vol " + ent.volume + issue;
-    }
-    if ("pages" in ent){
-      cite += ", pp. " + ent.pages
-    }
-    if (cite != "") cite += ". "
-    if ("publisher" in ent){
-      cite += ent.publisher;
-      if (cite[cite.length-1] != ".") cite += ".";
-    }
-    return cite;
-  }
-
-  function link_string(ent){
-    if ("url" in ent){
-      var url = ent.url;
-      var arxiv_match = (/arxiv\.org\/abs\/([0-9\.]*)/).exec(url);
-      if (arxiv_match != null){
-        url = `http://arxiv.org/pdf/${arxiv_match[1]}.pdf`;
-      }
-
-      if (url.slice(-4) == ".pdf"){
-        var label = "PDF";
-      } else if (url.slice(-5) == ".html") {
-        var label = "HTML";
-      }
-      return ` &ensp;<a href="${url}">[${label||"link"}]</a>`;
-    }/* else if ("doi" in ent){
-      return ` &ensp;<a href="https://doi.org/${ent.doi}" >[DOI]</a>`;
-    }*/ else {
-      return "";
-    }
-  }
-  function doi_string(ent, new_line){
-    if ("doi" in ent) {
-      return `${new_line?"<br>":""} <a href="https://doi.org/${ent.doi}" style="text-decoration:inherit;">DOI: ${ent.doi}</a>`;
-    } else {
-      return "";
-    }
-  }
-
-  function bibliography_cite(ent, fancy){
-    if (ent){
-      var cite =  "<b>" + ent.title + "</b> "
-      cite += link_string(ent) + "<br>";
-      cite += author_string(ent, "${L}, ${I}", ", ", " and ");
-      if (ent.year || ent.date){
-        cite += ", " + (ent.year || ent.date) + ". "
-      } else {
-        cite += ". "
-      }
-      cite += venue_string(ent);
-      cite += doi_string(ent);
-      return cite
-      /*var cite =  author_string(ent, "${L}, ${I}", ", ", " and ");
-      if (ent.year || ent.date){
-        cite += ", " + (ent.year || ent.date) + ". "
-      } else {
-        cite += ". "
-      }
-      cite += "<b>" + ent.title + "</b>. ";
-      cite += venue_string(ent);
-      cite += doi_string(ent);
-      cite += link_string(ent);
-      return cite*/
-    } else {
-      return "?";
-    }
-  }
-
-  function hover_cite(ent){
-    if (ent){
-      var cite = "";
-      cite += "<b>" + ent.title + "</b>";
-      cite += link_string(ent);
-      cite += "<br>"
-
-      var a_str = author_string(ent, "${I} ${L}", ", ") + ".";
-      var v_str = venue_string(ent).trim() + " " + ent.year + ". " + doi_string(ent, true);
-
-      if ((a_str+v_str).length < Math.min(40, ent.title.length)) {
-        cite += a_str + " " + v_str;
-      } else {
-        cite += a_str + "<br>" + v_str;
-      }
-      return cite;
-    } else {
-      return "?";
-    }
-  }
-
-
-  //https://scholar.google.com/scholar?q=allintitle%3ADocument+author%3Aolah
-  function get_GS_URL(ent){
-    if (ent){
-      var names = ent.author.split(" and ");
-      names = names.map(name => name.split(",")[0].trim())
-      var title = ent.title.split(" ")//.replace(/[,:]/, "")
-      var url = "http://search.labs.crossref.org/dois?"//""https://scholar.google.com/scholar?"
-      url += uris({q: names.join(" ") + " " + title.join(" ")})
-    }
-
-  }
-}

components/code.js

@@ -1,37 +0,0 @@
-import Prism from "prismjs";
-import "prismjs/components/prism-python";
-import "prismjs/components/prism-clike";
-import "prismjs/components/prism-lua";
-import "prismjs/components/prism-bash";
-import "prismjs/components/prism-go";
-import "prismjs/components/prism-markdown";
-import "prismjs/components/prism-julia";
-
-
-export default function(dom, data) {
-  let codeElements = [].slice.call(dom.querySelectorAll("dt-code"));
-  codeElements.forEach(el => {
-    let content = el.textContent;
-    el.innerHTML = "";
-    let language = el.getAttribute("language");
-    let c = dom.createElement("code");
-    if (el.getAttribute("block") === "") {
-      // Let's normalize the tab indents
-      content = content.replace(/\n/, "");
-      let tabs = content.match(/\s*/);
-      content = content.replace(new RegExp("\n" + tabs, "g"), "\n");
-      content = content.trim();
-      let p = dom.createElement("pre");
-      p.appendChild(c);
-      el.appendChild(p);
-    } else {
-      el.appendChild(c);
-    }
-    let highlighted = content;
-    if (Prism.languages[language]) {
-      c.setAttribute("class", "language-" + language);
-      highlighted = Prism.highlight(content, Prism.languages[language]);
-    }
-    c.innerHTML = highlighted;
-  });
-}

components/data.js

@@ -1,152 +0,0 @@
-import {timeFormat} from "d3-time-format";
-
-export default function(dom, data) {
-
-  //
-  // Properties from source
-  //
-
-  //   title: 'Attention and Augmented Recurrent Neural Networks',
-  //   description: 'A visual overview of neural attention, and the powerful extensions of neural networks being built on top of it.',
-  //   url: 'http://distill.pub/2016/augmented-rnns',
-  //   tags: [ 'rnn' ],
-  //   doiSuffix: 1,
-  //   doi: '10.23915/distill.00001',
-  //   volume: 1,
-  //   issue: 9,
-  //   distillPath: '2016/augmented-rnns',
-  //   githubPath: 'distillpub/post--augmented-rnns',
-  //   githubCompareUpdatesUrl: 'https://github.com/distillpub/post--augmented-rnns/compare/1596e094d8943d2dc0ea445d92071129c6419c59...3bd9209e0c24d020f87cf6152dcecc6017cbc193',
-  //   updatedDate: 2017-03-21T07:13:16.000Z,
-  //   publishedDate: 2016-09-08T07:00:00.000Z,
-  //   journal: {
-  //     "title": "Distill",
-  //     "full_title": "Distill",
-  //     "abbrev_title": "Distill",
-  //     "url": "http://distill.pub",
-  //     "doi": "10.23915/distill",
-  //     "publisherName": "Distill Working Group",
-  //     "publisherEmail": "admin@distill.pub",
-  //     "issn": "2476-0757",
-  //     "editors": [...],
-  //     "committee": [...]
-  //   }
-
-  //
-  // Computed Properties
-  //
-
-  //   githubUrl: 'https://github.com/distillpub/post--augmented-rnns',
-  //   previewURL: 'http://distill.pub/2016/augmented-rnns/thumbnail.jpg',
-  //   publishedDateRFC: 'Thu, 08 Sep 2016 00:00:00 -0700',
-  //   publishedYear: 2016,
-  //   publishedMonth: 'Sept',
-  //   publishedDay: 8,
-  //   publishedMonthPadded: '09',
-  //   publishedDayPadded: '08',
-  //   updatedDateRFC: 'Tue, 21 Mar 2017 00:13:16 -0700',
-  //   concatenatedAuthors: 'Olah & Carter',
-  //   bibtexAuthors: 'Olah, Chris and Carter, Shan',
-  //   slug: 'olah2016attention'
-  //   authors: [
-  //     {
-  //       "personalURL": null,
-  //       "name": "Chris Olah",
-  //       "firstName": "Chris",
-  //       "lastName": "Olah",
-  //       "affiliationURL": null,
-  //       "affiliation": "Google Brain"
-  //     }
-  //   ],
-  //   bibliography: {
-  //     "gregor2015draw": {
-  //       "title": "DRAW: A recurrent neural network for image generation",
-  //       "author": "Gregor, Karol and Danihelka, Ivo and Graves, Alex and Rezende, Danilo Jimenez and Wierstra, Daan",
-  //       "journal": "arXiv preprint arXiv:1502.04623",
-  //       "year": "2015",
-  //       "url": "https://arxiv.org/pdf/1502.04623.pdf",
-  //       "type": "article"
-  //     },
-  //     ...
-  //   },
-  //   citations: [
-  //     "gregor2015draw",
-  //     "mercier2011humans",
-  //     "dong2014image",
-  //     "dumoulin2016guide",
-  //     "mordvintsev2015inceptionism"
-  //   ],
-
-
-  // citations:
-  let citations = [];
-  var citeTags = [].slice.apply(dom.querySelectorAll("dt-cite"));
-  citeTags.forEach(el => {
-    let key = el.getAttribute("key");
-    if (key) {
-      let citationKeys = key.split(",");
-      citationKeys.forEach(key => {
-        if (citations.indexOf(key) == -1){
-          citations.push(key);
-          if (!(key in data.bibliography)){
-            console.warn("No bibliography entry found for: " + key);
-          }
-        }
-      });
-    }
-  });
-  data.citations = citations;
-
-
-  data.authors = data.authors || [];
-
-  // paths
-  if (!data.distillPath && !data.url) {
-    data.url = "http://distill.pub/";
-  } else if (!data.url) {
-    data.url = "http://distill.pub/" + data.distillPath;
-  }
-  data.githubUrl = "https://github.com/" + data.githubPath;
-
-  data.previewURL = data.previewURL ? data.previewURL : data.url + "/thumbnail.jpg"
-
-  // Homepage
-  //data.homepage = !post.noHomepage;
-  data.journal = data.journal || {};
-
-  // Dates
-  if (data.publishedDate){//} && data.journal) {
-    data.volume = data.publishedDate.getFullYear() - 2015;
-    data.issue = data.publishedDate.getMonth() + 1;
-  }
-
-  data.publishedDate = data.publishedDate ? data.publishedDate : new Date("Invalid");
-  data.updatedDate = data.updatedDate ? data.updatedDate : new Date("Invalid");
-
-  data.publishedDateRFC
-  let RFC = timeFormat("%a, %d %b %Y %H:%M:%S %Z");
-  let months = ["Jan", "Feb", "March", "April", "May", "June", "July", "Aug", "Sept", "Oct", "Nov", "Dec"];
-  let zeroPad = (n) => { return n < 10 ? "0" + n : n; };
-  data.publishedDateRFC = RFC(data.publishedDate);
-  data.publishedYear = data.publishedDate.getFullYear();
-  data.publishedMonth = months[data.publishedDate.getMonth()];
-  data.publishedDay = data.publishedDate.getDate();
-  data.publishedMonthPadded = zeroPad(data.publishedDate.getMonth() + 1);
-  data.publishedDayPadded = zeroPad(data.publishedDate.getDate());
-  data.updatedDateRFC = RFC(data.updatedDate);
-
-  if (data.authors.length  > 2) {
-    data.concatenatedAuthors = data.authors[0].lastName + ", et al.";
-  } else if (data.authors.length === 2) {
-    data.concatenatedAuthors = data.authors[0].lastName + " & " + data.authors[1].lastName;
-  } else if (data.authors.length === 1) {
-    data.concatenatedAuthors = data.authors[0].lastName
-  }
-
-  data.bibtexAuthors = data.authors.map(function(author){
-    return author.lastName + ", " + author.firstName;
-  }).join(" and ");
-
-  data.slug = data.authors.length ? data.authors[0].lastName.toLowerCase() + data.publishedYear + data.title.split(" ")[0].toLowerCase() : "Untitled";
-
-}

components/dt-math.js

@@ -1,18 +0,0 @@
-import katex from "katex";
-
-const html = `
-<style>
-dt-math[block] {
-  display: block;
-}
-</style>
-`;
-
-export default function(dom, data) {
-  let equationElements = [].slice.call(dom.querySelectorAll("dt-math"));
-  equationElements.forEach(el => {
-    let content = el.textContent;
-    let displayMode = el.hasAttribute("block") ? true : false;
-    el.innerHTML = html + katex.renderToString(content, {displayMode: displayMode});
-  });
-}

components/footer.js

@@ -1,72 +0,0 @@
-import logo from "./distill-logo.svg";
-
-let html = `
-<style>
-dt-footer {
-  display: block;
-  color: rgba(255, 255, 255, 0.4);
-  font-weight: 300;
-  padding: 40px 0;
-  border-top: 1px solid rgba(0, 0, 0, 0.1);
-  background-color: hsl(200, 60%, 15%);
-  text-align: center;
-}
-dt-footer .logo svg {
-  width: 24px;
-  position: relative;
-  top: 4px;
-  margin-right: 2px;
-}
-dt-footer .logo svg path {
-  fill: none;
-  stroke: rgba(255, 255, 255, 0.8);
-  stroke-width: 3px;
-}
-dt-footer .logo {
-  font-size: 17px;
-  font-weight: 200;
-  color: rgba(255, 255, 255, 0.8);
-  text-decoration: none;
-  margin-right: 6px;
-}
-dt-footer .nav {
-  margin-top: 12px;
-}
-dt-footer .nav a {
-  color: rgba(255, 255, 255, 0.8);
-  margin-right: 6px;
-}
-</style>
-
-<div class="l-page">
-  <div class="description">
-  <a href="/" class="logo">
-    ${logo}
-    Distill
-  </a>
-  is dedicated to clear explanations of machine learning
-  </div>
-  <div class="nav">
-    <a href="http://distill.pub/about/">About</a>
-    <a href="http://distill.pub/journal/">Submit</a>
-    <a href="http://distill.pub/prize/">Prize</a>
-    <a href="http://distill.pub/archive/">Archive</a>
-    <a href="http://distill.pub/rss.xml">RSS</a>
-    <a href="https://github.com/distillpub">GitHub</a>
-    <a href="https://twitter.com/distillpub">Twitter</a>
-    &nbsp;&nbsp;&nbsp;&nbsp; ISSN 2476-0757
-  </div>
-</div>
-`;
-
-export default function(dom, data) {
-  let el = dom.querySelector("dt-footer");
-  if(el) {
-    el.innerHTML = html;
-  } else {
-    let footer = dom.createElement("dt-footer");
-    footer.innerHTML = html;
-    let b = dom.querySelector("body");
-    b.appendChild(footer);
-  }
-}

components/footnote.js

@@ -1,46 +0,0 @@
-export default function(dom, data) {
-
-  var appendFootnoteHoverDiv = (function() {
-    function nodeFromString(str) {
-      var div = dom.createElement("div");
-      div.innerHTML = str;
-      return div.firstChild;
-    }
-    var hover_boxes_container = nodeFromString(`<div id="footnote-hover-boxes-container"></div>`)
-    dom.querySelector("body").appendChild(hover_boxes_container);
-    var hover_n = 0;
-    return function appendHoverDiv(content) {
-      var id = `dt-fn-hover-box-${hover_n}`;
-      hover_n += 1;
-      var str = `<div style="display:none;" class="dt-hover-box" id="${id}" >${content}</div>`;
-      var div = nodeFromString(str);
-      hover_boxes_container.appendChild(div);
-      return id;
-    }
-  })();
-
-
-  var fnTags = [].slice.apply(dom.querySelectorAll("dt-fn"));
-  var fnContent = [];
-  fnTags.forEach((el,n) => {
-    var content = el.innerHTML;
-    var ref_id = appendFootnoteHoverDiv(content)
-    fnContent.push(content);
-    n = (n+1)+"";
-    var key = "fn-"+n;
-    var escaped_content = content.replace(/"/g, "&#39;");
-    el.innerHTML = `<sup><span id="${key}" data-hover-ref="${ref_id}" style="cursor:pointer">${n}</span></sup>`;
-  });
-
-  let fnList = dom.querySelector("dt-fn-list");
-  if (fnList) {
-    let ol = dom.createElement("ol");
-    fnContent.forEach(content => {
-      let el = dom.createElement("li");
-      el.innerHTML = content;
-      ol.appendChild(el);
-    })
-    fnList.appendChild(ol);
-  }
-
-}

components/header.js

@@ -1,92 +0,0 @@
-import logo from "./distill-logo.svg";
-
-const html = `
-<style>
-dt-header {
-  display: block;
-  position: relative;
-  height: 60px;
-  background-color: hsl(200, 60%, 15%);
-  width: 100%;
-  box-sizing: border-box;
-  z-index: 2;
-  color: rgba(0, 0, 0, 0.8);
-  border-bottom: 1px solid rgba(0, 0, 0, 0.08);
-  box-shadow: 0 1px 6px rgba(0, 0, 0, 0.05);
-}
-dt-header .content {
-  height: 70px;
-}
-dt-header a {
-  font-size: 16px;
-  height: 60px;
-  line-height: 60px;
-  text-decoration: none;
-  color: rgba(255, 255, 255, 0.8);
-  padding: 22px 0;
-}
-dt-header a:hover {
-  color: rgba(255, 255, 255, 1);
-}
-dt-header svg {
-  width: 24px;
-  position: relative;
-  top: 4px;
-  margin-right: 2px;
-}
-@media(min-width: 1080px) {
-  dt-header {
-    height: 70px;
-  }
-  dt-header a {
-    height: 70px;
-    line-height: 70px;
-    padding: 28px 0;
-  }
-  dt-header .logo {
-  }
-}
-dt-header svg path {
-  fill: none;
-  stroke: rgba(255, 255, 255, 0.8);
-  stroke-width: 3px;
-}
-dt-header .logo {
-  font-size: 17px;
-  font-weight: 200;
-}
-dt-header .nav {
-  float: right;
-  font-weight: 300;
-}
-dt-header .nav a {
-  font-size: 12px;
-  margin-left: 24px;
-  text-transform: uppercase;
-}
-</style>
-
-<div class="content l-page">
-  <a href="/" class="logo">
-    ${logo}
-    Distill
-  </a>
-  <div class="nav">
-    <a href="/about/">About</a>
-    <a href="/prize/">Prize</a>
-    <a href="/journal/">Submit</a>
-  </div>
-</div>
-`
-
-export default function(dom, data) {
-  let el = dom.querySelector("dt-header");
-  if(el) {
-    el.innerHTML = html;
-  } else {
-    let header = dom.createElement("dt-header");
-    header.innerHTML = html;
-    let b = dom.querySelector("body");
-    b.insertBefore(header, b.firstChild);
-  }
-}

components/hover-box.txt

@@ -1,123 +0,0 @@
-
-
-function nodeFromString(str) {
-  var div = document.createElement("div");
-  div.innerHTML = str;
-  return div.firstChild;
-}
-
-function make_hover_css(pos) {
-  var pretty = window.innerWidth > 600;
-  var padding = pretty? 18 : 12;
-  var outer_padding = pretty ? 18 : 0;
-  var bbox = document.querySelector("body").getBoundingClientRect();
-  var left = pos[0] - bbox.left, top = pos[1] - bbox.top;
-  var width = Math.min(window.innerWidth-2*outer_padding, 648);
-  left = Math.min(left, window.innerWidth-width-outer_padding);
-  width = width - 2*padding;
-  return (`position: absolute;
-     background-color: #FFF;
-     opacity: 0.95;
-     max-width: ${width}px;
-     top: ${top}px;
-     left: ${left}px;
-     border: 1px solid rgba(0, 0, 0, 0.25);
-     padding: ${padding}px;
-     border-radius: ${pretty? 3 : 0}px;
-     box-shadow: 0px 2px 10px 2px rgba(0, 0, 0, 0.2);
-     z-index: ${1e6};`);
-}
-
-
-function DtHoverBox(div_id) {
-  this.div = document.querySelector("#"+div_id);
-  this.visible = false;
-  this.bindDivEvents();
-  DtHoverBox.box_map[div_id] = this;
-}
-
-DtHoverBox.box_map = {};
-
-DtHoverBox.get_box = function get_box(div_id) {
-  if (div_id in DtHoverBox.box_map) {
-    return DtHoverBox.box_map[div_id];
-  } else {
-    return new DtHoverBox(div_id);
-  }
-}
-
-DtHoverBox.prototype.show = function show(pos){
-  this.visible = true;
-  this.div.setAttribute("style", make_hover_css(pos) );
-  for (var box_id in DtHoverBox.box_map) {
-    var box = DtHoverBox.box_map[box_id];
-    if (box != this) box.hide();
-  }
-}
-
-DtHoverBox.prototype.showAtNode = function showAtNode(node){
-    var bbox = node.getBoundingClientRect();
-    this.show([bbox.right, bbox.bottom]);
-}
-
-DtHoverBox.prototype.hide = function hide(){
-  this.visible = false;
-  if (this.div) this.div.setAttribute("style", "display:none");
-  if (this.timeout) clearTimeout(this.timeout);
-}
-
-DtHoverBox.prototype.stopTimeout = function stopTimeout() {
-  if (this.timeout) clearTimeout(this.timeout);
-}
-
-DtHoverBox.prototype.extendTimeout = function extendTimeout(T) {
-  //console.log("extend", T)
-  var this_ = this;
-  this.stopTimeout();
-  this.timeout = setTimeout(function(){this_.hide();}.bind(this), T);
-}
-
-// Bind events to a link to open this box
-DtHoverBox.prototype.bind = function bind(node) {
-  if (typeof node == "string"){
-    node = document.querySelector(node);
-  }
-
-  node.addEventListener("mouseover", function(){
-    if (!this.visible) this.showAtNode(node);
-    this.stopTimeout();
-  }.bind(this));
-
-  node.addEventListener("mouseout", function(){this.extendTimeout(250);}.bind(this));
-
-  node.addEventListener("touchstart", function(e) {
-    if (this.visible) {
-      this.hide();
-    } else {
-      this.showAtNode(node);
-    }
-    // Don't trigger body touchstart event when touching link
-    e.stopPropagation();
-  }.bind(this));
-}
-
-DtHoverBox.prototype.bindDivEvents = function bindDivEvents(){
-  // For mice, same behavior as hovering on links
-  this.div.addEventListener("mouseover", function(){
-    if (!this.visible) this.showAtNode(node);
-    this.stopTimeout();
-  }.bind(this));
-  this.div.addEventListener("mouseout", function(){this.extendTimeout(250);}.bind(this));
-
-  // Don't trigger body touchstart event when touching within box
-  this.div.addEventListener("touchstart", function(e){e.stopPropagation();});
-  // Close box when touching outside box
-  document.body.addEventListener("touchstart", function(){this.hide();}.bind(this));
-}
-
-var hover_es = document.querySelectorAll("span[data-hover-ref]");
-hover_es = [].slice.apply(hover_es);
-hover_es.forEach(function(e,n){
-  var ref_id = e.getAttribute("data-hover-ref");
-  DtHoverBox.get_box(ref_id).bind(e);
-})

components/html.js

@@ -1,19 +0,0 @@
-export default function(dom) {
-  if (!dom.querySelector("html").getAttribute("lang")) {
-    dom.querySelector("html").setAttribute("lang", "en")
-  }
-
-  let head = dom.querySelector("head");
-
-  if (!dom.querySelector("meta[charset]")) {
-    let meta = dom.createElement("meta");
-    meta.setAttribute("charset", "utf-8");
-    head.appendChild(meta);
-  }
-  if (!dom.querySelector("meta[name=viewport]")) {
-    let meta = dom.createElement("meta");
-    meta.setAttribute("name", "viewport");
-    meta.setAttribute("content", "width=device-width, initial-scale=1");
-    head.appendChild(meta);
-  }
-}

components/meta.js

@@ -1,141 +0,0 @@
-import favicon from './distill-favicon.base64';
-import escape from 'escape-html';
-
-export default function(dom, data) {
-  let head = dom.querySelector("head");
-  let appendHead = html => appendHtml(head, html);
-
-  function meta(name, content, force) {
-    if (content || force)
-      appendHead(`    <meta name="${name}" content="${escape(content)}" >\n`);
-  }
-
-  appendHead(`
-    <meta http-equiv="X-UA-Compatible" content="IE=Edge,chrome=1">
-    <link rel="icon" type="image/png" href="data:image/png;base64,${favicon}">
-    <link href="/rss.xml" rel="alternate" type="application/rss+xml" title="Articles from Distill">
-    <link rel="canonical" href="${data.url}">
-    <title>${data.title}</title>
-  `);
-
-  appendHead(`
-    <!--  https://schema.org/Article -->
-    <meta property="article:published" itemprop="datePublished" content="${data.publishedYear}-${data.publishedMonthPadded}-${data.publishedDayPadded}" />
-    <meta property="article:created" itemprop="dateCreated" content="${data.publishedDate}" />
-    <meta property="article:modified" itemprop="dateModified" content="${data.updatedDate}" />
-  `);
-  data.authors.forEach((a) => {
-    appendHtml(head, `
-      <meta property="article:author" content="${a.firstName} ${a.lastName}" />`)
-  });
-
-  appendHead(`
-    <!--  https://developers.facebook.com/docs/sharing/webmasters#markup -->
-    <meta property="og:type" content="article"/>
-    <meta property="og:title" content="${data.title}"/>
-    <meta property="og:description" content="${data.description}">
-    <meta property="og:url" content="${data.url}"/>
-    <meta property="og:image" content="${data.previewURL}"/>
-    <meta property="og:locale" content="en_US" />
-    <meta property="og:site_name" content="Distill" />
-  `);
-
-  appendHead(`
-    <!--  https://dev.twitter.com/cards/types/summary -->
-    <meta name="twitter:card" content="summary_large_image">
-    <meta name="twitter:title" content="${data.title}">
-    <meta name="twitter:description" content="${data.description}">
-    <meta name="twitter:url" content="${data.url}">
-    <meta name="twitter:image" content="${data.previewURL}">
-    <meta name="twitter:image:width" content="560">
-    <meta name="twitter:image:height" content="295">
-  `);
-
-  // if this is a proprer article, generate Google Scholar meta data
-  if (data.doiSuffix){
-    appendHead(`
-      <!--  https://scholar.google.com/intl/en/scholar/inclusion.html#indexing -->\n`);
-
-    meta("citation_title", data.title);
-    //meta("citation_fulltext_html_url", data.url);
-    meta("citation_volume", data.volume);
-    meta("citation_issue", data.issue);
-    meta("citation_firstpage", data.doiSuffix? `e${data.doiSuffix}` : undefined);
-    meta("citation_doi", data.doi);
-
-    let journal = data.journal || {};
-    meta("citation_journal_title", journal.full_title || journal.title);
-    meta("citation_journal_abbrev", journal.abbrev_title);
-    meta("citation_issn", journal.issn);
-    meta("citation_publisher", journal.publisher);
-    meta("citation_fulltext_world_readable", "", true);
-
-    if (data.publishedDate){
-      let zeroPad = (n) => { return n < 10 ? "0" + n : n; };
-      meta("citation_online_date", `${data.publishedYear}/${data.publishedMonthPadded}/${data.publishedDayPadded}`);
-      // Should we do something different here?
-      meta("citation_publication_date", `${data.publishedYear}/${data.publishedMonthPadded}/${data.publishedDayPadded}`);
-    }
-
-    (data.authors || []).forEach((a) => {
-        meta("citation_author", `${a.lastName}, ${a.firstName}`);
-        meta("citation_author_institution", a.affiliation);
-    });
-
-    if (data.citations) {
-      data.citations.forEach(key => {
-        let d = data.bibliography[key];
-        if(!d) {
-          console.warn("No bibliography data fround for " + key)
-        } else {
-          meta("citation_reference", citation_meta_content(data.bibliography[key]) )
-        };
-      });
-    }
-  }
-}
-
-function appendHtml(el, html) {
-  el.innerHTML += html;
-}
-
-function citation_meta_content(ref){
-  // Special test for arxiv
-  var content = `citation_title=${ref.title};`;
-
-  let name_strings = ref.author.split(" and ").forEach(name => {
-    name = name.trim();
-    if (name.indexOf(",") != -1){
-      var last = name.split(",")[0].trim();
-      var firsts = name.split(",")[1].trim();
-    } else {
-      var last = name.split(" ").slice(-1)[0].trim();
-      var firsts = name.split(" ").slice(0,-1).join(" ");
-    }
-    content += `citation_author=${firsts} ${last};`;
-  });
-
-  if ("year" in ref) {
-    content += `citation_publication_date=${ref.year};`;
-  }
-
-  var arxiv_id_search = /https?:\/\/arxiv\.org\/pdf\/([0-9]*\.[0-9]*)\.pdf/.exec(ref.url);
-  arxiv_id_search = arxiv_id_search || /https?:\/\/arxiv\.org\/abs\/([0-9]*\.[0-9]*)/.exec(ref.url);
-  arxiv_id_search = arxiv_id_search || /arXiv preprint arXiv:([0-9]*\.[0-9]*)/.exec(ref.journal);
-  if (arxiv_id_search && arxiv_id_search[1]){
-    content += `citation_arxiv_id=${arxiv_id_search[1]};`;
-    return content;
-  }
-  if ("journal" in ref){
-    content += `citation_journal_title=${ref.journal};`;
-  }
-  if ("volume" in ref) {
-      content += `citation_volume=${ref.volume};`;
-  }
-  if ("issue" in ref || "number" in ref){
-      content += `citation_number=${ref.issue || ref.number};`;
-  }
-  /*content += `citation_first_page=${};`;
-  content += `citation_publication_date=${};`;*/
-  return content;
-}

examples/article-no-citations.html

@@ -0,0 +1,188 @@
+<!doctype html>
+
+<head>
+  <meta charset="utf8">
+
+  <script src="../dist/components.js"></script>
+
+  <d-front-matter>
+    <script type="text/yml">
+      title: Demo Title Attention and Augmented Recurrent Neural Networks
+      published: Jan 10, 2017
+      authors:
+      - Chris Olah:
+      - Shan Carter: http://shancarter.com
+      affiliations:
+      - Google Brain
+      - Google Brain: http://g.co/brain
+    </script>
+  </d-front-matter>
+</head>
+
+<body>
+<d-article>
+  <d-title>
+    <h1>Attention and Augmented Recurrent Neural Networks</h1>
+    <!-- <h2>Some people want a deck</h2> -->
+    <d-byline></d-byline>
+  </d-title>
+  <d-abstract>
+    <p>This is the first paragraph of the article. Test a long&thinsp;&mdash;&thinsp;dash -- here it is.</p>
+  </d-abstract>
+  <p>This is the first paragraph of the article. Test a long&thinsp;&mdash;&thinsp;dash -- here it is.</p>
+  <p>Test for owner's possessive. Test for "quoting a passage." And another sentence. Or two. Some flopping fins; for diving.</p>
+  <hr>
+  <div style="max-width: 800px; background-color: red; height: 100px; border-radius: 50px;"></div>
+  <p>Here's a test of an inline equation <d-math>c = a^2 + b^2</d-math>. And then there's a block equation:</p>
+  <d-math block>
+      c = \pm \sqrt{ \sum_{i=0}^{n}{a^{222} + b^2}}
+  </d-math>
+  <table>
+    <thead>
+      <tr><th>First</th><th>Second</th><th>Third</th></tr>
+    </thead>
+    <tbody>
+      <tr><td>23</td><td>654</td><td>23</td></tr>
+      <tr><td>14</td><td>54</td><td>34</td></tr>
+      <tr><td>234</td><td>54</td><td>23</td></tr>
+    </tbody>
+  </table>
+  <h2>Displaying code snippets</h2>
+  <p>Some inline javascript:<d-code language="javascript">var x = 25;</d-code></p>
+  <p>Here's a javascript code block.</p>
+  <d-code block language="javascript">
+      var x = 25;
+      function(x){
+        return x * x;
+      }
+  </d-code>
+  <p>We also support python.</p>
+  <d-code block language="python">
+    # Python 3: Fibonacci series up to n
+    def fib(n):
+      a, b = 0, 1
+        while a < n:
+          print(a, end=' ')
+          a, b = b, a+b
+  </d-code>
+  <p>That's it for the example article!</p>
+  <aside>Some text.</aside>
+</d-article>
+
+<d-appendix>
+  <d-acknowledgements>
+    <h3>Contributions</h3>
+    <p>Some text describing who did what.</p>
+    <h4>Reviewers</h4>
+    <p>Some text with links describing who reviewed the article.</p>
+  </d-acknowledgements>
+
+  <d-footnote-list></d-footnote-list>
+
+  <d-bibliography><script type="text/bibtex">
+
+      @article{gregor2015draw,
+        title={DRAW: A recurrent neural network for image generation},
+        author={Gregor, Karol and Danihelka, Ivo and Graves, Alex and Rezende, Danilo Jimenez and Wierstra, Daan},
+        journal={arXiv preprint arXiv:1502.04623},
+        year={2015},
+        url ={https://arxiv.org/pdf/1502.04623.pdf}
+      }
+      @article{mercier2011humans,
+        title={Why do humans reason? Arguments for an argumentative theory},
+        author={Mercier, Hugo and Sperber, Dan},
+        journal={Behavioral and brain sciences},
+        volume={34},
+        number={02},
+        pages={57--74},
+        year={2011},
+        publisher={Cambridge Univ Press},
+        doi={10.1017/S0140525X10000968}
+      }
+
+      @article{dong2014image,
+        title={Image super-resolution using deep convolutional networks},
+        author={Dong, Chao and Loy, Chen Change and He, Kaiming and Tang, Xiaoou},
+        journal={arXiv preprint arXiv:1501.00092},
+        year={2014},
+        url={https://arxiv.org/pdf/1501.00092.pdf}
+      }
+
+      @article{dumoulin2016adversarially,
+        title={Adversarially Learned Inference},
+        author={Dumoulin, Vincent and Belghazi, Ishmael and Poole, Ben and Lamb, Alex and Arjovsky, Martin and Mastropietro, Olivier and Courville, Aaron},
+        journal={arXiv preprint arXiv:1606.00704},
+        year={2016},
+        url={https://arxiv.org/pdf/1606.00704.pdf}
+      }
+
+      @article{dumoulin2016guide,
+        title={A guide to convolution arithmetic for deep learning},
+        author={Dumoulin, Vincent and Visin, Francesco},
+        journal={arXiv preprint arXiv:1603.07285},
+        year={2016},
+        url={https://arxiv.org/pdf/1603.07285.pdf}
+      }
+
+      @article{gauthier2014conditional,
+        title={Conditional generative adversarial nets for convolutional face generation},
+        author={Gauthier, Jon},
+        journal={Class Project for Stanford CS231N: Convolutional Neural Networks for Visual Recognition, Winter semester},
+        volume={2014},
+        year={2014},
+        url={http://www.foldl.me/uploads/papers/tr-cgans.pdf}
+      }
+
+      @article{johnson2016perceptual,
+        title={Perceptual losses for real-time style transfer and super-resolution},
+        author={Johnson, Justin and Alahi, Alexandre and Fei-Fei, Li},
+        journal={arXiv preprint arXiv:1603.08155},
+        year={2016},
+        url={https://arxiv.org/pdf/1603.08155.pdf}
+      }
+
+      @article{mordvintsev2015inceptionism,
+        title={Inceptionism: Going deeper into neural networks},
+        author={Mordvintsev, Alexander and Olah, Christopher and Tyka, Mike},
+        journal={Google Research Blog},
+        year={2015},
+        url={https://research.googleblog.com/2015/06/inceptionism-going-deeper-into-neural.html}
+      }
+
+      @misc{mordvintsev2016deepdreaming,
+        title={DeepDreaming with TensorFlow},
+        author={Mordvintsev, Alexander},
+        year={2016},
+        url={https://github.com/tensorflow/tensorflow/blob/master/tensorflow/examples/tutorials/deepdream/deepdream.ipynb},
+      }
+
+      @article{radford2015unsupervised,
+        title={Unsupervised representation learning with deep convolutional generative adversarial networks},
+        author={Radford, Alec and Metz, Luke and Chintala, Soumith},
+        journal={arXiv preprint arXiv:1511.06434},
+        year={2015},
+        url={https://arxiv.org/pdf/1511.06434.pdf}
+      }
+
+      @inproceedings{salimans2016improved,
+        title={Improved techniques for training gans},
+        author={Salimans, Tim and Goodfellow, Ian and Zaremba, Wojciech and Cheung, Vicki and Radford, Alec and Chen, Xi},
+        booktitle={Advances in Neural Information Processing Systems},
+        pages={2226--2234},
+        year={2016},
+        url={https://arxiv.org/pdf/1606.03498.pdf}
+      }
+
+      @article{shi2016deconvolution,
+        title={Is the deconvolution layer the same as a convolutional layer?},
+        author={Shi, Wenzhe and Caballero, Jose and Theis, Lucas and Huszar, Ferenc and Aitken, Andrew and Ledig, Christian and Wang, Zehan},
+        journal={arXiv preprint arXiv:1609.07009},
+        year={2016},
+        url={https://arxiv.org/pdf/1609.07009.pdf}
+      }
+
+    </script></d-bibliography>
+
+  <distill-appendix> </distill-appendix>
+</d-appendix>
+</body>

examples/article-test.html

@@ -0,0 +1,232 @@
+<!DOCTYPE html><html lang="en"><head>
+  <meta charset="utf8">
+
+  <script id="polyfills">
+  if ('registerElement' in document &&
+      'import' in document.createElement('link') &&
+      'content' in document.createElement('template')) {
+    // Platform supports webcomponents natively! :-)
+  } else {
+    // Platform does not support webcomponents--loading polyfills synchronously.
+    const scriptTag = document.createElement('script');
+    scriptTag.src = '../dist/webcomponents-lite.js';
+    scriptTag.async = false;
+    document.currentScript.parentNode.insertBefore(scriptTag, document.currentScript.nextSibling);
+  }
+</script><script src="../dist/components.js"></script>
+
+  <meta name="viewport" content="width=device-width, initial-scale=1">
+    <meta http-equiv="X-UA-Compatible" content="IE=Edge,chrome=1">
+    <link rel="icon" type="image/png" href="data:image/png;base64,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
+">
+    <link href="/rss.xml" rel="alternate" type="application/rss+xml" title="Articles from Distill">
+    <link rel="canonical" href="undefined">
+    <title>Demo Title Attention and Augmented Recurrent Neural Networks</title>
+  
+    <!--  https://schema.org/Article -->
+    <meta property="article:published" itemprop="datePublished" content="undefined-undefined-undefined">
+    <meta property="article:modified" itemprop="dateModified" content="undefined">
+  
+      <meta property="article:author" content="undefined undefined">
+      <meta property="article:author" content="undefined undefined">
+    <!--  https://developers.facebook.com/docs/sharing/webmasters#markup -->
+    <meta property="og:type" content="article">
+    <meta property="og:title" content="Demo Title Attention and Augmented Recurrent Neural Networks">
+    <meta property="og:description" content="undefined">
+    <meta property="og:url" content="undefined">
+    <meta property="og:image" content="undefined/thumbnail.jpg">
+    <meta property="og:locale" content="en_US">
+    <meta property="og:site_name" content="Distill">
+  
+    <!--  https://dev.twitter.com/cards/types/summary -->
+    <meta name="twitter:card" content="summary_large_image">
+    <meta name="twitter:title" content="Demo Title Attention and Augmented Recurrent Neural Networks">
+    <meta name="twitter:description" content="undefined">
+    <meta name="twitter:url" content="undefined">
+    <meta name="twitter:image" content="undefined/thumbnail.jpg">
+    <meta name="twitter:image:width" content="560">
+    <meta name="twitter:image:height" content="295">
+  </head><body><distill-header></distill-header><d-front-matter>
+    <script type="text/yml">
+      title: Demo Title Attention and Augmented Recurrent Neural Networks
+      published: Jan 10, 2017
+      authors:
+      - Chris Olah:
+      - Shan Carter: http://shancarter.com
+      affiliations:
+      - Google Brain:
+      - Google Brain: http://g.co/brain
+    </script>
+  </d-front-matter>
+
+
+
+<d-article>
+  <d-title>
+    <h1>Attention and Augmented Recurrent Neural Networks</h1>
+    <!-- <h2>Some people want a deck</h2> -->
+    <d-byline></d-byline>
+  </d-title>
+
+  <d-abstract>
+    <p>This is the first paragraph of the article. Test a long — dash — here it is.</p>
+  </d-abstract>
+  <p>This is the first paragraph of the article. Test a long — dash — here it is.</p>
+  <p>Test for owner’s possessive. Test for “quoting a passage.” And another sentence. Or two. Some flopping fins; for diving.</p>
+  <p>Here’s a test of an inline equation <d-math>c = a^2 + b^2</d-math>. And then there’s a block equation:</p>
+  <d-math block="">
+      c = \pm \sqrt{ \sum_{i=0}^{n}{a^{222} + b^2}}
+  </d-math>
+  <p>We can<d-cite key="mercier2011humans"></d-cite> also cite <d-cite key="gregor2015draw,mercier2011humans"></d-cite> external publications. <d-cite key="dong2014image,dumoulin2016guide,mordvintsev2015inceptionism"></d-cite></p>
+  <p>We should also be testing footnotes<d-footnote>This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote.</d-footnote>. There are multiple footnotes, and they appear in the appendix<d-footnote>Given I have coded them right. Also, here’s math in a footnote: <d-math>c = \sum_0^i{x}</d-math>. Also, a citation. Box-ception<d-cite key="gregor2015draw"></d-cite>!</d-footnote> as well.</p>
+  <table>
+    <thead>
+      <tr><th>First</th><th>Second</th><th>Third</th></tr>
+    </thead>
+    <tbody>
+      <tr><td>23</td><td>654</td><td>23</td></tr>
+      <tr><td>14</td><td>54</td><td>34</td></tr>
+      <tr><td>234</td><td>54</td><td>23</td></tr>
+    </tbody>
+  </table>
+  <h2>Displaying code snippets</h2>
+  <p>Some inline javascript:<d-code language="javascript">var x = 25;</d-code></p>
+  <p>Here’s a javascript code block.</p>
+  <d-code block="" language="javascript">
+      var x = 25;
+      function(x){
+        return x * x;
+      }
+  </d-code>
+  <p>We also support python.</p>
+  <d-code block="" language="python">
+    # Python 3: Fibonacci series up to n
+    def fib(n):
+      a, b = 0, 1
+        while a &lt; n:
+          print(a, end=' ')
+          a, b = b, a+b
+  </d-code>
+  <p>That’s it for the example article!</p>
+</d-article>
+
+<d-appendix>
+  <d-acknowledgements>
+    <h3>Contributions</h3>
+    <p>Some text describing who did what.</p>
+    <h4>Reviewers</h4>
+    <p>Some text with links describing who reviewed the article.</p>
+  </d-acknowledgements>
+
+  <d-footnote-list></d-footnote-list>
+
+  <d-bibliography>
+    <script type="text/bibtex">
+
+      @article{gregor2015draw,
+        title={DRAW: A recurrent neural network for image generation},
+        author={Gregor, Karol and Danihelka, Ivo and Graves, Alex and Rezende, Danilo Jimenez and Wierstra, Daan},
+        journal={arXiv preprint arXiv:1502.04623},
+        year={2015},
+        url ={https://arxiv.org/pdf/1502.04623.pdf}
+      }
+      @article{mercier2011humans,
+        title={Why do humans reason? Arguments for an argumentative theory},
+        author={Mercier, Hugo and Sperber, Dan},
+        journal={Behavioral and brain sciences},
+        volume={34},
+        number={02},
+        pages={57--74},
+        year={2011},
+        publisher={Cambridge Univ Press},
+        doi={10.1017/S0140525X10000968}
+      }
+
+      @article{dong2014image,
+        title={Image super-resolution using deep convolutional networks},
+        author={Dong, Chao and Loy, Chen Change and He, Kaiming and Tang, Xiaoou},
+        journal={arXiv preprint arXiv:1501.00092},
+        year={2014},
+        url={https://arxiv.org/pdf/1501.00092.pdf}
+      }
+
+      @article{dumoulin2016adversarially,
+        title={Adversarially Learned Inference},
+        author={Dumoulin, Vincent and Belghazi, Ishmael and Poole, Ben and Lamb, Alex and Arjovsky, Martin and Mastropietro, Olivier and Courville, Aaron},
+        journal={arXiv preprint arXiv:1606.00704},
+        year={2016},
+        url={https://arxiv.org/pdf/1606.00704.pdf}
+      }
+
+      @article{dumoulin2016guide,
+        title={A guide to convolution arithmetic for deep learning},
+        author={Dumoulin, Vincent and Visin, Francesco},
+        journal={arXiv preprint arXiv:1603.07285},
+        year={2016},
+        url={https://arxiv.org/pdf/1603.07285.pdf}
+      }
+
+      @article{gauthier2014conditional,
+        title={Conditional generative adversarial nets for convolutional face generation},
+        author={Gauthier, Jon},
+        journal={Class Project for Stanford CS231N: Convolutional Neural Networks for Visual Recognition, Winter semester},
+        volume={2014},
+        year={2014},
+        url={http://www.foldl.me/uploads/papers/tr-cgans.pdf}
+      }
+
+      @article{johnson2016perceptual,
+        title={Perceptual losses for real-time style transfer and super-resolution},
+        author={Johnson, Justin and Alahi, Alexandre and Fei-Fei, Li},
+        journal={arXiv preprint arXiv:1603.08155},
+        year={2016},
+        url={https://arxiv.org/pdf/1603.08155.pdf}
+      }
+
+      @article{mordvintsev2015inceptionism,
+        title={Inceptionism: Going deeper into neural networks},
+        author={Mordvintsev, Alexander and Olah, Christopher and Tyka, Mike},
+        journal={Google Research Blog},
+        year={2015},
+        url={https://research.googleblog.com/2015/06/inceptionism-going-deeper-into-neural.html}
+      }
+
+      @misc{mordvintsev2016deepdreaming,
+        title={DeepDreaming with TensorFlow},
+        author={Mordvintsev, Alexander},
+        year={2016},
+        url={https://github.com/tensorflow/tensorflow/blob/master/tensorflow/examples/tutorials/deepdream/deepdream.ipynb},
+      }
+
+      @article{radford2015unsupervised,
+        title={Unsupervised representation learning with deep convolutional generative adversarial networks},
+        author={Radford, Alec and Metz, Luke and Chintala, Soumith},
+        journal={arXiv preprint arXiv:1511.06434},
+        year={2015},
+        url={https://arxiv.org/pdf/1511.06434.pdf}
+      }
+
+      @inproceedings{salimans2016improved,
+        title={Improved techniques for training gans},
+        author={Salimans, Tim and Goodfellow, Ian and Zaremba, Wojciech and Cheung, Vicki and Radford, Alec and Chen, Xi},
+        booktitle={Advances in Neural Information Processing Systems},
+        pages={2226--2234},
+        year={2016},
+        url={https://arxiv.org/pdf/1606.03498.pdf}
+      }
+
+      @article{shi2016deconvolution,
+        title={Is the deconvolution layer the same as a convolutional layer?},
+        author={Shi, Wenzhe and Caballero, Jose and Theis, Lucas and Huszar, Ferenc and Aitken, Andrew and Ledig, Christian and Wang, Zehan},
+        journal={arXiv preprint arXiv:1609.07009},
+        year={2016},
+        url={https://arxiv.org/pdf/1609.07009.pdf}
+      }
+
+    </script>
+  </d-bibliography>
+
+  <distill-appendix> </distill-appendix>
+</d-appendix>
+
+<distill-footer></distill-footer></body></html>

examples/article.html

@@ -1,30 +1,52 @@
 <!doctype html>
-<meta charset="utf8">
-<script src="../dist/template.js"></script>
 
-<link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.7.1/katex.min.css" integrity="sha384-wITovz90syo1dJWVh32uuETPVEtGigN07tkttEqPv+uR2SE/mbQcG7ATL28aI9H0" crossorigin="anonymous">
+<head>
+  <meta charset="utf8">
+  <script src="../dist/template.v2.js"></script>
 
-<script type="text/front-matter">
-  title: Article Title
-  published: Jan 10, 2017
-  authors:
-  - Chris Olah:
-  - Shan Carter: http://shancarter.com
-  affiliations:
-  - Google Brain:
-  - Google Brain: http://g.co/brain
-</script>
+  <d-front-matter>
+    <script type="text/yml">
+      title: Demo Title Attention and Augmented Recurrent Neural Networks
+      published: Jan 10, 2017
+      authors:
+      - Chris Olah:
+      - Shan Carter: http://shancarter.com
+      affiliations:
+      - Google Brain
+      - Google Brain: http://g.co/brain
+    </script>
+  </d-front-matter>
+</head>
 
-<dt-article>
-  <script type="text/article"></script>
-  <h1>Hello World</h1>
-  <h2>A description of the article</h2>
-  <dt-byline></dt-byline>
+<body>
+<d-article>
+  <d-title>
+    <h1>Attention and Augmented Recurrent Neural Networks</h1>
+    <h2>Some people want a deck</h2>
+    <d-byline></d-byline>
+  </d-title>
+  <d-abstract>
+    <p>This is the first paragraph of the article. Test a long&thinsp;&mdash;&thinsp;dash -- here it is.</p>
+  </d-abstract>
   <p>This is the first paragraph of the article. Test a long&thinsp;&mdash;&thinsp;dash -- here it is.</p>
-  <p>Test for owner's possessive. Test for "quoting a passage." And another sentence. Or two.</p>
-  <p>Here's a test of an inline equation <dt-math>c = a^2 + b^2</dt-math>.</p>
-  <dt-math block>c = \pm\sqrt{a^2 + b^2}</dt-math>
-  <p>We can also cite <dt-cite key="gregor2015draw,mercier2011humans"></dt-cite> external publications. <dt-cite key="dong2014image,dumoulin2016guide,mordvintsev2015inceptionism"></dt-cite> We should also be testing footnotes<dt-fn>This will become a hoverable footnote.</dt-fn>.</p>
+  <p>Test for owner's possessive. Test for "quoting a passage." And another sentence. Or two. Some flopping fins; for diving.</p>
+  <hr>
+  <div style="max-width: 800px; background-color: red; height: 100px; border-radius: 50px;"></div>
+  <p>Here's a test of an inline equation <d-math>c = a^2 + b^2</d-math>. And then there's a block equation:</p>
+  <d-math block>
+      c = \pm \sqrt{ \sum_{i=0}^{n}{a^{222} + b^2}}
+  </d-math>
+  <p>
+    Math can also be quite involved:
+    <d-math block>
+      f(x) = \int_{-\infty}^\infty\hat f(\xi)\,e^{2 \pi i \xi x}\,d\xi
+    </d-math>
+    <d-math block>
+      \frac{1}{\Bigl(\sqrt{\phi \sqrt{5}}-\phi\Bigr) e^{\frac25 \pi}} = 1+\frac{e^{-2\pi}} {1+\frac{e^{-4\pi}} {1+\frac{e^{-6\pi}} {1+\frac{e^{-8\pi}} {1+\cdots} } } }
+    </d-math>
+  </p>
+  <p>We can<d-cite key="mercier2011humans"></d-cite> also cite <d-cite key="gregor2015draw,mercier2011humans"></d-cite> external publications. <d-cite key="dong2014image,dumoulin2016guide,mordvintsev2015inceptionism"></d-cite></p>
+  <p>We should also be testing footnotes<d-footnote>This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote. This will become a hoverable footnote.</d-footnote>. There are multiple footnotes, and they appear in the appendix<d-footnote>Given I have coded them right. Also, here's math in a footnote: <d-math>c = \sum_0^i{x}</d-math>. Also, a citation. Box-ception<d-cite key='gregor2015draw'></d-cite>!</d-footnote> as well.</p>
   <table>
     <thead>
       <tr><th>First</th><th>Second</th><th>Third</th></tr>
@@ -35,153 +57,164 @@
       <tr><td>234</td><td>54</td><td>23</td></tr>
     </tbody>
   </table>
+  <h2>Displaying code snippets</h2>
+  <p>Some inline javascript:<d-code language="javascript">var x = 25;</d-code></p>
   <p>Here's a javascript code block.</p>
-  <dt-code block language="javascript">
-    var x = 25;
-    function(x){
-      return x * x;
-    }
-  </dt-code>
+  <d-code block language="javascript">
+      var x = 25;
+      function(x){
+        return x * x;
+      }
+  </d-code>
   <p>We also support python.</p>
-  <dt-code block language="python">
+  <d-code block language="python">
     # Python 3: Fibonacci series up to n
-      def fib(n):
-        a, b = 0, 1
-          while a < n:
-            print(a, end=' ')
-            a, b = b, a+b
-  </dt-code>
-</dt-article>
+    def fib(n):
+      a, b = 0, 1
+        while a < n:
+          print(a, end=' ')
+          a, b = b, a+b
+  </d-code>
+  <d-figure id="last-figure"></d-figure>
+  <script>
+    const figure = document.querySelector("d-figure#last-figure");
+    const initTag = document.createElement("span");
+    initTag.textContent = "initialized!"
+    figure.appendChild(initTag);
+    figure.addEventListener("ready", function() {
+      const initTag = figure.querySelector("span");
+      initTag.textContent = "ready"
+      console.log('ready')
+    });
+    figure.addEventListener("onscreen", function() {
+      const initTag = figure.querySelector("span");
+      initTag.textContent = "onscreen"
+      console.log('onscreen')
+    });
+    figure.addEventListener("offscreen", function() {
+      const initTag = figure.querySelector("span");
+      initTag.textContent = "offscreen!"
+      console.log('offscreen')
+    });
+  </script>
+  <p>That's it for the example article!</p>
+  <aside>Some text.</aside>
+</d-article>
 
-<script type="text/bibliography">
-  @article{gregor2015draw,
-    title={DRAW: A recurrent neural network for image generation},
-    author={Gregor, Karol and Danihelka, Ivo and Graves, Alex and Rezende, Danilo Jimenez and Wierstra, Daan},
-    journal={arXiv preprint arXiv:1502.04623},
-    year={2015},
-    url ={https://arxiv.org/pdf/1502.04623.pdf}
-  }
-  @article{mercier2011humans,
-    title={Why do humans reason? Arguments for an argumentative theory},
-    author={Mercier, Hugo and Sperber, Dan},
-    journal={Behavioral and brain sciences},
-    volume={34},
-    number={02},
-    pages={57--74},
-    year={2011},
-    publisher={Cambridge Univ Press},
-    doi={10.1017/S0140525X10000968}
-  }
+<d-appendix>
+  <d-acknowledgements>
+    <h3>Contributions</h3>
+    <p>Some text describing who did what.</p>
+    <h4>Reviewers</h4>
+    <p>Some text with links describing who reviewed the article.</p>
+  </d-acknowledgements>
 
-  @article{dong2014image,
-    title={Image super-resolution using deep convolutional networks},
-    author={Dong, Chao and Loy, Chen Change and He, Kaiming and Tang, Xiaoou},
-    journal={arXiv preprint arXiv:1501.00092},
-    year={2014},
-    url={https://arxiv.org/pdf/1501.00092.pdf}
-  }
+  <d-footnote-list></d-footnote-list>
 
-  @article{dumoulin2016adversarially,
-    title={Adversarially Learned Inference},
-    author={Dumoulin, Vincent and Belghazi, Ishmael and Poole, Ben and Lamb, Alex and Arjovsky, Martin and Mastropietro, Olivier and Courville, Aaron},
-    journal={arXiv preprint arXiv:1606.00704},
-    year={2016},
-    url={https://arxiv.org/pdf/1606.00704.pdf}
-  }
+  <d-bibliography><script type="text/bibtex">
 
-  @article{dumoulin2016guide,
-    title={A guide to convolution arithmetic for deep learning},
-    author={Dumoulin, Vincent and Visin, Francesco},
-    journal={arXiv preprint arXiv:1603.07285},
-    year={2016},
-    url={https://arxiv.org/pdf/1603.07285.pdf}
-  }
+      @article{gregor2015draw,
+        title={DRAW: A recurrent neural network for image generation},
+        author={Gregor, Karol and Danihelka, Ivo and Graves, Alex and Rezende, Danilo Jimenez and Wierstra, Daan},
+        journal={arXiv preprint arXiv:1502.04623},
+        year={2015},
+        url ={https://arxiv.org/pdf/1502.04623.pdf}
+      }
+      @article{mercier2011humans,
+        title={Why do humans reason? Arguments for an argumentative theory},
+        author={Mercier, Hugo and Sperber, Dan},
+        journal={Behavioral and brain sciences},
+        volume={34},
+        number={02},
+        pages={57--74},
+        year={2011},
+        publisher={Cambridge Univ Press},
+        doi={10.1017/S0140525X10000968}
+      }
 
-  @article{donahue2016adversarial,
-    title={Adversarial Feature Learning},
-    author={Donahue, Jeff and Kr{\"a}henb{\"u}hl, Philipp and Darrell, Trevor},
-    journal={arXiv preprint arXiv:1605.09782},
-    year={2016},
-    url={https://arxiv.org/pdf/1605.09782.pdf}
-  }
+      @article{dong2014image,
+        title={Image super-resolution using deep convolutional networks},
+        author={Dong, Chao and Loy, Chen Change and He, Kaiming and Tang, Xiaoou},
+        journal={arXiv preprint arXiv:1501.00092},
+        year={2014},
+        url={https://arxiv.org/pdf/1501.00092.pdf}
+      }
 
-  @article{gauthier2014conditional,
-    title={Conditional generative adversarial nets for convolutional face generation},
-    author={Gauthier, Jon},
-    journal={Class Project for Stanford CS231N: Convolutional Neural Networks for Visual Recognition, Winter semester},
-    volume={2014},
-    year={2014},
-    url={http://www.foldl.me/uploads/papers/tr-cgans.pdf}
-  }
+      @article{dumoulin2016adversarially,
+        title={Adversarially Learned Inference},
+        author={Dumoulin, Vincent and Belghazi, Ishmael and Poole, Ben and Lamb, Alex and Arjovsky, Martin and Mastropietro, Olivier and Courville, Aaron},
+        journal={arXiv preprint arXiv:1606.00704},
+        year={2016},
+        url={https://arxiv.org/pdf/1606.00704.pdf}
+      }
 
-  @article{henaff2015geodesics,
-    title={Geodesics of learned representations},
-    author={H{\'e}naff, Olivier J and Simoncelli, Eero P},
-    journal={arXiv preprint arXiv:1511.06394},
-    year={2015},
-    url={https://arxiv.org/pdf/1511.06394.pdf}
-  }
+      @article{dumoulin2016guide,
+        title={A guide to convolution arithmetic for deep learning},
+        author={Dumoulin, Vincent and Visin, Francesco},
+        journal={arXiv preprint arXiv:1603.07285},
+        year={2016},
+        url={https://arxiv.org/pdf/1603.07285.pdf}
+      }
 
-  @article{johnson2016perceptual,
-    title={Perceptual losses for real-time style transfer and super-resolution},
-    author={Johnson, Justin and Alahi, Alexandre and Fei-Fei, Li},
-    journal={arXiv preprint arXiv:1603.08155},
-    year={2016},
-    url={https://arxiv.org/pdf/1603.08155.pdf}
-  }
+      @article{gauthier2014conditional,
+        title={Conditional generative adversarial nets for convolutional face generation},
+        author={Gauthier, Jon},
+        journal={Class Project for Stanford CS231N: Convolutional Neural Networks for Visual Recognition, Winter semester},
+        volume={2014},
+        year={2014},
+        url={http://www.foldl.me/uploads/papers/tr-cgans.pdf}
+      }
 
-  @article{mordvintsev2015inceptionism,
-    title={Inceptionism: Going deeper into neural networks},
-    author={Mordvintsev, Alexander and Olah, Christopher and Tyka, Mike},
-    journal={Google Research Blog},
-    year={2015},
-    url={https://research.googleblog.com/2015/06/inceptionism-going-deeper-into-neural.html}
-  }
+      @article{johnson2016perceptual,
+        title={Perceptual losses for real-time style transfer and super-resolution},
+        author={Johnson, Justin and Alahi, Alexandre and Fei-Fei, Li},
+        journal={arXiv preprint arXiv:1603.08155},
+        year={2016},
+        url={https://arxiv.org/pdf/1603.08155.pdf}
+      }
 
-  @misc{mordvintsev2016deepdreaming,
-    title={DeepDreaming with TensorFlow},
-    author={Mordvintsev, Alexander},
-    year={2016},
-    url={https://github.com/tensorflow/tensorflow/blob/master/tensorflow/examples/tutorials/deepdream/deepdream.ipynb},
-  }
+      @article{mordvintsev2015inceptionism,
+        title={Inceptionism: Going deeper into neural networks},
+        author={Mordvintsev, Alexander and Olah, Christopher and Tyka, Mike},
+        journal={Google Research Blog},
+        year={2015},
+        url={https://research.googleblog.com/2015/06/inceptionism-going-deeper-into-neural.html}
+      }
 
-  @article{radford2015unsupervised,
-    title={Unsupervised representation learning with deep convolutional generative adversarial networks},
-    author={Radford, Alec and Metz, Luke and Chintala, Soumith},
-    journal={arXiv preprint arXiv:1511.06434},
-    year={2015},
-    url={https://arxiv.org/pdf/1511.06434.pdf}
-  }
+      @misc{mordvintsev2016deepdreaming,
+        title={DeepDreaming with TensorFlow},
+        author={Mordvintsev, Alexander},
+        year={2016},
+        url={https://github.com/tensorflow/tensorflow/blob/master/tensorflow/examples/tutorials/deepdream/deepdream.ipynb},
+      }
 
-  @inproceedings{salimans2016improved,
-    title={Improved techniques for training gans},
-    author={Salimans, Tim and Goodfellow, Ian and Zaremba, Wojciech and Cheung, Vicki and Radford, Alec and Chen, Xi},
-    booktitle={Advances in Neural Information Processing Systems},
-    pages={2226--2234},
-    year={2016},
-    url={https://arxiv.org/pdf/1606.03498.pdf}
-  }
+      @article{radford2015unsupervised,
+        title={Unsupervised representation learning with deep convolutional generative adversarial networks},
+        author={Radford, Alec and Metz, Luke and Chintala, Soumith},
+        journal={arXiv preprint arXiv:1511.06434},
+        year={2015},
+        url={https://arxiv.org/pdf/1511.06434.pdf}
+      }
 
-  @article{shi2016deconvolution,
-    title={Is the deconvolution layer the same as a convolutional layer?},
-    author={Shi, Wenzhe and Caballero, Jose and Theis, Lucas and Huszar, Ferenc and Aitken, Andrew and Ledig, Christian and Wang, Zehan},
-    journal={arXiv preprint arXiv:1609.07009},
-    year={2016},
-    url={https://arxiv.org/pdf/1609.07009.pdf}
-  }
+      @inproceedings{salimans2016improved,
+        title={Improved techniques for training gans},
+        author={Salimans, Tim and Goodfellow, Ian and Zaremba, Wojciech and Cheung, Vicki and Radford, Alec and Chen, Xi},
+        booktitle={Advances in Neural Information Processing Systems},
+        pages={2226--2234},
+        year={2016},
+        url={https://arxiv.org/pdf/1606.03498.pdf}
+      }
 
-  @inproceedings{shi2016real,
-    title={Real-time single image and video super-resolution using an efficient sub-pixel convolutional neural network},
-    author={Shi, Wenzhe and Caballero, Jose and Husz{\'a}r, Ferenc and Totz, Johannes and Aitken, Andrew P and Bishop, Rob and Rueckert, Daniel and Wang, Zehan},
-    booktitle={Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition},
-    pages={1874--1883},
-    year={2016},
-    url={https://arxiv.org/pdf/1609.05158.pdf},
-    doi={10.1109/cvpr.2016.207}
-  }
+      @article{shi2016deconvolution,
+        title={Is the deconvolution layer the same as a convolutional layer?},
+        author={Shi, Wenzhe and Caballero, Jose and Theis, Lucas and Huszar, Ferenc and Aitken, Andrew and Ledig, Christian and Wang, Zehan},
+        journal={arXiv preprint arXiv:1609.07009},
+        year={2016},
+        url={https://arxiv.org/pdf/1609.07009.pdf}
+      }
 
-</script>
-<dt-appendix>
-  <h3>Contributions</h3>
-  <p>List of who did what</p>
-</dt-appendix>
+    </script></d-bibliography>
+
+  <distill-appendix> </distill-appendix>
+</d-appendix>
+</body>

examples/tutorial.html

@@ -164,7 +164,7 @@
   }
   </script>
   <p>The citation is presented inline like this: <dt-cite key="gregor2015draw"></dt-cite> (a number that displays more information on hover). If you have an appendix, a bibliography is automatically created and populated in it.</p>
-  <p>Distill chose a numerical inline citation style to improve readability of citation dense articles and because many of the benefits of longer citations are obviated by displaying more information on hover. However, we consider it good style to mention author last names if you discuss something at length and it fits into the flow well -- the authors are human and it's nice for them to have the community associate them with their work.</p>
+  <p>Distill chose a numerical inline citation style to improve readability of citation dense articles and because many of the benefits of longer citations are obviated by dispalying more information on hover. However, we consider it good style to mention author last names if you discuss something at length and it fits into the flow well -- the authors are human and it's nice for them to have the community associate them with their work.</p>
 
 
   <hr>

index.js

@@ -1,81 +0,0 @@
-import html from "./components/html";
-import styles from "./components/styles";
-import frontMatter from "./components/front-matter";
-import bibliography from "./components/bibliography";
-import expandData from "./components/data";
-import meta from "./components/meta";
-import banner from "./components/banner";
-import byline from "./components/byline";
-import appendix from "./components/appendix";
-import appendixDistill from "./components/appendix-distill";
-import citation from "./components/citation";
-import footnote from "./components/footnote";
-import DTMath from "./components/dt-math";
-import markdown from "./components/markdown";
-import code from "./components/code";
-import typeset from "./components/typeset";
-import hoverBox from "./components/hover-box-include";
-import generateCrossref from "./components/generate-crossref";
-import header from "./components/header";
-import footer from "./components/footer";
-
-function renderImmediately(dom) {
-  html(dom);
-  styles(dom);
-}
-
-function renderOnLoad(dom, data) {
-  frontMatter(dom, data);
-  bibliography(dom, data);
-  expandData(dom, data);
-  meta(dom, data);
-  byline(dom, data);
-  appendix(dom, data);
-  markdown(dom, data);
-  DTMath(dom, data);
-  code(dom, data);
-  citation(dom, data);
-  footnote(dom, data);
-  typeset(dom, data);
-  hoverBox(dom, data);
-}
-
-// If we are in a browser, render automatically...
-var browser = new Function("try { return this === window; }catch(e){ return false; }");
-if (browser) {
-  try {
-    var data = {};
-    renderImmediately(window.document);
-    window.document.addEventListener("DOMContentLoaded", function (event) {
-      renderOnLoad(window.document, data);
-      // Add a banner if we're not on localhost.
-      if (window.location.hostname !== "localhost" && window.location.origin !== "file://") {
-        banner(window.document, data);
-      }
-      generateCrossref(data);
-      // console.log(data);
-    });
-  } catch (error) {
-    console.error("Window not defined");
-  }
-}
-
-// If we are in node...
-function render(dom, data) {
-  renderImmediately(dom);
-  renderOnLoad(dom, data);
-  // Remove script tag so it doesn't run again in the client
-  let s = dom.querySelector('script[src*="distill.pub/template"]');
-  if (s) { s.parentElement.removeChild(s); };
-}
-
-// Distill specific rendering
-function distillify(dom, data) {
-  header(dom, data);
-  appendixDistill(dom, data);
-  footer(dom, data);
-}
-
-export {render as render};
-export {distillify as distillify};
-export {generateCrossref as generateCrossref};

package.json

@@ -1,41 +1,53 @@
 {
   "name": "distill-template",
-  "version": "1.1.1",
+  "version": "2.0.0-alpha",
   "description": "Template for creating Distill articles.",
   "main": "dist/template.js",
-  "scripts": {
-    "serve": "python3 -m http.server",
-    "start": "rollup -c -w",
-    "build": "rollup -c",
-    "test": "mocha"
-  },
   "author": "Shan Carter",
+  "homepage": "https://github.com/distillpub/distill-template#readme",
+  "bugs": {
+    "url": "https://github.com/distillpub/distill-template/issues"
+  },
+  "scripts": {
+    "start": "rollup -c rollup.config.dev.js -w",
+    "serve": "python3 -m http.server --bind 127.0.0.1",
+    "test": "mocha",
+    "lint": "eslint",
+    "build": "rollup -c rollup.config.js"
+  },
   "repository": {
     "url": "git+https://github.com/distillpub/distill-template.git",
     "type": "git"
   },
-  "bugs": {
-    "url": "https://github.com/distillpub/distill-template/issues"
-  },
-  "homepage": "https://github.com/distillpub/distill-template#readme",
-  "dependencies": {
+  "devDependencies": {
     "bibtex-parse-js": "^0.0.23",
     "chai": "^3.5.0",
     "commander": "^2.9.0",
-    "d3-time-format": "^2.0.3",
-    "escape-html": "^1.0.3",
+    "eslint": "^4.3.0",
+    "eslint-config-google": "^0.9.1",
     "js-yaml": "^3.7.0",
     "jsdom": "^9.10.0",
-    "katex": "^0.7.1",
     "marked": "^0.3.6",
     "mocha": "^3.2.0",
-    "mustache": "^2.3.0",
     "prismjs": "^1.6.0",
-    "rollup": "^0.36.4",
-    "rollup-plugin-buble": "^0.14.0",
+    "rollup": "latest",
+    "rollup-plugin-babili": "^3.1.0",
     "rollup-plugin-commonjs": "^7.0.0",
+    "rollup-plugin-copy": "^0.2.3",
+    "rollup-plugin-gzip": "^1.2.0",
     "rollup-plugin-node-resolve": "^2.0.0",
+    "rollup-plugin-serve": "^0.1.0",
     "rollup-plugin-string": "^2.0.2",
-    "rollup-watch": "^2.5.0"
+    "rollup-plugin-uglify": "^1.0.1",
+    "rollup-watch": "^2.5.0",
+    "webpack": "^2.2.1"
+  },
+  "dependencies": {
+    "@webcomponents/webcomponentsjs": "^1.0.7",
+    "assert": "^1.4.1",
+    "d3-time-format": "^2.0.3",
+    "intersection-observer": "^0.4.0",
+    "jsdom-wc": "^11.0.0-alpha-1",
+    "katex": "^0.7.1"
   }
 }

rollup.config.dev.js

@@ -0,0 +1,35 @@
+import resolve  from 'rollup-plugin-node-resolve';
+import string   from 'rollup-plugin-string';
+import commonjs from 'rollup-plugin-commonjs';
+
+const componentsConfig = {
+  entry: 'src/components.js',
+  targets: [{format: 'umd', moduleName: 'dl', dest: 'dist/template.v2.js'}],
+};
+
+const transformsConfig = {
+  entry: 'src/transforms.js',
+  targets: [{format: 'umd', moduleName: 'dl', dest: 'dist/transforms.v2.js'}],
+};
+
+const defaultConfig = {
+  sourceMap: true,
+  plugins: [
+    resolve({
+      jsnext: true,
+      browser: true,
+    }),
+    string({
+      include: ['**/*.txt', '**/*.svg', '**/*.html', '**/*.css', '**/*.base64']
+    }),
+    commonjs(),
+  ]
+};
+
+Object.assign(componentsConfig, defaultConfig);
+Object.assign(transformsConfig, defaultConfig);
+
+export default [
+  componentsConfig,
+  transformsConfig,
+];

rollup.config.js

@@ -1,36 +1,14 @@
-import buble from 'rollup-plugin-buble';
-import resolve from 'rollup-plugin-node-resolve';
-import commonjs from 'rollup-plugin-commonjs';
-import string from 'rollup-plugin-string';
+import configs from './rollup.config.dev';
+import babili  from 'rollup-plugin-babili';
 
-// const PORT = 8080;
-// console.log(`open http://localhost:${PORT}/`);
+const [componentsConfig, transformsConfig] = configs;
 
-export default {
-  entry: 'index.js',
+componentsConfig.plugins.push(babili({
+  comments: false, // means: *remove* comments
   sourceMap: true,
-  targets: [
-    {
-      format: 'umd',
-      moduleName: 'dl',
-      dest: `dist/template.v1.js`,
-    }
-  ],
-  plugins: [
-    resolve({
-      jsnext: true,
-      browser: true,
-    }),
-    string({
-      include: ["**/*.txt", "**/*.svg", "**/*.html", "**/*.css", "**/*.base64"]
-    }),
-    buble({
-      exclude: 'node_modules',
-      target: { chrome: 52, safari: 8, edge: 13, firefox: 48, }
-    }),
-    commonjs(),
-    // uglify(),
-    // liveReload(),
-    // serve({port: PORT}),
-  ]
-};
+}));
+
+export default [
+  componentsConfig,
+  transformsConfig,
+];

scaffolds/gulp/README.md

@@ -1,7 +0,0 @@
-# Gulp with Mustache Templates
-
-To get started, make sure to run `yarn install` or `npm install` to install dependencies.
-
-Run `gulp` to build the project. Running `gulp serve` will run a watching server.
-
-There is very little processing going on, the only thing we've added is support for mustache partials.

src/components.js

@@ -0,0 +1,44 @@
+/* Static styles and other modules */
+import './styles/styles';
+
+/* Components */
+import { Abstract }         from './components/d-abstract';
+import { Acknowledgements } from './components/d-acknowledgements';
+import { Appendix }         from './components/d-appendix';
+import { Article }          from './components/d-article';
+import { Bibliography }     from './components/d-bibliography';
+import { Byline }           from './components/d-byline';
+import { Cite }             from './components/d-cite';
+import { Code }             from './components/d-code';
+import { Footnote }         from './components/d-footnote';
+import { FootnoteList }     from './components/d-footnote-list';
+import { FrontMatter }      from './components/d-front-matter';
+import { DMath }            from './components/d-math';
+import { References }       from './components/d-references';
+import { Title }            from './components/d-title';
+import { TOC }              from './components/d-toc';
+import { Figure }           from './components/d-figure';
+
+const components = [
+  Abstract, Acknowledgements, Appendix, Article, Bibliography,
+  Byline, Cite, Code, Footnote, FootnoteList, FrontMatter, DMath,
+  References, Title, TOC, Figure,
+];
+
+/* Distill website specific components */
+import { DistillHeader } from './distill-components/distill-header';
+import { DistillAppendix } from './distill-components/distill-appendix';
+import { DistillFooter } from './distill-components/distill-footer';
+
+const distillComponents = [
+  DistillHeader, DistillAppendix, DistillFooter,
+];
+
+function defineComponents() {
+  const allComponents = components.concat(distillComponents);
+  for (const component of allComponents) {
+    customElements.define(component.is, component);
+  }
+}
+
+defineComponents();

src/components/d-abstract.js

@@ -0,0 +1,20 @@
+import { Template } from '../mixins/template';
+import { body } from '../helpers/layout';
+
+const T = Template('d-abstract', `
+<style>
+  :host {
+    display: block;
+    font-size: 23px;
+    line-height: 1.7em;
+    margin-bottom: 140px;
+  }
+  ${body('d-abstract')}
+</style>
+
+<slot></slot>
+`);
+
+export class Abstract extends T(HTMLElement) {
+
+}

src/components/d-acknowledgements.js

@@ -0,0 +1,23 @@
+import { Template } from '../mixins/template';
+
+const T = Template('d-acknowledgements', `
+<style>
+::slotted(h3) {
+  font-size: 15px;
+  font-weight: 500;
+  margin-top: 20px;
+  margin-bottom: 0;
+  color: rgba(0,0,0,0.65);
+  line-height: 1em;
+}
+::slotted(*) a {
+  color: rgba(0, 0, 0, 0.6);
+}
+</style>
+
+<slot></slot>
+`);
+
+export class Acknowledgements extends T(HTMLElement) {
+
+}

src/components/d-appendix.js

@@ -0,0 +1,33 @@
+import { Template } from '../mixins/template';
+import { body } from '../helpers/layout';
+
+const T = Template('d-appendix', `
+<style>
+
+:host {
+  box-sizing: border-box;
+  display: block;
+  width: 100%;
+
+  font-size: 13px;
+  line-height: 1.7em;
+  margin-bottom: 0;
+  border-top: 1px solid rgba(0,0,0,0.1);
+  color: rgba(0,0,0,0.5);
+  background: hsl(180, 5%, 98%);
+  padding-top: 36px;
+  padding-bottom: 48px;
+}
+
+${body('.content')}
+
+</style>
+
+<div class='content'>
+<slot></slot>
+</div>
+`, true);
+
+export class Appendix extends T(HTMLElement) {
+
+}

src/components/d-article.js

@@ -0,0 +1,56 @@
+import { Template } from '../mixins/template';
+import { Controller } from '../controller';
+
+const T = Template('d-article', `
+<style></style>
+`, false);
+
+// export function addInferableTags(dom, frontMatter) {
+//   const title = frontMatter.title;
+//   if (title) {
+//     const titleTag = document.querySelector()
+//
+//   }
+// }
+
+const isOnlyWhitespace = /^\s*$/;
+
+export class Article extends T(HTMLElement) {
+
+  constructor() {
+    super();
+
+    new MutationObserver( (mutations) => {
+      for (const mutation of mutations) {
+        for (const addedNode of mutation.addedNodes) {
+          switch (addedNode.nodeName) {
+          case 'HR':
+            console.warn('Use of <hr> tags in distill articles is discouraged as they interfere with layout! To separate sections, please just use h2 or h3 tags.');
+            break;
+          case '#text': { // usually text nodes are only linebreaks.
+            const text = addedNode.nodeValue;
+            if (!isOnlyWhitespace.test(text)) {
+              console.warn('Use of unwrapped text in distill articles is discouraged as it breaks layout! Please wrap any text in a <span> or <p> tag. We found the following text: ' + text);
+              const wrapper = document.createElement('span');
+              wrapper.innerHTML = addedNode.nodeValue;
+              addedNode.parentNode.insertBefore(wrapper, addedNode);
+              addedNode.parentNode.removeChild(addedNode);
+            }
+          } break;
+          }
+        }
+      }
+    }).observe(this, {childList: true});
+  }
+
+  connectedCallback() {
+    for (const [functionName, callback] of Object.entries(Controller.listeners)) {
+      if (typeof callback === 'function') {
+        document.addEventListener(functionName, callback);
+      } else {
+        console.error('Controller listeners need to be functions!');
+      }
+    }
+  }
+
+}

src/components/d-bibliography.js

@@ -0,0 +1,101 @@
+import { Template } from '../mixins/template';
+import { parseBibtex } from '../helpers/bibtex';
+import { bibliography_cite } from '../helpers/citation';
+
+export const templateString = `
+<style>
+  .references {
+    font-size: 12px;
+    line-height: 20px;
+  }
+  .title {
+    font-weight: 600;
+  }
+  ol {
+    padding: 0 0 0 18px;
+  }
+  li {
+    margin-bottom: 12px;
+  }
+  h3 {
+    font-size: 15px;
+    font-weight: 500;
+    margin-top: 20px;
+    margin-bottom: 0;
+    color: rgba(0,0,0,0.65);
+    line-height: 1em;
+  }
+  a {
+    color: rgba(0, 0, 0, 0.6);
+  }
+</style>
+
+<h3>References</h3>
+<ol class='references' id='references-list' ></ol>
+`;
+const T = Template('d-bibliography', templateString);
+
+export function parseBibliography(element) {
+  if (element.firstElementChild && element.firstElementChild.tagName === 'SCRIPT') {
+    const bibtex = element.firstElementChild.textContent;
+    const bibliography = parseBibtex(bibtex);
+    return bibliography;
+  }
+}
+
+export function renderBibliography(element, entries) {
+  if (entries.size) {
+    element.host.style.display = 'initial';
+    let list = element.querySelector('#references-list');
+    list.innerHTML = '';
+
+    for (const [key, entry] of entries) {
+      const listItem = document.createElement('li');
+      listItem.id = key;
+      listItem.innerHTML = bibliography_cite(entry);
+      list.appendChild(listItem);
+    }
+  } else {
+    element.host.style.display = 'none';
+  }
+}
+
+export class Bibliography extends T(HTMLElement) {
+
+  constructor() {
+    super();
+
+    // set up mutation observer
+    const options = {childList: true, characterData: true, subtree: true};
+    const observer = new MutationObserver( () => {
+      observer.disconnect();
+      this.parseIfPossible();
+      observer.observe(this, options);
+    });
+    this.parseIfPossible();
+    // ...and listen for changes
+    observer.observe(this, options);
+  }
+
+  parseIfPossible() {
+    if (this.firstElementChild && this.firstElementChild.tagName === 'SCRIPT') {
+      const newBibtex = this.firstElementChild.textContent;
+      if (this.bibtex !== newBibtex) {
+        this.bibtex = newBibtex;
+        const bibliography = parseBibtex(this.bibtex);
+        this.notify(bibliography);
+      }
+    }
+  }
+
+  notify(bibliography) {
+    const options = { detail: bibliography, bubbles: true };
+    const event = new CustomEvent('onBibliographyChanged', options);
+    this.dispatchEvent(event);
+  }
+
+  set entries(newEntries) {
+    renderBibliography(this.root, newEntries);
+  }
+
+}

src/components/d-byline.js

@@ -0,0 +1,158 @@
+import { Template } from '../mixins/template';
+import { page } from '../helpers/layout';
+
+const T = Template('d-byline', `
+<style>
+  :host {
+    box-sizing: border-box;
+    font-size: 13px;
+    line-height: 20px;
+    display: block;
+    border-top: 1px solid rgba(0, 0, 0, 0.1);
+    border-bottom: 1px solid rgba(0, 0, 0, 0.1);
+    color: rgba(0, 0, 0, 0.6);
+    padding-top: 20px;
+    padding-bottom: 20px;
+  }
+  ${page('.byline')}
+  d-article.centered {
+    text-align: center;
+  }
+  a,
+  d-article a {
+    color: rgba(0, 0, 0, 0.8);
+    text-decoration: none;
+    border-bottom: none;
+  }
+  d-article a:hover {
+    text-decoration: underline;
+    border-bottom: none;
+  }
+  .authors {
+    text-align: left;
+  }
+  .name {
+    font-weight: 600;
+    display: inline;
+    text-transform: uppercase;
+  }
+  .affiliation {
+    display: inline;
+  }
+  .date {
+    display: block;
+    text-align: left;
+    margin-top: 8px;
+  }
+  .year, .month {
+    display: inline;
+  }
+  .citation {
+    display: block;
+    text-align: left;
+  }
+  .citation div {
+    display: inline;
+  }
+
+  @media screen and (min-width: 768px), print {
+    d-byline {
+      border-bottom: none;
+    }
+
+    a:hover {
+      color: rgba(0, 0, 0, 0.9);
+    }
+
+    .authors {
+      display: inline-block;
+    }
+
+    .author {
+      display: inline-block;
+      margin-right: 12px;
+      /*padding-left: 20px;*/
+      /*border-left: 1px solid #ddd;*/
+    }
+
+    .affiliation {
+      display: block;
+    }
+
+    .author:last-child {
+      margin-right: 0;
+    }
+
+    .name {
+      display: block;
+    }
+
+    .date {
+
+      border-left: 1px solid rgba(0, 0, 0, 0.1);
+      padding-left: 15px;
+      margin-left: 15px;
+      margin-top: 0;
+      display: inline-block;
+    }
+    .year, .month {
+      display: block;
+    }
+
+    .citation {
+      align-self: flex-end;
+      border-left: 1px solid rgba(0, 0, 0, 0.15);
+      padding-left: 15px;
+      margin-left: 15px;
+      display: inline-block;
+    }
+    .citation div {
+      display: block;
+    }
+
+    .byline {
+      display: flex;
+      min-height: 40px;
+    }
+  }
+</style>
+
+<div class='byline'>
+</div>
+`, true);
+
+export function bylineTemplate(frontMatter) {
+  return `
+  <div class="authors">
+    ${frontMatter.authors.map( author => `<div class="author">
+      ${author.personalURL ?
+    `<a class="name" href="${author.personalURL}">${author.name}</a>`
+    :
+    `<div class="name">${author.name}</div>`
+}
+      ${author.affiliationURL ?
+    `<a class="affiliation" href="${author.affiliationURL}">${author.affiliation}</a>`
+    :
+    `<div class="affiliation">${author.affiliation}</div>`
+}
+    </div>`).join('\n')}
+  </div>
+  <div class="date">
+    <div class="month">${frontMatter.publishedMonth}. ${frontMatter.publishedDay}</div>
+    <div class="year">${frontMatter.publishedYear}</div>
+  </div>
+  <a class="citation" href="#citation">
+    <div>Citation:</div>
+    <div>${frontMatter.concatenatedAuthors}, ${frontMatter.publishedYear}</div>
+  </a>
+  `;
+}
+
+export class Byline extends T(HTMLElement) {
+
+  set frontMatter(frontMatter) {
+    const container = this.root.querySelector('.byline');
+    container.innerHTML = bylineTemplate(frontMatter);
+  }
+
+}

src/components/d-cite.js

@@ -0,0 +1,163 @@
+import { Template } from '../mixins/template';
+import { hover_cite } from '../helpers/citation';
+import { HoverBox } from '../helpers/hover-box';
+
+const T = Template('d-cite', `
+<style>
+  .citation {
+    color: hsla(206, 90%, 20%, 0.7);
+  }
+  .citation-number {
+    cursor: default;
+    white-space: nowrap;
+    font-family: -apple-system, BlinkMacSystemFont, "Roboto", Helvetica, sans-serif;
+    font-size: 75%;
+    color: hsla(206, 90%, 20%, 0.7);
+    display: inline-block;
+    line-height: 1.1em;
+    text-align: center;
+    position: relative;
+    top: -2px;
+    margin: 0 2px;
+  }
+  figcaption .citation-number {
+    font-size: 11px;
+    font-weight: normal;
+    top: -2px;
+    line-height: 1em;
+  }
+</style>
+
+<div id="hover-box" class="dt-hover-box">
+</div>
+
+<span id="citation-" class="citation">
+  <slot></slot>
+  <span class="citation-number"></span>
+</span>
+`);
+
+export function collectCitations(dom=document) {
+  const citations = new Set();
+  const citeTags = dom.querySelectorAll('d-cite');
+  for (const tag of citeTags) {
+    const keys = tag.getAttribute('key').split(',');
+    for (const key of keys) {
+      citations.add(key);
+    }
+  }
+  return [...citations];
+}
+
+export class Cite extends T(HTMLElement) {
+
+  /* Lifecycle */
+
+  // constructor() {
+  //   super();
+  //   // Cite.currentId += 1;
+  //   // this.citeId = Cite.currentId;
+  // }
+
+  connectedCallback() {
+    // this.notify();
+
+    this.hoverDiv = this.root.querySelector('.dt-hover-box');
+    this.outerSpan = this.root.querySelector('#citation-');
+    this.innerSpan = this.root.querySelector('.citation-number');
+    // this.outerSpan.id = `citation-${this.citeId}`;
+    // this.hoverDiv.id = `dt-cite-hover-box-${this.citeId}`;
+    // console.log(this, this.hoverDiv, this.outerSpan, this.innerSpan);
+    this.hoverbox = new HoverBox(this.hoverDiv, this.outerSpan);
+
+  }
+
+  disconnectedCallback() {
+    const options = { detail: [this, this.keys], bubbles: true };
+    const event = new CustomEvent('onCiteKeyRemoved', options);
+    document.dispatchEvent(event);
+  }
+
+  /* Observed Attributes */
+
+  // renderCitationNumbers(citations) {
+  //   const numbers = this._keys.map( (key) => {
+  //     const index = citations.indexOf(key);
+  //     return index == -1 ? '?' : index + 1 + '';
+  //   });
+  //   const text = "[" + numbers.join(", ") + "]";
+  //   this.innerSpan.textContent = text;
+  // }
+
+
+
+  /* observe 'key' attribute */
+
+  static get observedAttributes() {
+    return ['key'];
+  }
+
+  attributeChangedCallback(name, oldValue, newValue) {
+    const eventName = oldValue ? 'onCiteKeyChanged' : 'onCiteKeyCreated';
+    const keys = newValue.split(',');
+    const options = { detail: [this, keys], bubbles: true };
+    const event = new CustomEvent(eventName, options);
+    document.dispatchEvent(event);
+  }
+
+  set key(value) {
+    this.setAttribute('key', value);
+  }
+
+  get key() {
+    return this.getAttribute('key');
+  }
+
+  get keys() {
+    return this.getAttribute('key').split(',');
+  }
+
+  /* Setters & Rendering */
+
+  set numbers(numbers) {
+    const numberStrings = numbers.map( index => {
+      return index == -1 ? '?' : index + 1 + '';
+    });
+    const textContent = '[' + numberStrings.join(', ') + ']';
+    const innerSpan = this.root.querySelector('.citation-number');
+    innerSpan.textContent = textContent;
+  }
+
+  set entries(entries) {
+    const div = this.root.querySelector('#hover-box');
+    div.innerHTML = entries.map(hover_cite).join('<br><br>');
+  }
+
+  // renderContent() {
+  //   const bibliography = document.querySelector('d-bibliography');
+  //   if (bibliography && bibliography.finishedLoading) {
+  //     customElements.whenDefined('d-bibliography').then( () => {
+  //       const keys = this.key.split(",");
+  //
+  //       // set up hidden hover box
+  //       const div = this.root.querySelector('.dt-hover-box');
+  //       div.innerHTML = keys.map( (key) => {
+  //         return bibliography.getEntry(key);
+  //       }).map(hover_cite).join('<br><br>');
+  //       div.id ='dt-cite-hover-box-' + this.citeId;
+  //
+  //       // set up visible citation marker
+  //       const outerSpan = this.root.querySelector('#citation-');
+  //       outerSpan.id = `citation-${this.citeId}`;
+  //       // outerSpan.setAttribute('data-hover', dataHoverString); // directly tell HoverBox instead?
+  //       const innerSpan = this.root.querySelector('.citation-number');
+  //       innerSpan.textContent = inline_cite_short(keys, bibliography);
+  //
+  //       HoverBox.get_box(div).bind(outerSpan);
+  //     });
+  //   } else {
+  //     console.error(`You used a d-cite tag (${key}) without including a d-bibliography tag in your article. We can't lookup your citation this way.`)
+  //   }
+  // }
+
+}

src/components/d-code.js

@@ -0,0 +1,74 @@
+import Prism from 'prismjs';
+import 'prismjs/components/prism-python';
+import 'prismjs/components/prism-clike';
+import css from 'prismjs/themes/prism.css';
+
+import { Template } from '../mixins/template.js';
+import { Mutating } from '../mixins/mutating.js';
+
+const T = Template('d-code', `
+<style>
+
+code {
+  white-space: nowrap;
+  background: rgba(0, 0, 0, 0.04);
+  border-radius: 2px;
+  padding: 4px 7px;
+  font-size: 15px;
+  color: rgba(0, 0, 0, 0.6);
+}
+
+pre code {
+  display: block;
+  background: white;
+  border-left: 3px solid rgba(0, 0, 0, 0.05);
+  padding: 0 0 0 24px;
+}
+
+${css}
+</style>
+
+<code id="code-container"></code>
+
+`);
+
+export class Code extends Mutating(T(HTMLElement)) {
+
+  renderContent() {
+
+    // check if language can be highlighted
+    this.languageName = this.getAttribute('language');
+    if (!this.languageName) {
+      console.warn('You need to provide a language attribute to your <d-code> block to let us know how to highlight your code; e.g.:\n <d-code language="python">zeros = np.zeros(shape)</d-code>.');
+      return;
+    }
+    const language = Prism.languages[this.languageName];
+    if (language == undefined) {
+      console.warn(`Distill does not yet support highlighting your code block in "${this.languageName}".`);
+      return;
+    }
+
+    let content = this.textContent;
+    const codeTag = this.shadowRoot.querySelector('#code-container');
+
+    if (this.hasAttribute('block')) {
+      // normalize the tab indents
+      content = content.replace(/\n/, '');
+      const tabs = content.match(/\s*/);
+      content = content.replace(new RegExp('\n' + tabs, 'g'), '\n');
+      content = content.trim();
+      // wrap code block in pre tag if needed
+      if (codeTag.parentNode instanceof ShadowRoot) {
+        const preTag = document.createElement('pre');
+        this.shadowRoot.removeChild(codeTag);
+        preTag.appendChild(codeTag);
+        this.shadowRoot.appendChild(preTag);
+      }
+
+    }
+
+    codeTag.className = `language-${this.languageName}`;
+    codeTag.innerHTML = Prism.highlight(content, language);
+  }
+
+}

src/components/d-figure.js

@@ -0,0 +1,123 @@
+// Figure
+//
+// d-figure provides a state-machine of visibility events:
+//
+//                         scroll out of view
+//                         +----------------+
+//   *do work here*        |                |
+// +----------------+    +-+---------+    +-v---------+
+// | ready          +----> onscreen  |    | offscreen |
+// +----------------+    +---------^-+    +---------+-+
+//                                 |                |
+//                                 +----------------+
+//                                  scroll into view
+//
+
+export class Figure extends HTMLElement {
+
+  static get is() { return 'd-figure'; }
+
+  constructor() {
+    super();
+    this._ready = false;
+    this._onscreen = false;
+    this._offscreen = true;
+  }
+
+  connectedCallback() {
+    Figure.marginObserver.observe(this);
+    Figure.directObserver.observe(this);
+  }
+
+  disconnectedCallback() {
+    Figure.marginObserver.unobserve(this);
+    Figure.directObserver.unobserve(this);
+  }
+
+  // We use two separate observers:
+  // One with an extra 1000px margin to warn if the viewpoint gets close,
+  // And one for the actual on/off screen events
+
+  static get marginObserver() {
+    if (!Figure._marginObserver) {
+      const viewportHeight = window.innerHeight;
+      const margin = Math.floor(2 * viewportHeight);
+      Figure._marginObserver = new IntersectionObserver(
+        Figure.didObserveMarginIntersection, {
+          rootMargin: margin + 'px 0px ' + margin + 'px 0px', threshold: 0.01,
+        });
+    }
+    return Figure._marginObserver;
+  }
+
+  static didObserveMarginIntersection(entries) {
+    for (const entry of entries) {
+      const figure = entry.target;
+      if (entry.isIntersecting && !figure._ready) {
+        figure.ready();
+      }
+    }
+  }
+
+  static get directObserver() {
+    if (!Figure._directObserver) {
+      Figure._directObserver = new IntersectionObserver(
+        Figure.didObserveDirectIntersection, {
+          rootMargin: '0px', threshold: [0, 1.0],
+        }
+      );
+    }
+    return Figure._directObserver;
+  }
+
+  static didObserveDirectIntersection(entries) {
+    for (const entry of entries) {
+      const figure = entry.target;
+      if (entry.isIntersecting) {
+        if (!figure._ready) { figure.ready(); }
+        if (figure._offscreen) { figure.onscreen(); }
+      } else {
+        if (figure._onscreen) { figure.offscreen(); }
+      }
+    }
+  }
+
+  // Notify listeners that registered late, too:
+
+  addEventListener(eventName, callback) {
+    super.addEventListener(eventName, callback);
+    // if we had already dispatched something while presumingly no one was listening, we do so again
+    setTimeout(() => {
+      if (this._ready && eventName === 'ready') {
+        this.ready();
+      }
+      if (this._onscreen && eventName === 'onscreen') {
+        this.onscreen();
+      }
+    }, 1);
+  }
+
+  // Custom Events
+
+  ready() {
+    this._ready = true;
+    Figure.marginObserver.unobserve(this);
+    const event = new CustomEvent('ready');
+    this.dispatchEvent(event);
+  }
+
+  onscreen() {
+    this._onscreen = true;
+    this._offscreen = false;
+    const event = new CustomEvent('onscreen');
+    this.dispatchEvent(event);
+  }
+
+  offscreen() {
+    this._onscreen = false;
+    this._offscreen = true;
+    const event = new CustomEvent('offscreen');
+    this.dispatchEvent(event);
+  }
+
+}

src/components/d-footnote-list.js

@@ -0,0 +1,74 @@
+import { Template } from '../mixins/template';
+
+const T = Template('d-footnote-list', `
+<style>
+ol {
+  padding: 0 0 0 18px;
+}
+li {
+  margin-bottom: 12px;
+}
+h3 {
+  font-size: 15px;
+  font-weight: 500;
+  margin-top: 20px;
+  margin-bottom: 0;
+  color: rgba(0,0,0,0.65);
+  line-height: 1em;
+}
+a {
+  color: rgba(0, 0, 0, 0.6);
+}
+
+a.footnote-backlink {
+  color: rgba(0,0,0,0.3);
+  padding-left: 0.5em;
+}
+
+
+</style>
+
+<h3>Footnotes</h3>
+<ol></ol>
+`);
+
+export class FootnoteList extends T(HTMLElement) {
+
+  connectedCallback() {
+    this.list = this.root.querySelector('ol');
+    // footnotes list is initially hidden
+    this.root.host.style.display = 'none';
+    // look through document and register existing footnotes
+    // Store.subscribeTo('footnotes', (footnote) => {
+    //   this.renderFootnote(footnote);
+    // });
+  }
+
+  // TODO: could optimize this to accept individual footnotes?
+  set footnotes(footnotes) {
+    this.list.innerHTML = '';
+    if (footnotes.length) {
+      // ensure footnote list is visible
+      this.root.host.style.display = 'initial';
+
+      for (const footnote of footnotes) {
+        // construct and append list item to show footnote
+        const listItem = document.createElement('li');
+        listItem.id = footnote.id + '-listing';
+        listItem.innerHTML = footnote.innerHTML;
+
+        const backlink = document.createElement('a');
+        backlink.setAttribute('class', 'footnote-backlink');
+        backlink.textContent = '[↩]';
+        backlink.href = '#' + footnote.id;
+
+        listItem.appendChild(backlink);
+        this.list.appendChild(listItem);
+      }
+    } else {
+      // ensure footnote list is invisible
+      this.shadowRoot.host.style.display = 'none';
+    }
+  }
+
+}

src/components/d-footnote.js

@@ -0,0 +1,63 @@
+import { Template } from '../mixins/template.js';
+import { HoverBox } from '../helpers/hover-box';
+// import { Store } from './store';
+
+const T = Template('d-footnote', `
+<style>
+
+d-math[block] {
+  display: block;
+}
+
+</style>
+
+<div id="hover-box" class="dt-hover-box">
+  <slot id="slot"></slot>
+</div>
+
+<sup><span id="fn-" data-hover-ref="" style="cursor:pointer"></span></sup>
+
+`);
+
+export class Footnote extends T(HTMLElement) {
+
+  constructor() {
+    super();
+
+    const options = {childList: true, characterData: true, subtree: true};
+    const observer = new MutationObserver(this.notify);
+    observer.observe(this, options);
+  }
+
+  notify() {
+    const options = { detail: this, bubbles: true };
+    const event = new CustomEvent('onFootnoteChanged', options);
+    document.dispatchEvent(event);
+  }
+
+  connectedCallback() {
+    // listen and notify about changes to slotted content
+    // const slot = this.shadowRoot.querySelector('#slot');
+    // slot.addEventListener('slotchange', this.notify);
+
+    // create numeric ID
+    Footnote.currentFootnoteId += 1;
+    const IdString = Footnote.currentFootnoteId.toString();
+    this.root.host.id = 'd-footnote-' + IdString;
+
+    // set up hidden hover box
+    const div = this.root.querySelector('.dt-hover-box');
+    div.id = 'dt-fn-hover-box-' + IdString;
+
+    // set up visible footnote marker
+    const span = this.root.querySelector('#fn-');
+    span.setAttribute('id', 'fn-' + IdString);
+    span.setAttribute('data-hover-ref', div.id);
+    span.textContent = IdString;
+
+    this.hoverbox = new HoverBox(div, span);
+  }
+
+}
+
+Footnote.currentFootnoteId = 0;

src/components/d-front-matter.js

@@ -0,0 +1,40 @@
+import ymlParse from 'js-yaml';
+
+export function parseFrontmatter(element) {
+  const scriptTag = element.querySelector('script');
+  if (scriptTag) {
+    const yml = scriptTag.textContent;
+    const data = ymlParse.safeLoad(yml);
+    return data;
+  } else {
+    console.error('You added a frontmatter tag but did not provide a script tag with front matter data in it. Please take a look at our templates.');
+    return {};
+  }
+}
+
+export class FrontMatter extends HTMLElement {
+
+  static get is() { return 'd-front-matter'; }
+
+  constructor() {
+    super();
+
+    const options = {childList: true};
+    const observer = new MutationObserver( (entries) => {
+      for (const entry of entries) {
+        if (entry.target.nodeName === 'SCRIPT') {
+          const data = parseFrontmatter(this);
+          this.notify(data);
+        }
+      }
+    });
+    observer.observe(this, options);
+  }
+
+  notify(data) {
+    const options = { detail: data, bubbles: true };
+    const event = new CustomEvent('onFrontMatterChanged', options);
+    document.dispatchEvent(event);
+  }
+
+}

src/components/d-math.js

@@ -0,0 +1,60 @@
+/*global katex */
+import { Mutating } from '../mixins/mutating.js';
+import { Template } from '../mixins/template.js';
+
+const katexJSURL = 'https://distill.pub/third-party/katex/katex.min.js';
+const katexCSSTag = '<link rel="stylesheet" href="https://distill.pub/third-party/katex/katex.min.css" crossorigin="anonymous">';
+
+const T = Template('d-math', `
+<style>
+
+d-math[block] {
+  display: block;
+}
+
+</style>
+
+${katexCSSTag}
+
+<span id="katex-container"></span>
+`);
+
+
+// DMath, not Math, because that's a JS built-in
+export class DMath extends Mutating(T(HTMLElement)) {
+
+  static katexLoadedCallback() {
+    const mathTags = document.querySelectorAll('d-math');
+    for (const mathTag of mathTags) {
+      mathTag.renderContent();
+    }
+  }
+
+  connectedCallback() {
+    if (!DMath.katexAdded) {
+      // script tag has to be created to work properly
+      const scriptTag = document.createElement('script');
+      scriptTag.src = katexJSURL;
+      scriptTag.async = true;
+      scriptTag.onload = DMath.katexLoadedCallback;
+      scriptTag.crossorigin = 'anonymous';
+      document.head.appendChild(scriptTag);
+      // css tag can use this convenience function
+      document.head.insertAdjacentHTML('beforeend', katexCSSTag);
+
+      DMath.katexAdded = true;
+    }
+  }
+
+  renderContent() {
+    if (typeof katex !== 'undefined') {
+      const options = { displayMode: this.hasAttribute('block') };
+      const container = this.root.querySelector('#katex-container');
+      katex.render(this.textContent, container, options);
+    }
+  }
+
+}
+
+DMath.katexAdded = false;
+window.DMath = DMath; // TODO: check if this can be removed, or if we should expose a distill global

src/components/d-references.js

@@ -0,0 +1,13 @@
+import { Template } from '../mixins/template';
+
+const T = Template('d-references', `
+<style>
+d-references {
+  display: block;
+}
+</style>
+`, false);
+
+export  class References extends T(HTMLElement) {
+
+}

src/components/d-title.js

@@ -0,0 +1,62 @@
+import { Template } from '../mixins/template';
+import { page } from '../helpers/layout';
+
+const T = Template('d-title', `
+<style>
+
+:host {
+  box-sizing: border-box;
+  display: block;
+  width: 100%;
+  margin-bottom: 64px;
+}
+
+
+::slotted(h1) {
+  padding-top: 16px;
+  padding-bottom: 16px;
+  margin: 0;
+  line-height: 1.3;
+  font-size: 32px;
+  font-weight: 700;
+}
+
+::slotted(h2) {
+  border-bottom: none !important;
+}
+
+@media screen and (min-width: 768px), print {
+  ::slotted(h1) {
+    font-size: 42px;
+    padding-bottom: 32px;
+  }
+}
+@media(min-width: 1024px) {
+  ::slotted(h1) {
+    padding-top: 64px;
+    padding-bottom: 32px;
+    font-size: 48px;
+  }
+}
+@media(min-width: 1280px) {
+  ::slotted(h1) {
+    padding-top: 96px;
+    padding-bottom: 32px;
+    font-size: 56px;
+  }
+}
+
+d-byline {
+  border-top: 1px solid rgba(0, 0, 0, 0.1);
+}
+
+${page('::slotted(h1), ::slotted(h2)')}
+
+</style>
+
+<slot></slot>
+`);
+
+export class Title extends T(HTMLElement) {
+
+}

src/components/d-toc.js

@@ -0,0 +1,13 @@
+import {Template} from '../mixins/template';
+
+const T = Template('d-toc', `
+<style>
+d-toc {
+  display: block;
+}
+</style>
+`, false);
+
+export class TOC extends T(HTMLElement) {
+
+}

src/controller.js

@@ -0,0 +1,144 @@
+import { FrontMatter } from './front-matter';
+import { collectCitations } from './components/d-cite';
+import { parseFrontmatter } from './components/d-front-matter';
+
+const frontMatter = new FrontMatter();
+
+export const Controller = {
+
+  frontMatter: frontMatter,
+  waitingOn: {
+    bibliography: [],
+    citations: [],
+  },
+  listeners: {
+
+    onCiteKeyCreated(event) {
+      const [citeTag, keys] = event.detail;
+
+      // ensure we have citations
+      if (!frontMatter.citationsCollected) {
+        // console.debug('onCiteKeyCreated, but unresolved dependency ("citations"). Enqueing.');
+        Controller.waitingOn.citations.push(() => Controller.listeners.onCiteKeyCreated(event));
+        return;
+      }
+
+      // ensure we have a loaded bibliography
+      if (!frontMatter.bibliographyParsed) {
+        // console.debug('onCiteKeyCreated, but unresolved dependency ("bibliography"). Enqueing.');
+        Controller.waitingOn.bibliography.push(() => Controller.listeners.onCiteKeyCreated(event));
+        return;
+      }
+
+      const numbers = keys.map( key => frontMatter.citations.indexOf(key) );
+      citeTag.numbers = numbers;
+      const entries = keys.map( key => frontMatter.bibliography.get(key) );
+      citeTag.entries = entries;
+    },
+
+    onCiteKeyChanged(event) {
+      // const [citeTag, keys] = event.detail;
+
+      // update citations
+      frontMatter.citations = collectCitations();
+      frontMatter.citationsCollected = true;
+      for (const waitingCallback of Controller.waitingOn.citations.slice()) {
+        waitingCallback();
+      }
+
+      // update bibliography
+      const bibliographyTag = document.querySelector('d-bibliography');
+      const bibliographyEntries = new Map(frontMatter.citations.map( citationKey => {
+        return [citationKey, frontMatter.bibliography.get(citationKey)];
+      }));
+      bibliographyTag.entries = bibliographyEntries;
+
+      const citeTags = document.querySelectorAll('d-cite');
+      for (const citeTag of citeTags) {
+        const keys = citeTag.keys;
+        const numbers = keys.map( key => frontMatter.citations.indexOf(key) );
+        citeTag.numbers = numbers;
+        const entries = keys.map( key => frontMatter.bibliography.get(key) );
+        citeTag.entries = entries;
+      }
+
+    },
+
+    onCiteKeyRemoved(event) {
+      Controller.listeners.onCiteKeyChanged(event);
+    },
+
+    onBibliographyChanged(event) {
+      const bibliographyTag = event.target;
+      const bibliography = event.detail;
+
+      frontMatter.bibliography = bibliography;
+      frontMatter.bibliographyParsed = true;
+      for (const waitingCallback of Controller.waitingOn.bibliography.slice()) {
+        waitingCallback();
+      }
+
+      // ensure we have citations
+      if (!frontMatter.citationsCollected) {
+        Controller.waitingOn.citations.push( function() {
+          Controller.listeners.onBibliographyChanged({target: event.target, detail: event.detail});
+        });
+        return;
+      }
+
+      const entries = new Map(frontMatter.citations.map( citationKey => {
+        return [citationKey, frontMatter.bibliography.get(citationKey)];
+      }));
+
+      bibliographyTag.entries = entries;
+    },
+
+    onFootnoteChanged() {
+      // const footnote = event.detail;
+      //TODO: optimize to only update current footnote
+      const footnotesList = document.querySelector('d-footnote-list');
+      if (footnotesList) {
+        const footnotes = document.querySelectorAll('d-footnote');
+        footnotesList.footnotes = footnotes;
+      }
+    },
+
+    onFrontMatterChanged(event) {
+      const data = event.detail;
+      frontMatter.mergeFromYMLFrontmatter(data);
+
+      const appendix = document.querySelector('distill-appendix');
+      if (appendix) {
+        appendix.frontMatter = frontMatter;
+      }
+
+      const byline = document.querySelector('d-byline');
+      if (byline) {
+        byline.frontMatter = frontMatter;
+      }
+    },
+
+    DOMContentLoaded() {
+      // console.debug('DOMContentLoaded.');
+
+      const frontMatterTag = document.querySelector('d-front-matter');
+      const data = parseFrontmatter(frontMatterTag);
+      Controller.listeners.onFrontMatterChanged({detail: data});
+
+      // console.debug('Resolving "citations" dependency due to initial DOM load.');
+      frontMatter.citations = collectCitations();
+      frontMatter.citationsCollected = true;
+      for (const waitingCallback of Controller.waitingOn.citations.slice()) {
+        waitingCallback();
+      }
+
+      const footnotesList = document.querySelector('d-footnote-list');
+      if (footnotesList) {
+        const footnotes = document.querySelectorAll('d-footnote');
+        footnotesList.footnotes = footnotes;
+      }
+    }
+
+  }, // listeners
+
+}; // Controller

src/distill-components/distill-appendix.js

@@ -0,0 +1,64 @@
+import { serializeFrontmatterToBibtex } from '../helpers/bibtex';
+
+const styles = `
+<style>
+  distill-appendix h3 {
+    font-size: 15px;
+    font-weight: 500;
+    margin-top: 20px;
+    margin-bottom: 0;
+    color: rgba(0,0,0,0.65);
+    line-height: 1em;
+  }
+  distill-appendix a {
+    color: rgba(0, 0, 0, 0.6);
+  }
+  distill-appendix ol,
+  distill-appendix ul {
+    padding-left: 24px;
+  }
+  distill-appendix .citation {
+    font-size: 11px;
+    line-height: 15px;
+    border-left: 1px solid rgba(0, 0, 0, 0.1);
+    padding-left: 18px;
+    border: 1px solid rgba(0,0,0,0.1);
+    background: rgba(0, 0, 0, 0.02);
+    padding: 10px 18px;
+    border-radius: 3px;
+    color: rgba(150, 150, 150, 1);
+    overflow: hidden;
+    margin-top: -12px;
+    white-space: pre-wrap;
+    word-wrap: break-word;
+  }
+</style>
+`;
+
+export function appendixTemplate(frontMatter) {
+  return `
+  ${styles}
+
+  <h3 id="updates-and-corrections">Updates and Corrections</h3>
+  <p><a href="">View all changes</a> to this article since it was first published. If you see mistakes or want to suggest changes, please <a href="${frontMatter.githubUrl + '/issues/new'}">create an issue on GitHub</a>. </p>
+
+  <h3 id="reuse">Reuse</h3>
+  <p>Diagrams and text are licensed under Creative Commons Attribution <a href="https://creativecommons.org/licenses/by/2.0/">CC-BY 2.0</a> with the <a class="github" href="${frontMatter.githubUrl}">source available on GitHub</a>, unless noted otherwise. The figures that have been reused from other sources don’t fall under this license and can be recognized by a note in their caption: “Figure from …”.</p>
+
+  <h3 id="citation">Citation</h3>
+  <p>For attribution in academic contexts, please cite this work as</p>
+  <pre class="citation short">${frontMatter.concatenatedAuthors}, "${frontMatter.title}", Distill, ${frontMatter.publishedYear}.</pre>
+  <p>BibTeX citation</p>
+  <pre class="citation long">${serializeFrontmatterToBibtex(frontMatter)}</pre>
+  `;
+}
+
+export class DistillAppendix extends HTMLElement {
+
+  static get is() { return 'distill-appendix'; }
+
+  set frontMatter(frontMatter) {
+    this.innerHTML = appendixTemplate(frontMatter);
+  }
+
+}

src/distill-components/distill-footer.js

@@ -0,0 +1,53 @@
+import { Template } from '../mixins/template';
+import logo from '../assets/distill-logo.svg';
+
+const T = Template('distill-footer', `
+<style>
+
+:host {
+  display: block;
+  color: rgba(255, 255, 255, 0.4);
+  font-weight: 300;
+  padding: 40px 0;
+  border-top: 1px solid rgba(0, 0, 0, 0.1);
+  background-color: hsl(180, 5%, 15%); /*hsl(200, 60%, 15%);*/
+  text-align: left;
+}
+
+.logo svg {
+  width: 24px;
+  position: relative;
+  top: 4px;
+  margin-right: 2px;
+}
+
+.logo svg path {
+  fill: none;
+  stroke: rgba(255, 255, 255, 0.8);
+  stroke-width: 3px;
+}
+
+.logo {
+  font-size: 17px;
+  font-weight: 200;
+  color: rgba(255, 255, 255, 0.8);
+  text-decoration: none;
+  margin-right: 6px;
+}
+
+.container {
+  grid-column: margin-left / body;
+}
+</style>
+
+<div class='container'>
+<a href="/" class="logo">
+  ${logo}
+  Distill
+</a> is dedicated to clear explanations of machine learning
+</div>
+`);
+
+export class DistillFooter extends T(HTMLElement) {
+
+}

src/distill-components/distill-header.js

@@ -0,0 +1,110 @@
+import { Template } from '../mixins/template';
+
+import logo from '../assets/distill-logo.svg';
+
+const T = Template('distill-header', `
+<style>
+:host {
+  box-sizing: border-box;
+  display: block;
+  top: 0;
+  left: 0;
+  width: 100%;
+  height: 60px;
+  background-color: transparent;
+  z-index: ${1e6};
+  color: rgba(0, 0, 0, 0.8);
+  /*border-bottom: 1px solid rgba(0, 0, 0, 0.08);*/
+  /*box-shadow: 0 1px 6px rgba(0, 0, 0, 0.05);*/
+}
+.content {
+  height: 70px;
+}
+a {
+  font-size: 16px;
+  height: 60px;
+  line-height: 60px;
+  text-decoration: none;
+  color: rgba(255, 255, 255, 0.8);
+  padding: 22px 0;
+}
+a:hover {
+  color: rgba(255, 255, 255, 1);
+}
+svg {
+  background-color: hsl(0, 0%, 15%);;
+  padding: 8px;
+  border-radius: 12px;
+  width: 24px;
+  position: relative;
+  top: 16px;
+  left: 16px;
+  margin-right: 2px;
+}
+@media(min-width: 768px) {
+  svg {
+    top: 40px;
+    left: 40px;
+  }
+}
+
+@media(min-width: 1080px) {
+  :host {
+    height: 70px;
+  }
+  a {
+    height: 70px;
+    line-height: 70px;
+    padding: 28px 0;
+  }
+  .logo {
+  }
+}
+svg path {
+  fill: white;
+  stroke: rgba(255, 255, 255, 1.0);
+  stroke-width: 3px;
+}
+.logo {
+  font-size: 17px;
+  font-weight: 200;
+}
+.nav {
+  float: right;
+  font-weight: 300;
+}
+.nav a {
+  font-size: 12px;
+  margin-left: 24px;
+  text-transform: uppercase;
+}
+
+.name {
+  opacity: 0.0;
+  transition: opacity 0.5s
+}
+
+a:hover .name {
+  opacity: 1.0;
+}
+</style>
+
+<div class="content l-page">
+  <a href="/" class="logo">
+    ${logo}
+  </a>
+  <span class='name'>
+    Distill
+  </span>
+</div>
+`);
+
+// <div class="nav">
+//   <a href="/faq">About</a>
+//   <a href="https://github.com/distillpub">GitHub</a>
+//   <!-- https://twitter.com/distillpub -->
+// </div>
+
+export class DistillHeader extends T(HTMLElement) {
+
+}

src/distill-transforms/distill-appendix.js

@@ -0,0 +1,14 @@
+export default function(dom) {
+
+  const appendixTag = dom.querySelector('d-appendix');
+  if (!appendixTag) {
+    console.warn('No appendix tag found!');
+    return;
+  }
+  const distillAppendixTag = appendixTag.querySelector('distill-appendix');
+  if (!distillAppendixTag) {
+    const distillAppendix = dom.createElement('distill-appendix');
+    appendixTag.appendChild(distillAppendix);
+  }
+
+}

src/distill-transforms/distill-footer.js

@@ -0,0 +1,8 @@
+export default function(dom) {
+  const footerTag = dom.querySelector('distill-footer');
+  if(!footerTag) {
+    const footer = dom.createElement('distill-footer');
+    const body = dom.querySelector('body');
+    body.appendChild(footer);
+  }
+}

src/distill-transforms/distill-header.js

@@ -0,0 +1,8 @@
+export default function(dom) {
+  const headerTag = dom.querySelector('distill-header');
+  if (!headerTag) {
+    const header = dom.createElement('distill-header');
+    const body = dom.querySelector('body');
+    body.insertBefore(header, body.firstChild);
+  }
+}

src/extractors/bibliography.js

@@ -0,0 +1,10 @@
+import { parseBibliography } from '../components/d-bibliography';
+
+export default function(dom, data) {
+  const bibliographyTag = dom.querySelector('d-bibliography');
+  if (!bibliographyTag) {
+    console.warn('No bibliography tag found!');
+    return;
+  }
+  data.bibliography = parseBibliography(bibliographyTag);
+}

src/extractors/citations.js

@@ -0,0 +1,5 @@
+import { collectCitations } from '../components/d-cite';
+
+export default function(dom, data) {
+  data.citations = collectCitations(dom);
+}

src/extractors/front-matter.js

@@ -0,0 +1,11 @@
+import { parseFrontmatter } from '../components/d-front-matter';
+
+export default function(dom, data) {
+  const frontMatterTag = dom.querySelector('d-front-matter');
+  if (!frontMatterTag) {
+    console.warn('No front matter tag found!');
+    return;
+  }
+  const extractedData = parseFrontmatter(frontMatterTag);
+  Object.assign(data, extractedData);
+}

src/front-matter.js

@@ -0,0 +1,244 @@
+import {timeFormat} from 'd3-time-format';
+
+const zeroPad = n => n < 10 ? '0' + n : n;
+const RFC = timeFormat('%a, %d %b %Y %H:%M:%S %Z');
+const months = ['Jan', 'Feb', 'March', 'April', 'May', 'June', 'July', 'Aug', 'Sept', 'Oct', 'Nov', 'Dec'];
+
+class Author {
+
+  constructor(name='', personalURL='', affiliation='', affiliationURL='') {
+    this.name = name; // "Chris Olah"
+    this.personalURL = personalURL; // "https://colah.github.io"
+    this.affiliation = affiliation; // "Google Brain"
+    this.affiliationURL = affiliationURL; // "https://g.co/brain"
+  }
+
+  // "Chris"
+  get firstName() {
+    const names = this.name.split(' ');
+    return names.slice(0, names.length - 1).join(' ');
+  }
+
+  // "Olah"
+  get lastName() {
+    const names = this.name.split(' ');
+    return names[names.length -1];
+  }
+}
+
+export class FrontMatter {
+  constructor() {
+    this.title = ''; // "Attention and Augmented Recurrent Neural Networks"
+    this.description = ''; // "A visual overview of neural attention..."
+    this.authors = []; // Array of Author(s)
+
+    this.bibliography = new Map();
+    this.bibliographyParsed = false;
+    //  {
+    //    "gregor2015draw": {
+    //      "title": "DRAW: A recurrent neural network for image generation",
+    //      "author": "Gregor, Karol and Danihelka, Ivo and Graves, Alex and Rezende, Danilo Jimenez and Wierstra, Daan",
+    //      "journal": "arXiv preprint arXiv:1502.04623",
+    //      "year": "2015",
+    //      "url": "https://arxiv.org/pdf/1502.04623.pdf",
+    //      "type": "article"
+    //    },
+    //  }
+
+    // Citation keys should be listed in the order that they are appear in the document.
+    // Each key refers to a key in the bibliography dictionary.
+    this.citations = []; // [ "gregor2015draw", "mercier2011humans" ]
+    this.citationsCollected = false;
+
+    //
+    // Assigned from posts.csv
+    //
+
+    //  publishedDate: 2016-09-08T07:00:00.000Z,
+    //  tags: [ 'rnn' ],
+    //  distillPath: '2016/augmented-rnns',
+    //  githubPath: 'distillpub/post--augmented-rnns',
+    //  doiSuffix: 1,
+
+    //
+    // Assigned from journal
+    //
+    this.journal = {};
+    //  journal: {
+    //    "title": "Distill",
+    //    "full_title": "Distill",
+    //    "abbrev_title": "Distill",
+    //    "url": "http://distill.pub",
+    //    "doi": "10.23915/distill",
+    //    "publisherName": "Distill Working Group",
+    //    "publisherEmail": "admin@distill.pub",
+    //    "issn": "2476-0757",
+    //    "editors": [...],
+    //    "committee": [...]
+    //  }
+    //  volume: 1,
+    //  issue: 9,
+    this.publishedDate = new Date();
+
+    //
+    // Assigned from publishing process
+    //
+
+    //  githubCompareUpdatesUrl: 'https://github.com/distillpub/post--augmented-rnns/compare/1596e094d8943d2dc0ea445d92071129c6419c59...3bd9209e0c24d020f87cf6152dcecc6017cbc193',
+    //  updatedDate: 2017-03-21T07:13:16.000Z,
+    //  doi: '10.23915/distill.00001',
+
+  }
+
+  // Example:
+  // title: Demo Title Attention and Augmented Recurrent Neural Networks
+  // published: Jan 10, 2017
+  // authors:
+  // - Chris Olah:
+  // - Shan Carter: http://shancarter.com
+  // affiliations:
+  // - Google Brain:
+  // - Google Brain: http://g.co/brain
+
+  mergeFromYMLFrontmatter(data) {
+    this.title = data.title;
+    this.publishedDate = new Date(data.published);
+    this.description = data.description;
+    const zipped = data.authors.map( (author, index) => [author, data.affiliations[index]]);
+    this.authors = zipped.map( ([authorEntry, affiliationEntry]) => {
+      const author = new Author();
+
+      // try to get name and personal url
+      switch (typeof authorEntry) {
+      case 'object':
+        author.name = Object.keys(authorEntry)[0];
+        author.personalURL = authorEntry[author.name];
+        break;
+      case 'string':
+        author.name = authorEntry;
+        break;
+      default:
+        throw new Error('Invalid type in frontmatter author field: ' + authorEntry);
+      }
+
+      // try to get affiliation name and affiliation url
+      switch (typeof affiliationEntry) {
+      case 'object':
+        author.affiliation = Object.keys(affiliationEntry)[0];
+        author.affiliationURL = affiliationEntry[author.affiliation];
+        break;
+      case 'string':
+        author.affiliation = affiliationEntry;
+        break;
+      default:
+        throw new Error('Invalid type in frontmatter affiliation field: ' + affiliationEntry);
+      }
+
+      return author;
+    });
+  }
+
+  //
+  // Computed Properties
+  //
+
+  // 'http://distill.pub/2016/augmented-rnns',
+  set url(value) {
+    this._url = value;
+  }
+  get url() {
+    if (this._url) {
+      return this._url;
+    } else if (this.distillPath && this.journal.url) {
+      return this.journal.url + '/' + this.distillPath;
+    } else if (this.journal.url) {
+      return this.journal.url;
+    }
+  }
+
+  // 'https://github.com/distillpub/post--augmented-rnns',
+  get githubUrl() {
+    return 'https://github.com/' + this.githubPath;
+  }
+
+  // TODO resolve differences in naming of URL/Url/url.
+  // 'http://distill.pub/2016/augmented-rnns/thumbnail.jpg',
+  set previewURL(value) {
+    this._previewURL = value;
+  }
+  get previewURL() {
+    return this._previewURL ? this._previewURL : this.url + '/thumbnail.jpg';
+  }
+
+  // 'Thu, 08 Sep 2016 00:00:00 -0700',
+  get publishedDateRFC() {
+    return RFC(this.publishedDate);
+  }
+
+  // 'Thu, 08 Sep 2016 00:00:00 -0700',
+  get updatedDateRFC() {
+    return RFC(this.updatedDate);
+  }
+
+  // 2016,
+  get publishedYear() {
+    return this.publishedDate.getFullYear();
+  }
+
+  // 'Sept',
+  get publishedMonth() {
+    return months[this.publishedDate.getMonth()];
+  }
+
+  // 8,
+  get publishedDay() {
+    return this.publishedDate.getDate();
+  }
+
+  // '09',
+  get publishedMonthPadded() {
+    return zeroPad(this.publishedDate.getMonth() + 1);
+  }
+
+  // '08',
+  get publishedDayPadded() {
+    return zeroPad(this.publishedDate.getDate());
+  }
+
+  // 'Olah & Carter',
+  get concatenatedAuthors() {
+    if (this.authors.length > 2) {
+      return this.authors[0].lastName + ', et al.';
+    } else if (this.authors.length === 2) {
+      return this.authors[0].lastName + ' & ' + this.authors[1].lastName;
+    } else if (this.authors.length === 1) {
+      return this.authors[0].lastName;
+    }
+  }
+
+  // 'Olah, Chris and Carter, Shan',
+  get bibtexAuthors() {
+    return this.authors.map(author => {
+      return author.lastName + ', ' + author.firstName;
+    }).join(' and ');
+  }
+
+  // 'olah2016attention'
+  get slug() {
+    let slug = '';
+    if (this.authors.length) {
+      slug += this.authors[0].lastName.toLowerCase();
+      slug += this.publishedYear;
+      slug += this.title.split(' ')[0].toLowerCase();
+    }
+    return slug || 'Untitled';
+  }
+
+  get bibliographyEntries() {
+    return new Map(this.citations.map( citationKey => {
+      const entry = this.bibliography.get(citationKey);
+      return [citationKey, entry];
+    }));
+  }
+
+}

src/helpers/bibtex.js

@@ -0,0 +1,33 @@
+import bibtexParse from 'bibtex-parse-js';
+
+function normalizeTag(string) {
+  return string
+    .replace(/[\t\n ]+/g, ' ')
+    .replace(/{\\["^`.'acu~Hvs]( )?([a-zA-Z])}/g, (full, x, char) => char)
+    .replace(/{\\([a-zA-Z])}/g, (full, char) => char);
+}
+
+export function parseBibtex(bibtex) {
+  const bibliography = new Map();
+  const parsedEntries = bibtexParse.toJSON(bibtex);
+  for (const entry of parsedEntries) {
+    // normalize tags; note entryTags is an object, not Map
+    for (const [key, value] of Object.entries(entry.entryTags)) {
+      entry.entryTags[key] = normalizeTag(value);
+    }
+    entry.entryTags.type = entry.entryType;
+    // add to bibliography
+    bibliography.set(entry.citationKey, entry.entryTags);
+  }
+  return bibliography;
+}
+
+export function serializeFrontmatterToBibtex(frontMatter) {
+  return `@article{${frontMatter.slug},
+  author = {${frontMatter.bibtexAuthors}},
+  title = {${frontMatter.title}},
+  journal = {${frontMatter.journal.title}},
+  year = {${frontMatter.publishedYear}},
+  note = {${frontMatter.url}}
+}`;
+}

src/helpers/citation.js

@@ -0,0 +1,165 @@
+export function inline_cite_short(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var n = data.citations.indexOf(key)+1;
+      return ''+n;
+    } else {
+      return '?';
+    }
+  }
+  return '['+keys.map(cite_string).join(', ')+']';
+}
+
+export function inline_cite_long(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var ent = data.bibliography[key];
+      var names = ent.author.split(' and ');
+      names = names.map(name => name.split(',')[0].trim());
+      var year = ent.year;
+      if (names.length == 1) return names[0] + ', ' + year;
+      if (names.length == 2) return names[0] + ' & ' + names[1] + ', ' + year;
+      if (names.length  > 2) return names[0] + ', et al., ' + year;
+    } else {
+      return '?';
+    }
+  }
+  return keys.map(cite_string).join(', ');
+}
+
+function author_string(ent, template, sep, finalSep){
+  var names = ent.author.split(' and ');
+  let name_strings = names.map(name => {
+    name = name.trim();
+    if (name.indexOf(',') != -1){
+      var last = name.split(',')[0].trim();
+      var firsts = name.split(',')[1];
+    } else {
+      var last = name.split(' ').slice(-1)[0].trim();
+      var firsts = name.split(' ').slice(0,-1).join(' ');
+    }
+    var initials = '';
+    if (firsts != undefined) {
+      initials = firsts.trim().split(' ').map(s => s.trim()[0]);
+      initials = initials.join('.')+'.';
+    }
+    return template.replace('${F}', firsts)
+      .replace('${L}', last)
+      .replace('${I}', initials);
+  });
+  if (names.length > 1) {
+    var str = name_strings.slice(0, names.length-1).join(sep);
+    str += (finalSep || sep) + name_strings[names.length-1];
+    return str;
+  } else {
+    return name_strings[0];
+  }
+}
+
+function venue_string(ent) {
+  var cite = (ent.journal || ent.booktitle || '');
+  if ('volume' in ent){
+    var issue = ent.issue || ent.number;
+    issue = (issue != undefined)? '('+issue+')' : '';
+    cite += ', Vol ' + ent.volume + issue;
+  }
+  if ('pages' in ent){
+    cite += ', pp. ' + ent.pages;
+  }
+  if (cite != '') cite += '. ';
+  if ('publisher' in ent){
+    cite += ent.publisher;
+    if (cite[cite.length-1] != '.') cite += '.';
+  }
+  return cite;
+}
+
+function link_string(ent){
+  if ('url' in ent){
+    var url = ent.url;
+    var arxiv_match = (/arxiv\.org\/abs\/([0-9\.]*)/).exec(url);
+    if (arxiv_match != null){
+      url = `http://arxiv.org/pdf/${arxiv_match[1]}.pdf`;
+    }
+
+    if (url.slice(-4) == '.pdf'){
+      var label = 'PDF';
+    } else if (url.slice(-5) == '.html') {
+      var label = 'HTML';
+    }
+    return ` &ensp;<a href="${url}">[${label||'link'}]</a>`;
+  }/* else if ("doi" in ent){
+    return ` &ensp;<a href="https://doi.org/${ent.doi}" >[DOI]</a>`;
+  }*/ else {
+    return '';
+  }
+}
+function doi_string(ent, new_line){
+  if ('doi' in ent) {
+    return `${new_line?'<br>':''} <a href="https://doi.org/${ent.doi}" style="text-decoration:inherit;">DOI: ${ent.doi}</a>`;
+  } else {
+    return '';
+  }
+}
+
+export function bibliography_cite(ent, fancy){
+  if (ent){
+    var cite =  '<b>' + ent.title + '</b> ';
+    cite += link_string(ent) + '<br>';
+    cite += author_string(ent, '${L}, ${I}', ', ', ' and ');
+    if (ent.year || ent.date){
+      cite += ', ' + (ent.year || ent.date) + '. ';
+    } else {
+      cite += '. ';
+    }
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    return cite;
+    /*var cite =  author_string(ent, "${L}, ${I}", ", ", " and ");
+    if (ent.year || ent.date){
+      cite += ", " + (ent.year || ent.date) + ". "
+    } else {
+      cite += ". "
+    }
+    cite += "<b>" + ent.title + "</b>. ";
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    cite += link_string(ent);
+    return cite*/
+  } else {
+    return '?';
+  }
+}
+
+export function hover_cite(ent){
+  if (ent){
+    var cite = '';
+    cite += '<b>' + ent.title + '</b>';
+    cite += link_string(ent);
+    cite += '<br>';
+
+    var a_str = author_string(ent, '${I} ${L}', ', ') + '.';
+    var v_str = venue_string(ent).trim() + ' ' + ent.year + '. ' + doi_string(ent, true);
+
+    if ((a_str+v_str).length < Math.min(40, ent.title.length)) {
+      cite += a_str + ' ' + v_str;
+    } else {
+      cite += a_str + '<br>' + v_str;
+    }
+    return cite;
+  } else {
+    return '?';
+  }
+}
+
+
+//https://scholar.google.com/scholar?q=allintitle%3ADocument+author%3Aolah
+function get_GS_URL(ent){
+  if (ent){
+    var names = ent.author.split(' and ');
+    names = names.map(name => name.split(',')[0].trim());
+    var title = ent.title.split(' ');//.replace(/[,:]/, "")
+    var url = 'http://search.labs.crossref.org/dois?';//""https://scholar.google.com/scholar?"
+    url += uris({q: names.join(' ') + ' ' + title.join(' ')});
+  }
+}

src/helpers/hover-box.js

@@ -0,0 +1,108 @@
+function make_hover_css(pos) {
+  const pretty = window.innerWidth > 600;
+  const padding = pretty? 18 : 12;
+  const outer_padding = pretty ? 18 : 0;
+  const bbox = document.querySelector('body').getBoundingClientRect();
+  let left = pos[0] - bbox.left, top = pos[1] - bbox.top;
+  let width = Math.min(window.innerWidth-2*outer_padding, 648);
+  left = Math.min(left, window.innerWidth-width-outer_padding);
+  width = width - 2 * padding;
+  return (`position: absolute;
+     background-color: #FFF;
+     opacity: 0.95;
+     max-width: ${width}px;
+     top: ${top}px;
+     left: ${left}px;
+     border: 1px solid rgba(0, 0, 0, 0.25);
+     padding: ${padding}px;
+     border-radius: ${pretty? 3 : 0}px;
+     box-shadow: 0px 2px 10px 2px rgba(0, 0, 0, 0.2);
+     z-index: ${1e6};`);
+}
+
+export class HoverBox {
+
+  constructor(contentHTML, triggerElement) {
+    this.visible = false;
+    // div hold teh contents of the box that will become visible
+    this.div = contentHTML;
+    this.bindDivEvents(this.div);
+    // triggerElement holds the element that needs to be hovered etc to show contents
+    this.triggerElement = triggerElement;
+    this.bindTriggerEvents(this.triggerElement);
+    this.hide();
+  }
+
+  bindDivEvents(node) {
+    // For mice, same behavior as hovering on links
+    this.div.addEventListener('mouseover', () => {
+      if (!this.visible) this.showAtNode(node);
+      this.stopTimeout();
+    });
+    this.div.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+    // Don't trigger body touchstart event when touching within box
+    this.div.addEventListener('touchstart', (event) => {
+      event.stopPropagation();
+    }, {passive: true});
+    // Close box when touching outside box
+    document.body.addEventListener('touchstart', () => {
+      this.hide();
+    }, {passive: true});
+  }
+
+  bindTriggerEvents(node) {
+    node.addEventListener('mouseover', () => {
+      if (!this.visible) {
+        this.showAtNode(node);
+      }
+      this.stopTimeout();
+    });
+
+    node.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+
+    node.addEventListener('touchstart', (event) => {
+      if (this.visible) {
+        this.hide();
+      } else {
+        this.showAtNode(node);
+      }
+      // Don't trigger body touchstart event when touching link
+      event.stopPropagation();
+    }, {passive: true});
+  }
+
+  show(position) {
+    this.visible = true;
+    const css = make_hover_css(position);
+    this.div.setAttribute('style', css );
+  }
+
+  showAtNode(node) {
+    const bbox = node.getBoundingClientRect();
+    this.show([bbox.right, bbox.bottom]);
+  }
+
+  hide() {
+    this.visible = false;
+    this.div.setAttribute('style', 'display:none');
+    this.stopTimeout();
+  }
+
+  stopTimeout() {
+    if (this.timeout) {
+      clearTimeout(this.timeout);
+    }
+  }
+
+  extendTimeout(time) {
+    this.stopTimeout();
+    this.timeout = setTimeout(() => {
+      this.hide();
+    }, time);
+  }
+
+}

src/helpers/layout.js

@@ -0,0 +1,33 @@
+// const marginSmall = 16;
+// const marginLarge = 3 * marginSmall;
+// const margin = marginSmall + marginLarge;
+// const gutter = marginSmall;
+// const outsetAmount = margin / 2;
+// const numCols = 4;
+// const numGutters = numCols - 1;
+// const columnWidth = (768 - 2 * marginLarge - numGutters * gutter) / numCols;
+//
+// const screenwidth = 768;
+// const pageWidth = screenwidth - 2 * marginLarge;
+// const bodyWidth = pageWidth - columnWidth - gutter;
+
+export function body(selector) {
+  return `${selector} {
+      grid-column: margin-left / body;
+    }
+  `;
+}
+
+export function page(selector) {
+  return `${selector} {
+      grid-column: margin-left / page;
+    }
+  `;
+}
+
+export function screen(selector) {
+  return `${selector} {
+    grid-column: start / end;
+  }
+  `;
+}

src/mixins/mutating.js

@@ -0,0 +1,38 @@
+export const Mutating = (superclass) => {
+  return class extends superclass {
+
+    constructor() {
+      super();
+
+      // set up mutation observer
+      const options = {childList: true, characterData: true, subtree: true};
+      const observer = new MutationObserver( () => {
+        observer.disconnect();
+        this.renderIfPossible();
+        observer.observe(this, options);
+      });
+
+      // ...and listen for changes
+      observer.observe(this, options);
+    }
+
+    connectedCallback() {
+      super.connectedCallback();
+
+      this.renderIfPossible();
+    }
+
+    // potential TODO: check if this is enough for all our usecases
+    // maybe provide a custom function to tell if we have enough information to render
+    renderIfPossible() {
+      if (this.textContent && this.root) {
+        this.renderContent();
+      }
+    }
+
+    renderContent() {
+      console.error(`Your class ${this.constructor.name} must provide a custom renderContent() method!` );
+    }
+
+  }; // end class
+}; // end mixin function

src/mixins/properties.js

@@ -0,0 +1,85 @@
+export function propName(attr) {
+  return attr.replace(/(-[a-z])/g, (s) => s.toUpperCase().replace('-', ''));
+}
+
+export function attrName(prop) {
+  return prop.replace(/([A-Z])/g, (s) => '-' + s.toLowerCase());
+}
+
+export function deserializeAttribute(value, type) {
+  switch (type) {
+  case String:
+    break;
+  case Array:
+  case Object:
+    try {
+      value = JSON.parse(value);
+    } catch (e) {}
+    break;
+  case Boolean:
+    value = value != 'false' && value != '0' && value;
+    break;
+  default:
+  }
+  return value;
+}
+
+const immediately = window.setImmediate || function(fn, args) {
+  window.setTimeout(function() {
+    fn.apply(this, args);
+  }, 0);
+};
+
+export const Properties = (properties) => {
+  const keys = Object.keys(properties);
+  const attrs = keys.map((k) => attrName(k));
+  return (superclass) => {
+    const cls = class extends superclass {
+      static get observedAttributes() {
+        return attrs;
+      }
+      attributeChangedCallback(attr, oldValue, newValue) {
+        const prop = propName(attr);
+        const value = deserializeAttribute(newValue, properties[prop].type);
+        this[prop] = value;
+      }
+      _propertiesChanged() {
+        if (!this.propertiesChangedCallback) {
+          return;
+        }
+        clearTimeout(this._propertiesChangedTimeout);
+        this._propertiesChangedTimeout = immediately(() => {
+          this.propertiesChangedCallback(this);
+        });
+      }
+    };
+    keys.forEach(function(k) {
+      const secret = `_${k}`;
+      const callback = `${k}Changed`;
+      const defaultValue = properties[k].value;
+      Object.defineProperty(cls.prototype, k, {
+        get: function() {
+          let value = this[secret];
+          if (value) {
+            return value;
+          }
+          if (defaultValue && typeof defaultValue == 'function') {
+            this[secret] = defaultValue();
+          } else {
+            this[secret] = defaultValue;
+          }
+          return this[secret];
+        },
+        set: function(value) {
+          const oldValue = this[secret];
+          this[secret] = value;
+          if (this[callback]) {
+            this[callback](value, oldValue);
+          }
+          this._propertiesChanged();
+        }
+      });
+    });
+    return cls;
+  };
+};

src/mixins/template.js

@@ -0,0 +1,56 @@
+/*global ShadyCSS*/
+
+export const Template = (name, templateString, useShadow = true) => {
+
+  return (superclass) => {
+
+    const template = document.createElement('template');
+    template.innerHTML = templateString;
+
+    if (useShadow && 'ShadyCSS' in window) {
+      ShadyCSS.prepareTemplate(template, name);
+    }
+
+    return class extends superclass {
+
+      static get is() { return name; }
+
+      constructor() {
+        super();
+
+        this.clone = document.importNode(template.content, true);
+        if (useShadow) {
+          this.attachShadow({mode: 'open'});
+          this.shadowRoot.appendChild(this.clone);
+        }
+      }
+
+      connectedCallback() {
+        if (useShadow) {
+          if ('ShadyCSS' in window) {
+            ShadyCSS.styleElement(this);
+          }
+        } else {
+          this.insertBefore(this.clone, this.firstChild);
+        }
+      }
+
+      get root() {
+        if (useShadow) {
+          return this.shadowRoot;
+        } else {
+          return this;
+        }
+      }
+
+      /* TODO: Are we using these? Should we even? */
+      $(query) {
+        return this.root.querySelector(query);
+      }
+
+      $$(query) {
+        return this.root.querySelectorAll(query);
+      }
+    };
+  };
+};

src/styles/styles-article.css

@@ -0,0 +1,201 @@
+
+d-article {
+  color: rgba(0, 0, 0, 0.8);
+  padding-top: 0;
+  padding-bottom: 72px;
+  overflow: hidden;
+  font-size: 14px;
+  line-height: 1.6em;
+  /*border-top: 1px solid rgba(0, 0, 0, 0.2);*/
+}
+@media(min-width: 768px) {
+  d-article {
+    font-size: 16px;
+  }
+}
+@media(min-width: 1024px) {
+  d-article {
+    font-size: 18px;
+  }
+}
+
+/* H2 */
+
+d-article h2 {
+  font-weight: 600;
+  font-size: 26px;
+  line-height: 1.25em;
+  margin-top: 16px;
+  margin-bottom: 24px;
+  padding-bottom: 24px;
+  border-bottom: 1px solid rgba(0, 0, 0, 0.1);
+}
+@media(min-width: 1024px) {
+  d-article h2 {
+    margin-top: 2em;
+    font-size: 32px;
+  }
+}
+d-article h1 + h2 {
+  font-weight: 300;
+  font-size: 20px;
+  line-height: 1.4em;
+  margin-top: 8px;
+  font-style: normal;
+}
+@media(min-width: 1080px) {
+  .centered h1 + h2 {
+    text-align: center;
+  }
+  d-article h1 + h2 {
+    margin-top: 12px;
+    font-size: 32px;
+  }
+}
+
+/* H3 */
+
+d-article h3 {
+  font-weight: 600;
+  font-size: 20px;
+  line-height: 1.4em;
+  margin-top: 36px;
+  margin-bottom: 18px;
+}
+d-article h1 + h3 {
+  margin-top: 48px;
+}
+@media(min-width: 1024px) {
+  d-article h3 {
+    font-size: 26px;
+  }
+}
+
+/* H4 */
+
+d-article h4 {
+  font-weight: 600;
+  text-transform: uppercase;
+  font-size: 14px;
+  line-height: 1.4em;
+}
+d-article a {
+  color: inherit;
+}
+d-article p,
+d-article ul,
+d-article ol {
+  margin-bottom: 24px;
+}
+d-article p b,
+d-article ul b,
+d-article ol b {
+  -webkit-font-smoothing: antialiased;
+}
+d-article a {
+  border-bottom: 1px solid rgba(0, 0, 0, 0.4);
+  text-decoration: none;
+}
+d-article a:hover {
+  border-bottom: 1px solid rgba(0, 0, 0, 0.8);
+}
+d-article .link {
+  text-decoration: underline;
+  cursor: pointer;
+}
+d-article ul,
+d-article ol {
+  padding-left: 24px;
+}
+d-article li {
+  margin-bottom: 24px;
+  margin-left: 0;
+  padding-left: 0;
+}
+d-article pre {
+  font-size: 14px;
+  margin-bottom: 20px;
+}
+d-article hr {
+  border: none;
+  border-bottom: 1px solid rgba(0, 0, 0, 0.2);
+  margin-top: 60px;
+  margin-bottom: 60px;
+}
+d-article section {
+  margin-top: 60px;
+  margin-bottom: 60px;
+}
+
+/* Figure */
+
+d-article figure {
+  position: relative;
+  margin-top: 30px;
+  margin-bottom: 30px;
+}
+@media(min-width: 1024px) {
+  d-article figure {
+    margin-top: 48px;
+    margin-bottom: 48px;
+  }
+}
+d-article figure img {
+  width: 100%;
+}
+d-article figure svg text,
+d-article figure svg tspan {
+}
+d-article figure figcaption {
+  color: rgba(0, 0, 0, 0.6);
+  font-size: 12px;
+  line-height: 1.5em;
+}
+@media(min-width: 1024px) {
+  d-article figure figcaption {
+    font-size: 13px;
+  }
+}
+d-article figure.external img {
+  background: white;
+  border: 1px solid rgba(0, 0, 0, 0.1);
+  box-shadow: 0 1px 8px rgba(0, 0, 0, 0.1);
+  padding: 18px;
+  box-sizing: border-box;
+}
+d-article figure figcaption a {
+  color: rgba(0, 0, 0, 0.6);
+}
+/*d-article figure figcaption::before {
+  position: relative;
+  display: block;
+  top: -20px;
+  content: "";
+  width: 25px;
+  border-top: 1px solid rgba(0, 0, 0, 0.3);
+}*/
+d-article span.equation-mimic {
+  font-family: georgia;
+  font-size: 115%;
+  font-style: italic;
+}
+d-article figure figcaption b {
+  font-weight: 600;
+  color: rgba(0, 0, 0, 1.0);
+}
+d-article > d-code,
+d-article section > d-code  {
+  display: block;
+}
+d-article > d-math[block],
+d-article section > d-math[block]  {
+  display: block;
+}
+d-article .citation {
+  color: #668;
+  cursor: pointer;
+}
+d-include {
+  width: auto;
+  display: block;
+}

src/styles/styles-base.css

@@ -0,0 +1,46 @@
+html {
+  font-size: 20px;
+	line-height: 1rem;
+	font-family: "Libre Franklin", "Helvetica Neue", sans-serif;
+  text-size-adjust: 100%;
+  -ms-text-size-adjust: 100%;
+  -webkit-text-size-adjust: 100%;
+}
+
+body {
+  margin: 0;
+}
+
+a {
+  color: #004276;
+}
+
+figure {
+  margin: 0;
+}
+
+table {
+	border-collapse: collapse;
+	border-spacing: 0;
+}
+
+table th {
+	text-align: left;
+}
+
+table thead {
+  border-bottom: 1px solid rgba(0, 0, 0, 0.05);
+}
+
+table thead th {
+  padding-bottom: 0.5em;
+}
+
+table tbody :first-child td {
+  padding-top: 0.5em;
+}
+
+pre {
+  overflow: auto;
+  max-width: 100%;
+}

src/styles/styles-layout.css

@@ -0,0 +1,331 @@
+@supports not (display: grid) {
+  d-article,
+  d-title,
+  d-byline,
+  d-appendix,
+  distill-footer {
+    display: block;
+    padding: 8px;
+  }
+}
+
+d-article,
+d-title,
+d-byline,
+d-appendix,
+distill-footer {
+  display: grid;
+  justify-items: stretch;
+  grid-template-columns: [start] 8px [margin-left-outset] 8px [margin-left] 1fr [body] 0px [page] 8px [body-outset] 0px [page-outset] 8px [end];
+}
+
+@media(min-width: 768px) {
+
+  d-article,
+  d-title,
+  d-byline,
+  d-appendix,
+  distill-footer {
+    grid-template-columns: [start] 32px [margin-left-outset] 32px [margin-left] 3fr [body] 32px [body-outset] 1fr [page] 32px [page-outset] 32px [end];
+  }
+}
+
+@media(min-width: 1024px) {
+  d-article,
+  d-title,
+  d-byline,
+  d-appendix,
+  distill-footer {
+    grid-template-columns: [start] 1fr [margin-left-outset] 32px [margin-left] 672px [body] 32px [body-outset] 224px [page] 32px [page-outset] 1fr [end];
+  }
+}
+
+d-appendix,
+d-article > d-title,
+d-article > d-title > d-byline,
+d-article > distill-footer {
+  grid-column: start / end;
+}
+
+.l-body,
+d-article > * {
+  grid-column: margin-left / body;
+}
+
+.l-page,
+d-figure {
+  grid-column: margin-left / page;
+}
+
+.l-body-outset {
+  grid-column: margin-left-outset / body-outset;
+}
+
+.l-page-outset {
+  grid-column: margin-left-outset / page-outset;
+}
+
+.l-screen {
+  grid-column: start / end;
+}
+
+.l-screen-inset {
+  grid-column: start / end;
+  padding-left: 16px;
+  padding-left: 16px;
+}
+
+
+/* Aside */
+
+aside {
+  grid-column: margin-left / body;
+}
+
+@media(min-width: 768px) {
+  aside {
+    grid-column: body-outset / page;
+    font-size: 14px;
+    line-height: 1.3;
+  }
+}
+/*
+.l-body,
+.l-page,
+.l-middle,
+d-article > div,
+d-article > p,
+d-article > h1,
+d-article > h2,
+d-article > h3,
+d-article > h4,
+d-article > figure,
+d-article > ul,
+d-article > d-abstract,
+d-article > d-code,
+d-article > d-math,
+d-article > table,
+d-article section > div,
+d-article section > p,
+d-article section > h1,
+d-article section > h2,
+d-article section > h3,
+d-article section > h4,
+d-article section > figure,
+d-article section > ul,
+d-article section > d-abstract,
+d-article section > d-code,
+d-article section > d-math,
+d-article section > table {
+  width: calc(100% - 32px);
+  margin-left: 16px;
+  margin-right: 16px;
+  box-sizing: border-box;
+}
+
+.l-body-outset,
+.l-page-outset,
+.l-middle-outset {
+  width: calc(100% - 16px);
+  margin-left: 8px;
+  margin-right: 8px;
+}
+
+.l-screen {
+  margin-left: 0px;
+  margin-right: 0px;
+  width: 100%;
+  background-color: #F8F8FC;
+  border-top: 1px solid #E8E8EC;
+  border-bottom: 1px solid #E8E8EC;
+}
+
+@media(min-width: 768px) {
+  .l-body,
+  d-article > div,
+  d-article > p,
+  d-article > h1,
+  d-article > h2,
+  d-article > h3,
+  d-article > h4,
+  d-article > figure,
+  d-article > ul,
+  d-article > d-abstract,
+  d-article > d-code,
+  d-article > d-math,
+  d-article > d-math,
+  d-article section > div,
+  d-article section > p,
+  d-article section > h1,
+  d-article section > h2,
+  d-article section > h3,
+  d-article section > h4,
+  d-article section > figure,
+  d-article section > ul,
+  d-article section > d-abstract,
+  d-article section > d-code,
+  d-article section > d-math,
+  d-article section > table {
+    margin-left: 64px;
+    width: calc((100% - 2 * 64px - 3 * 16px)/4*3 + 2*16px );
+  }
+
+  .l-body-outset {
+    margin-left: 32px;
+    width: calc((100% - 2 * 64px - 3 * 16px)/4*3 + 2*16px + 64px );;
+  }
+
+  .l-middle,
+  .l-middle-outset,
+  .l-page {
+    margin-left: 64px;
+    margin-right: 64px;
+    width: calc(100% - 2*64px);
+  }
+
+  .l-page-outset {
+    margin-left: 32px;
+    margin-right: 32px;
+    width: calc(100% - 64px);
+  }
+
+  .margin {
+    font-size: 14px;
+    line-height: normal;
+    clear: both;
+    float: right;
+    margin-top: 0;
+    margin-left: 0;
+    margin-right: 64px;
+    width: calc((100% - 2 * 64px - 3 * 16px)/4);
+  }
+}
+
+@media(min-width: 1024px) {
+  .l-body,
+  d-article > div,
+  d-article > p,
+  d-article > h2,
+  d-article > h3,
+  d-article > h4,
+  d-article > figure,
+  d-article > ul,
+  d-article > d-abstract,
+  d-article > d-code,
+  d-article > d-math,
+  d-article > table,
+  d-article section > div,
+  d-article section > p,
+  d-article section > h2,
+  d-article section > h3,
+  d-article section > h4,
+  d-article section > figure,
+  d-article section > ul,
+  d-article section > d-abstract,
+  d-article section > d-code,
+  d-article section > d-math,
+  d-article section > table {
+    margin-left: calc(50% - (1024px - 2*64px) / 2);
+    width: 668px;
+  }
+
+  .l-body-outset {
+    margin-left: calc((50% - (1024px - 2*64px) / 2) - 32px);
+    width: calc(668px + 64px)
+  }
+
+  .l-middle,
+  .l-middle-outset,
+  .l-page {
+    margin-left: calc(50% - (1024px - 2*64px) / 2);
+    width: calc(100% - 2* (50% - (1024px - 2*64px) / 2));
+  }
+
+  .l-page-outset {
+    margin-left: calc((50% - (1024px - 2*64px) / 2) - 32px);
+    width: calc(100% - 2* (50% - (1024px - 2*64px) / 2) + 64px);
+  }
+
+  .margin {
+    font-size: 14px;
+    line-height: normal;
+    clear: both;
+    float: right;
+    margin-top: 0;
+    margin-left: 0;
+    margin-right: calc(50% - (1024px - 2*64px) / 2);
+    width: 206px;
+  }
+
+
+  /* Side */
+
+  /*
+  .side.l-body,
+  d-article .side.l-body {
+    clear: both;
+    float: right;
+    margin-top: 0;
+    margin-left: 48px;
+    margin-right: calc((100vw - 984px + 648px) / 2);
+    width: calc(648px / 2 - 24px - 84px);
+  }
+  .side.l-body-outset,
+  d-article .side.l-body-outset {
+    clear: both;
+    float: right;
+    margin-top: 0;
+    margin-left: 48px;
+    margin-right: calc((100vw - 984px + 648px - 48px) / 2);
+    width: calc(648px / 2 - 48px + 24px);
+  }
+  .side.l-middle,
+  d-article .side.l-middle {
+    clear: both;
+    float: right;
+    width: calc(456px - 84px);
+    margin-left: 48px;
+    margin-right: calc((100vw - 984px) / 2 + 168px);
+  }
+  .side.l-middle-outset,
+  d-article .side.l-middle-outset {
+    clear: both;
+    float: right;
+    width: 456px;
+    margin-left: 48px;
+    margin-right: calc((100vw - 984px) / 2 + 168px);
+  }
+  .side.l-page,
+  d-article .side.l-page {
+    clear: both;
+    float: right;
+    margin-left: 48px;
+    width: calc(624px - 84px);
+    margin-right: calc((100vw - 984px) / 2);
+  }
+  .side.l-page-outset,
+  d-article .side.l-page-outset {
+    clear: both;
+    float: right;
+    width: 624px;
+    margin-right: calc((100vw - 984px) / 2);
+  }
+}*/
+
+/* Rows and Columns */
+
+.row {
+  display: flex;
+}
+.column {
+  flex: 1;
+  box-sizing: border-box;
+  margin-right: 24px;
+  margin-left: 24px;
+}
+.row > .column:first-of-type {
+  margin-left: 0;
+}
+.row > .column:last-of-type {
+  margin-right: 0;
+}

src/styles/styles-print.css

@@ -0,0 +1,30 @@
+@media print {
+
+  @page {
+    size: 8in 11in;
+    @bottom-right {
+      content: counter(page) " of " counter(pages);
+    }
+  }
+
+  html {
+    /* no general margins -- CSS Grid takes care of those */
+  }
+
+  p, code {
+    page-break-inside: avoid;
+  }
+
+  h2, h3 {
+    page-break-after: avoid;
+  }
+
+  d-header {
+    visibility: hidden;
+  }
+
+  d-footer {
+    display: none!important;
+  }
+
+}

src/styles/styles.js

@@ -0,0 +1,9 @@
+import base from './styles-base.css';
+import layout from './styles-layout.css';
+import article from './styles-article.css';
+import print from './styles-print.css';
+
+let s = document.createElement('style');
+s.textContent =  base + layout + print + article;
+document.querySelector('head').appendChild(s);
+export default s;

src/transforms.js

@@ -0,0 +1,53 @@
+/* eslint-env node, mocha */
+
+/* Extractors */
+import ExtractFrontmatter from './extractors/front-matter';
+import ExtractBibliography from './extractors/bibliography';
+import ExtractCitations from './extractors/citations';
+
+const extractors = [
+  ExtractFrontmatter,
+  ExtractBibliography,
+  ExtractCitations,
+];
+
+/* Transforms */
+import HTML from './transforms/html';
+import Polyfills from './transforms/polyfills';
+import Meta from './transforms/meta';
+import Typeset from './transforms/typeset';
+// import Bibliography from './transforms/bibliography';
+
+const transforms = [
+  HTML, Polyfills, Meta, Typeset//, Bibliography
+];
+
+/* Distill Transforms */
+import DistillHeader from './distill-transforms/distill-header';
+import DistillAppendix from './distill-transforms/distill-appendix';
+import DistillFooter from './distill-transforms/distill-footer';
+
+const distillTransforms = [
+  DistillHeader, DistillAppendix, DistillFooter,
+];
+
+/* Exported functions */
+
+export function render(dom, data) {
+  // first, we collect static data from the dom
+  for (const extract of extractors) {
+    extract(dom, data);
+  }
+  // secondly we use it to transform parts of the dom
+  for (const transform of transforms) {
+    transform(dom, data);
+  }
+  // the function calling us can now use the transformed dom and filled data object
+}
+
+export function distillify(dom, data) {
+  // thirdly, we optionally use these additional transforms when publishing on the Distill website
+  for (const transform of distillTransforms) {
+    transform(dom, data);
+  }
+}

src/transforms/banner.js

@@ -13,11 +13,11 @@ const html = `
 `;
 
 export default function(dom, data) {
-  let banner = dom.createElement("dt-banner");
+  let banner = dom.createElement('dt-banner');
   banner.innerHTML = html;
-  let b = dom.querySelector("body");
+  let b = dom.querySelector('body');
   b.insertBefore(banner, b.firstChild);
-  banner.addEventListener("click", function() {
-    banner.style.display = "none";
+  banner.addEventListener('click', function() {
+    banner.style.display = 'none';
   });
 }

src/transforms/bibliography.js

@@ -0,0 +1,27 @@
+import { renderBibliography, templateString } from '../components/d-bibliography';
+
+export default function(dom, data) {
+  const bibliographyTag = dom.querySelector('d-bibliography');
+  if (!bibliographyTag) {
+    console.warn('No bibliography tag found!');
+    return;
+  }
+
+  const bibliographyEntries = new Map(data.citations.map( citationKey => {
+    const entry = data.bibliography.get(citationKey);
+    return [citationKey, entry];
+  }));
+
+  const prerenderedBibliography = dom.createElement('d-bibliography-prerendered');
+
+
+  const template = dom.createElement('template');
+  template.innerHTML = templateString;
+  const clone = dom.importNode(template.content, true);
+  prerenderedBibliography.innerHTML = template.content;
+  renderBibliography(prerenderedBibliography, bibliographyEntries, dom);
+
+  bibliographyTag.parentElement.insertBefore(bibliographyTag, prerenderedBibliography);
+  bibliographyTag.parentElement.removeChild(bibliographyTag);
+
+}

src/transforms/byline.js

@@ -1,4 +1,4 @@
-import mustache from "mustache";
+import mustache from 'mustache';
 
 const html = `
 <style>
@@ -11,6 +11,8 @@ const html = `
     color: rgba(0, 0, 0, 0.5);
     padding-top: 12px;
     padding-bottom: 12px;
+    min-height: 90px;
+
   }
   dt-article.centered dt-byline {
     text-align: center;
@@ -134,20 +136,16 @@ const template = `
     </div>
     {{/authors}}
   </div>
-  {{#publishedYear}}
   <div class="date">
     <div class="month">{{publishedMonth}}. {{publishedDay}}</div>
     <div class="year">{{publishedYear}}</div>
   </div>
-  {{/publishedYear}}
-  {{#publishedYear}}
   <a class="citation" href="#citation">
     <div>Citation:</div>
     <div>{{concatenatedAuthors}}, {{publishedYear}}</div>
   </a>
-  {{/publishedYear}}
 </div>
-`
+`;
 
 export default function(dom, data) {
   let el = dom.querySelector('dt-byline');

src/transforms/citation.js

@@ -0,0 +1,234 @@
+export default function(dom, data) {
+  let css = `
+    dt-cite {
+      color: hsla(206, 90%, 20%, 0.7);
+    }
+    dt-cite .citation-number {
+      cursor: default;
+      white-space: nowrap;
+      font-family: -apple-system, BlinkMacSystemFont, "Roboto", Helvetica, sans-serif;
+      font-size: 75%;
+      color: hsla(206, 90%, 20%, 0.7);
+      display: inline-block;
+      line-height: 1.1em;
+      text-align: center;
+      position: relative;
+      top: -2px;
+      margin: 0 2px;
+    }
+    figcaption dt-cite .citation-number {
+      font-size: 11px;
+      font-weight: normal;
+      top: -2px;
+      line-height: 1em;
+    }
+  `;
+
+  let style = dom.createElement('style');
+  style.textContent = css;
+  dom.querySelector('body').appendChild(style);
+
+  let citations = data.citations;
+  /*if (data.citations) {
+    citations = Object.keys(data.citations).map(c => data.citations[c]);
+    citations.sort((a, b) => {
+      return a.author.localeCompare(b.author);
+    });
+  }*/
+
+  var citeTags = [].slice.apply(dom.querySelectorAll('dt-cite'));
+  citeTags.forEach((el,n) => {
+    var key = el.getAttribute('key');
+    if (key) {
+      var keys = key.split(',');
+      var cite_string = inline_cite_short(keys);
+      var cite_hover_str = '';
+      keys.map((key,n) => {
+        if (n>0) cite_hover_str += '<br><br>';
+        cite_hover_str += hover_cite(data.bibliography[key]);
+      });
+      cite_hover_str = cite_hover_str.replace(/"/g, '&#39;');
+      var orig_string = el.innerHTML;
+      if (orig_string != '') orig_string += ' ';
+      el.innerHTML = `<span id="citation-${n}" data-hover="${cite_hover_str}">${orig_string}<span class="citation-number">${cite_string}</span></span>`;
+    }
+  });
+
+  let bibEl = dom.querySelector('dt-bibliography');
+  if (bibEl) {
+    let ol = dom.createElement('ol');
+    citations.forEach(key => {
+      let el = dom.createElement('li');
+      el.innerHTML = bibliography_cite(data.bibliography[key]);
+      ol.appendChild(el);
+    });
+    bibEl.appendChild(ol);
+  }
+
+  function inline_cite_short(keys){
+    function cite_string(key){
+      if (key in data.bibliography){
+        var n = data.citations.indexOf(key)+1;
+        return ''+n;
+      } else {
+        return '?';
+      }
+    }
+    return '['+keys.map(cite_string).join(', ')+']';
+  }
+
+  function inline_cite_long(keys){
+    function cite_string(key){
+      if (key in data.bibliography){
+        var ent = data.bibliography[key];
+        var names = ent.author.split(' and ');
+        names = names.map(name => name.split(',')[0].trim());
+        var year = ent.year;
+        if (names.length == 1) return names[0] + ', ' + year;
+        if (names.length == 2) return names[0] + ' & ' + names[1] + ', ' + year;
+        if (names.length  > 2) return names[0] + ', et al., ' + year;
+      } else {
+        return '?';
+      }
+    }
+    return keys.map(cite_string).join(', ');
+  }
+
+  function author_string(ent, template, sep, finalSep){
+    var names = ent.author.split(' and ');
+    let name_strings = names.map(name => {
+      name = name.trim();
+      if (name.indexOf(',') != -1){
+        var last = name.split(',')[0].trim();
+        var firsts = name.split(',')[1];
+      } else {
+        var last = name.split(' ').slice(-1)[0].trim();
+        var firsts = name.split(' ').slice(0,-1).join(' ');
+      }
+      var initials = '';
+      if (firsts != undefined) {
+        initials = firsts.trim().split(' ').map(s => s.trim()[0]);
+        initials = initials.join('.')+'.';
+      }
+      return template.replace('${F}', firsts)
+        .replace('${L}', last)
+        .replace('${I}', initials);
+    });
+    if (names.length > 1) {
+      var str = name_strings.slice(0, names.length-1).join(sep);
+      str += (finalSep || sep) + name_strings[names.length-1];
+      return str;
+    } else {
+      return name_strings[0];
+    }
+  }
+
+  function venue_string(ent) {
+    var cite = (ent.journal || ent.booktitle || '');
+    if ('volume' in ent){
+      var issue = ent.issue || ent.number;
+      issue = (issue != undefined)? '('+issue+')' : '';
+      cite += ', Vol ' + ent.volume + issue;
+    }
+    if ('pages' in ent){
+      cite += ', pp. ' + ent.pages;
+    }
+    if (cite != '') cite += '. ';
+    if ('publisher' in ent){
+      cite += ent.publisher;
+      if (cite[cite.length-1] != '.') cite += '.';
+    }
+    return cite;
+  }
+
+  function link_string(ent){
+    if ('url' in ent){
+      var url = ent.url;
+      var arxiv_match = (/arxiv\.org\/abs\/([0-9\.]*)/).exec(url);
+      if (arxiv_match != null){
+        url = `http://arxiv.org/pdf/${arxiv_match[1]}.pdf`;
+      }
+
+      if (url.slice(-4) == '.pdf'){
+        var label = 'PDF';
+      } else if (url.slice(-5) == '.html') {
+        var label = 'HTML';
+      }
+      return ` &ensp;<a href="${url}">[${label||'link'}]</a>`;
+    }/* else if ("doi" in ent){
+      return ` &ensp;<a href="https://doi.org/${ent.doi}" >[DOI]</a>`;
+    }*/ else {
+      return '';
+    }
+  }
+  function doi_string(ent, new_line){
+    if ('doi' in ent) {
+      return `${new_line?'<br>':''} <a href="https://doi.org/${ent.doi}" style="text-decoration:inherit;">DOI: ${ent.doi}</a>`;
+    } else {
+      return '';
+    }
+  }
+
+  function bibliography_cite(ent, fancy){
+    if (ent){
+      var cite =  '<b>' + ent.title + '</b> ';
+      cite += link_string(ent) + '<br>';
+      cite += author_string(ent, '${L}, ${I}', ', ', ' and ');
+      if (ent.year || ent.date){
+        cite += ', ' + (ent.year || ent.date) + '. ';
+      } else {
+        cite += '. ';
+      }
+      cite += venue_string(ent);
+      cite += doi_string(ent);
+      return cite;
+      /*var cite =  author_string(ent, "${L}, ${I}", ", ", " and ");
+      if (ent.year || ent.date){
+        cite += ", " + (ent.year || ent.date) + ". "
+      } else {
+        cite += ". "
+      }
+      cite += "<b>" + ent.title + "</b>. ";
+      cite += venue_string(ent);
+      cite += doi_string(ent);
+      cite += link_string(ent);
+      return cite*/
+    } else {
+      return '?';
+    }
+  }
+
+  function hover_cite(ent){
+    if (ent){
+      var cite = '';
+      cite += '<b>' + ent.title + '</b>';
+      cite += link_string(ent);
+      cite += '<br>';
+
+      var a_str = author_string(ent, '${I} ${L}', ', ') + '.';
+      var v_str = venue_string(ent).trim() + ' ' + ent.year + '. ' + doi_string(ent, true);
+
+      if ((a_str+v_str).length < Math.min(40, ent.title.length)) {
+        cite += a_str + ' ' + v_str;
+      } else {
+        cite += a_str + '<br>' + v_str;
+      }
+      return cite;
+    } else {
+      return '?';
+    }
+  }
+
+
+  //https://scholar.google.com/scholar?q=allintitle%3ADocument+author%3Aolah
+  function get_GS_URL(ent){
+    if (ent){
+      var names = ent.author.split(' and ');
+      names = names.map(name => name.split(',')[0].trim());
+      var title = ent.title.split(' ');//.replace(/[,:]/, "")
+      var url = 'http://search.labs.crossref.org/dois?';//""https://scholar.google.com/scholar?"
+      url += uris({q: names.join(' ') + ' ' + title.join(' ')});
+    }
+
+  }
+}

src/transforms/code.js

@@ -0,0 +1,29 @@
+import Prism from 'prismjs';
+
+export default function(dom, data) {
+  let codeElements = [].slice.call(dom.querySelectorAll('dt-code'));
+  codeElements.forEach(el => {
+    let content = el.textContent;
+    el.innerHTML = '';
+    let language = el.getAttribute('language');
+    let c = dom.createElement('code');
+    if (el.getAttribute('block') === '') {
+      // Let's normalize the tab indents
+      content = content.replace(/\n/, '');
+      let tabs = content.match(/\s*/);
+      content = content.replace(new RegExp('\n' + tabs, 'g'), '\n');
+      content = content.trim();
+      let p = dom.createElement('pre');
+      p.appendChild(c);
+      el.appendChild(p);
+    } else {
+      el.appendChild(c);
+    }
+    let highlighted = content;
+    if (Prism.languages[language]) {
+      c.setAttribute('class', 'language-' + language);
+      highlighted = Prism.highlight(content, Prism.languages[language]);
+    }
+    c.innerHTML = highlighted;
+  });
+}

src/transforms/footnote.js

@@ -0,0 +1,25 @@
+export default function(dom, data) {
+
+  var fnTags = [].slice.apply(dom.querySelectorAll('dt-fn'));
+  var fnContent = [];
+  fnTags.forEach((el,n) => {
+    var content = el.innerHTML;
+    fnContent.push(content);
+    n = (n+1)+'';
+    var key = 'fn-'+n;
+    var escaped_content = content.replace(/"/g, ''');
+    el.innerHTML = `<sup><span id="${key}" data-hover="${escaped_content}" style="cursor:pointer">${n}</span></sup>`;
+  });
+
+  let fnList = dom.querySelector('dt-fn-list');
+  if (fnList) {
+    let ol = dom.createElement('ol');
+    fnContent.forEach(content => {
+      let el = dom.createElement('li');
+      el.innerHTML = content;
+      ol.appendChild(el);
+    });
+    fnList.appendChild(ol);
+  }
+
+}

src/transforms/front-matter.js

@@ -1,4 +1,4 @@
-import ymlParse from "js-yaml";
+import ymlParse from 'js-yaml';
 
 export default function(dom, data) {
   let localData = {};
@@ -8,27 +8,27 @@ export default function(dom, data) {
     localData = ymlParse.safeLoad(text);
   }
 
-  data.title = localData.title ? localData.title : "Untitled";
-  data.description = localData.description ? localData.description : "No description.";
+  data.title = localData.title ? localData.title : 'Untitled';
+  data.description = localData.description ? localData.description : 'No description.';
 
   data.authors = localData.authors ? localData.authors : [];
 
   data.authors = data.authors.map((author, i) =>{
     let a = {};
     let name = Object.keys(author)[0];
-    if ((typeof author) === "string") {
+    if ((typeof author) === 'string') {
       name = author;
     } else {
       a.personalURL = author[name];
     }
-    let names = name.split(" ");
+    let names = name.split(' ');
     a.name = name;
-    a.firstName = names.slice(0, names.length - 1).join(" ");
+    a.firstName = names.slice(0, names.length - 1).join(' ');
     a.lastName = names[names.length -1];
     if(localData.affiliations[i]) {
       let affiliation = Object.keys(localData.affiliations[i])[0];
-      if ((typeof localData.affiliations[i]) === "string") {
-        affiliation = localData.affiliations[i]
+      if ((typeof localData.affiliations[i]) === 'string') {
+        affiliation = localData.affiliations[i];
       } else {
         a.affiliationURL = localData.affiliations[i][affiliation];
       }

src/transforms/generate-crossref.js

@@ -6,18 +6,18 @@ export default function(data) {
   var date = data.publishedDate;
 
   var batch_timestamp = Math.floor(Date.now() / 1000);
-  var batch_id = data.authors.length ? data.authors[0].lastName.toLowerCase().slice(0,20) : "Anonymous";
-      batch_id += "_" + date.getFullYear();
-      batch_id += "_" + data.title.split(" ")[0].toLowerCase().slice(0,20) + "_" +  batch_timestamp;
+  var batch_id = data.authors.length ? data.authors[0].lastName.toLowerCase().slice(0,20) : 'Anonymous';
+  batch_id += '_' + date.getFullYear();
+  batch_id += '_' + data.title.split(' ')[0].toLowerCase().slice(0,20) + '_' +  batch_timestamp;
   // generate XML
   var crf_data =
     {doi_batch : [
 
       { _attr: {
-        version: "4.3.7",
-        xmlns: "http://www.crossref.org/schema/4.3.7",
-        "xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance",
-        "xsi:schemaLocation": "http://www.crossref.org/schema/4.3.7 http://www.crossref.org/schemas/crossref4.3.7.xsd",
+        version: '4.3.7',
+        xmlns: 'http://www.crossref.org/schema/4.3.7',
+        'xmlns:xsi': 'http://www.w3.org/2001/XMLSchema-instance',
+        'xsi:schemaLocation': 'http://www.crossref.org/schema/4.3.7 http://www.crossref.org/schemas/crossref4.3.7.xsd',
       }},
 
       { head: [
@@ -62,8 +62,8 @@ export default function(data) {
               data.authors.map((author, ind) => (
                 {person_name: [
                   { _attr: {
-                    contributor_role: "author",
-                    sequence: (ind == 0)? "first" : "additional"
+                    contributor_role: 'author',
+                    sequence: (ind == 0)? 'first' : 'additional'
                   }},
                   {given_name: author.firstName},
                   {surname: author.lastName},
@@ -73,9 +73,9 @@ export default function(data) {
               ))
             },
             {publication_date: [
-                {month: date.getMonth()+1},
-                {day: date.getDate()},
-                {year: date.getFullYear()}
+              {month: date.getMonth()+1},
+              {day: date.getDate()},
+              {year: date.getFullYear()}
             ]},
             { publisher_item: [
               {item_number: data.doi}
@@ -87,7 +87,7 @@ export default function(data) {
             ]},
             {citation_list:
               data.citations.map(key =>
-                  citation_xml(key, data.bibliography[key]))
+                citation_xml(key, data.bibliography[key]))
             }
 
           ]},
@@ -103,29 +103,29 @@ function citation_xml(key, ent){
   if (ent == undefined) return {};
   var info = [];
   info.push({_attr: {key: key}});
-  if ("title" in ent)
+  if ('title' in ent)
     info.push({article_title: ent.title});
-  if ("author" in ent)
-    info.push({author: ent.author.split(" and ")[0].split(",")[0].trim()});
-  if ("journal" in ent)
+  if ('author' in ent)
+    info.push({author: ent.author.split(' and ')[0].split(',')[0].trim()});
+  if ('journal' in ent)
     info.push({journal_title: ent.journal});
-  if ("booktitle" in ent)
+  if ('booktitle' in ent)
     info.push({volume_title: ent.booktitle});
-  if ("volume" in ent)
+  if ('volume' in ent)
     info.push({volume: ent.volume});
-  if ("issue" in ent)
+  if ('issue' in ent)
     info.push({issue: ent.issue});
-  if ("doi" in ent)
+  if ('doi' in ent)
     info.push({doi: ent.doi});
-  return {citation: info}
+  return {citation: info};
 }
 
 function xml(obj) {
   //console.log(typeof(obj), obj)
   if (typeof obj === 'string') return obj;
-  if (typeof obj === 'number') return ""+obj;
+  if (typeof obj === 'number') return ''+obj;
   let keys = Object.keys(obj);
-  if (keys.length != 1) console.error("can't interpret ", obj, "as xml");
+  if (keys.length != 1) console.error('can\'t interpret ', obj, 'as xml');
   let name = keys[0];
   var full_content = obj[name];
   var attr = {};
@@ -134,8 +134,8 @@ function xml(obj) {
     for (var i in  full_content) {
       var obj = full_content[i];
       var obj_name = Object.keys(obj)[0];
-      if ("_attr" == obj_name) {
-        attr = obj["_attr"];
+      if ('_attr' == obj_name) {
+        attr = obj['_attr'];
       } else {
         //console.log(Object.keys(obj)[0])
         content.push(obj);
@@ -145,19 +145,19 @@ function xml(obj) {
     content = full_content;
   }
   if (content == undefined){
-    content = "undefined"
+    content = 'undefined';
   }
 
-  let attr_string = "";
+  let attr_string = '';
   for (var k in attr) {
-    attr_string += ` ${k}=\"${attr[k]}\"`
+    attr_string += ` ${k}=\"${attr[k]}\"`;
   }
 
   //console.log(typeof content, Array.isArray(content), content instanceof String, content)
   if (Array.isArray(content)){
     content = content.map(xml);
-    content = content.join("\n").split("\n");
-    content = content.map(s => "  " + s).join("\n")
+    content = content.join('\n').split('\n');
+    content = content.map(s => '  ' + s).join('\n');
     var result = `<${name}${attr_string}>\n${content}\n</${name}>`;
   } else {
     content = xml(content);

src/transforms/helpers/bibtex.js

@@ -0,0 +1,33 @@
+import bibtexParse from 'bibtex-parse-js';
+
+function normalizeTag(string) {
+  return string
+    .replace(/[\t\n ]+/g, ' ')
+    .replace(/{\\["^`.'acu~Hvs]( )?([a-zA-Z])}/g, (full, x, char) => char)
+    .replace(/{\\([a-zA-Z])}/g, (full, char) => char);
+}
+
+export function parseBibtex(bibtex) {
+  const bibliography = new Map();
+  const parsedEntries = bibtexParse.toJSON(bibtex);
+  for (const entry of parsedEntries) {
+    // normalize tags; note entryTags is an object, not Map
+    for (const [key, value] of Object.entries(entry.entryTags)) {
+      entry.entryTags[key] = normalizeTag(value);
+    }
+    entry.entryTags.type = entry.entryType;
+    // add to bibliography
+    bibliography.set(entry.citationKey, entry.entryTags);
+  }
+  return bibliography;
+}
+
+export function serializeFrontmatterToBibtex(frontMatter) {
+  return `@article{${frontMatter.slug},
+  author = {${frontMatter.bibtexAuthors}},
+  title = {${frontMatter.title}},
+  journal = {${frontMatter.journal.title}},
+  year = {${frontMatter.publishedYear}},
+  note = {${frontMatter.url}}
+}`;
+}

src/transforms/helpers/citation.js

@@ -0,0 +1,165 @@
+export function inline_cite_short(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var n = data.citations.indexOf(key)+1;
+      return ''+n;
+    } else {
+      return '?';
+    }
+  }
+  return '['+keys.map(cite_string).join(', ')+']';
+}
+
+export function inline_cite_long(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var ent = data.bibliography[key];
+      var names = ent.author.split(' and ');
+      names = names.map(name => name.split(',')[0].trim());
+      var year = ent.year;
+      if (names.length == 1) return names[0] + ', ' + year;
+      if (names.length == 2) return names[0] + ' & ' + names[1] + ', ' + year;
+      if (names.length  > 2) return names[0] + ', et al., ' + year;
+    } else {
+      return '?';
+    }
+  }
+  return keys.map(cite_string).join(', ');
+}
+
+function author_string(ent, template, sep, finalSep){
+  var names = ent.author.split(' and ');
+  let name_strings = names.map(name => {
+    name = name.trim();
+    if (name.indexOf(',') != -1){
+      var last = name.split(',')[0].trim();
+      var firsts = name.split(',')[1];
+    } else {
+      var last = name.split(' ').slice(-1)[0].trim();
+      var firsts = name.split(' ').slice(0,-1).join(' ');
+    }
+    var initials = '';
+    if (firsts != undefined) {
+      initials = firsts.trim().split(' ').map(s => s.trim()[0]);
+      initials = initials.join('.')+'.';
+    }
+    return template.replace('${F}', firsts)
+      .replace('${L}', last)
+      .replace('${I}', initials);
+  });
+  if (names.length > 1) {
+    var str = name_strings.slice(0, names.length-1).join(sep);
+    str += (finalSep || sep) + name_strings[names.length-1];
+    return str;
+  } else {
+    return name_strings[0];
+  }
+}
+
+function venue_string(ent) {
+  var cite = (ent.journal || ent.booktitle || '');
+  if ('volume' in ent){
+    var issue = ent.issue || ent.number;
+    issue = (issue != undefined)? '('+issue+')' : '';
+    cite += ', Vol ' + ent.volume + issue;
+  }
+  if ('pages' in ent){
+    cite += ', pp. ' + ent.pages;
+  }
+  if (cite != '') cite += '. ';
+  if ('publisher' in ent){
+    cite += ent.publisher;
+    if (cite[cite.length-1] != '.') cite += '.';
+  }
+  return cite;
+}
+
+function link_string(ent){
+  if ('url' in ent){
+    var url = ent.url;
+    var arxiv_match = (/arxiv\.org\/abs\/([0-9\.]*)/).exec(url);
+    if (arxiv_match != null){
+      url = `http://arxiv.org/pdf/${arxiv_match[1]}.pdf`;
+    }
+
+    if (url.slice(-4) == '.pdf'){
+      var label = 'PDF';
+    } else if (url.slice(-5) == '.html') {
+      var label = 'HTML';
+    }
+    return ` &ensp;<a href="${url}">[${label||'link'}]</a>`;
+  }/* else if ("doi" in ent){
+    return ` &ensp;<a href="https://doi.org/${ent.doi}" >[DOI]</a>`;
+  }*/ else {
+    return '';
+  }
+}
+function doi_string(ent, new_line){
+  if ('doi' in ent) {
+    return `${new_line?'<br>':''} <a href="https://doi.org/${ent.doi}" style="text-decoration:inherit;">DOI: ${ent.doi}</a>`;
+  } else {
+    return '';
+  }
+}
+
+export function bibliography_cite(ent, fancy){
+  if (ent){
+    var cite =  '<b>' + ent.title + '</b> ';
+    cite += link_string(ent) + '<br>';
+    cite += author_string(ent, '${L}, ${I}', ', ', ' and ');
+    if (ent.year || ent.date){
+      cite += ', ' + (ent.year || ent.date) + '. ';
+    } else {
+      cite += '. ';
+    }
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    return cite;
+    /*var cite =  author_string(ent, "${L}, ${I}", ", ", " and ");
+    if (ent.year || ent.date){
+      cite += ", " + (ent.year || ent.date) + ". "
+    } else {
+      cite += ". "
+    }
+    cite += "<b>" + ent.title + "</b>. ";
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    cite += link_string(ent);
+    return cite*/
+  } else {
+    return '?';
+  }
+}
+
+export function hover_cite(ent){
+  if (ent){
+    var cite = '';
+    cite += '<b>' + ent.title + '</b>';
+    cite += link_string(ent);
+    cite += '<br>';
+
+    var a_str = author_string(ent, '${I} ${L}', ', ') + '.';
+    var v_str = venue_string(ent).trim() + ' ' + ent.year + '. ' + doi_string(ent, true);
+
+    if ((a_str+v_str).length < Math.min(40, ent.title.length)) {
+      cite += a_str + ' ' + v_str;
+    } else {
+      cite += a_str + '<br>' + v_str;
+    }
+    return cite;
+  } else {
+    return '?';
+  }
+}
+
+
+//https://scholar.google.com/scholar?q=allintitle%3ADocument+author%3Aolah
+function get_GS_URL(ent){
+  if (ent){
+    var names = ent.author.split(' and ');
+    names = names.map(name => name.split(',')[0].trim());
+    var title = ent.title.split(' ');//.replace(/[,:]/, "")
+    var url = 'http://search.labs.crossref.org/dois?';//""https://scholar.google.com/scholar?"
+    url += uris({q: names.join(' ') + ' ' + title.join(' ')});
+  }
+}

src/transforms/helpers/hover-box.js

@@ -0,0 +1,108 @@
+function make_hover_css(pos) {
+  const pretty = window.innerWidth > 600;
+  const padding = pretty? 18 : 12;
+  const outer_padding = pretty ? 18 : 0;
+  const bbox = document.querySelector('body').getBoundingClientRect();
+  let left = pos[0] - bbox.left, top = pos[1] - bbox.top;
+  let width = Math.min(window.innerWidth-2*outer_padding, 648);
+  left = Math.min(left, window.innerWidth-width-outer_padding);
+  width = width - 2 * padding;
+  return (`position: absolute;
+     background-color: #FFF;
+     opacity: 0.95;
+     max-width: ${width}px;
+     top: ${top}px;
+     left: ${left}px;
+     border: 1px solid rgba(0, 0, 0, 0.25);
+     padding: ${padding}px;
+     border-radius: ${pretty? 3 : 0}px;
+     box-shadow: 0px 2px 10px 2px rgba(0, 0, 0, 0.2);
+     z-index: ${1e6};`);
+}
+
+export class HoverBox {
+
+  constructor(contentHTML, triggerElement) {
+    this.visible = false;
+    // div hold teh contents of the box that will become visible
+    this.div = contentHTML;
+    this.bindDivEvents(this.div);
+    // triggerElement holds the element that needs to be hovered etc to show contents
+    this.triggerElement = triggerElement;
+    this.bindTriggerEvents(this.triggerElement);
+    this.hide();
+  }
+
+  bindDivEvents(node) {
+    // For mice, same behavior as hovering on links
+    this.div.addEventListener('mouseover', () => {
+      if (!this.visible) this.showAtNode(node);
+      this.stopTimeout();
+    });
+    this.div.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+    // Don't trigger body touchstart event when touching within box
+    this.div.addEventListener('touchstart', (event) => {
+      event.stopPropagation();
+    }, {passive: true});
+    // Close box when touching outside box
+    document.body.addEventListener('touchstart', () => {
+      this.hide();
+    }, {passive: true});
+  }
+
+  bindTriggerEvents(node) {
+    node.addEventListener('mouseover', () => {
+      if (!this.visible) {
+        this.showAtNode(node);
+      }
+      this.stopTimeout();
+    });
+
+    node.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+
+    node.addEventListener('touchstart', (event) => {
+      if (this.visible) {
+        this.hide();
+      } else {
+        this.showAtNode(node);
+      }
+      // Don't trigger body touchstart event when touching link
+      event.stopPropagation();
+    }, {passive: true});
+  }
+
+  show(position) {
+    this.visible = true;
+    const css = make_hover_css(position);
+    this.div.setAttribute('style', css );
+  }
+
+  showAtNode(node) {
+    const bbox = node.getBoundingClientRect();
+    this.show([bbox.right, bbox.bottom]);
+  }
+
+  hide() {
+    this.visible = false;
+    this.div.setAttribute('style', 'display:none');
+    this.stopTimeout();
+  }
+
+  stopTimeout() {
+    if (this.timeout) {
+      clearTimeout(this.timeout);
+    }
+  }
+
+  extendTimeout(time) {
+    this.stopTimeout();
+    this.timeout = setTimeout(() => {
+      this.hide();
+    }, time);
+  }
+
+}

src/transforms/helpers/layout.js

@@ -0,0 +1,33 @@
+// const marginSmall = 16;
+// const marginLarge = 3 * marginSmall;
+// const margin = marginSmall + marginLarge;
+// const gutter = marginSmall;
+// const outsetAmount = margin / 2;
+// const numCols = 4;
+// const numGutters = numCols - 1;
+// const columnWidth = (768 - 2 * marginLarge - numGutters * gutter) / numCols;
+//
+// const screenwidth = 768;
+// const pageWidth = screenwidth - 2 * marginLarge;
+// const bodyWidth = pageWidth - columnWidth - gutter;
+
+export function body(selector) {
+  return `${selector} {
+      grid-column: margin-left / body;
+    }
+  `;
+}
+
+export function page(selector) {
+  return `${selector} {
+      grid-column: margin-left / page;
+    }
+  `;
+}
+
+export function screen(selector) {
+  return `${selector} {
+    grid-column: start / end;
+  }
+  `;
+}

src/transforms/helpers0/bibtex.js

@@ -0,0 +1,33 @@
+import bibtexParse from 'bibtex-parse-js';
+
+function normalizeTag(string) {
+  return string
+    .replace(/[\t\n ]+/g, ' ')
+    .replace(/{\\["^`.'acu~Hvs]( )?([a-zA-Z])}/g, (full, x, char) => char)
+    .replace(/{\\([a-zA-Z])}/g, (full, char) => char);
+}
+
+export function parseBibtex(bibtex) {
+  const bibliography = new Map();
+  const parsedEntries = bibtexParse.toJSON(bibtex);
+  for (const entry of parsedEntries) {
+    // normalize tags; note entryTags is an object, not Map
+    for (const [key, value] of Object.entries(entry.entryTags)) {
+      entry.entryTags[key] = normalizeTag(value);
+    }
+    entry.entryTags.type = entry.entryType;
+    // add to bibliography
+    bibliography.set(entry.citationKey, entry.entryTags);
+  }
+  return bibliography;
+}
+
+export function serializeFrontmatterToBibtex(frontMatter) {
+  return `@article{${frontMatter.slug},
+  author = {${frontMatter.bibtexAuthors}},
+  title = {${frontMatter.title}},
+  journal = {${frontMatter.journal.title}},
+  year = {${frontMatter.publishedYear}},
+  note = {${frontMatter.url}}
+}`;
+}

src/transforms/helpers0/citation.js

@@ -0,0 +1,165 @@
+export function inline_cite_short(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var n = data.citations.indexOf(key)+1;
+      return ''+n;
+    } else {
+      return '?';
+    }
+  }
+  return '['+keys.map(cite_string).join(', ')+']';
+}
+
+export function inline_cite_long(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var ent = data.bibliography[key];
+      var names = ent.author.split(' and ');
+      names = names.map(name => name.split(',')[0].trim());
+      var year = ent.year;
+      if (names.length == 1) return names[0] + ', ' + year;
+      if (names.length == 2) return names[0] + ' & ' + names[1] + ', ' + year;
+      if (names.length  > 2) return names[0] + ', et al., ' + year;
+    } else {
+      return '?';
+    }
+  }
+  return keys.map(cite_string).join(', ');
+}
+
+function author_string(ent, template, sep, finalSep){
+  var names = ent.author.split(' and ');
+  let name_strings = names.map(name => {
+    name = name.trim();
+    if (name.indexOf(',') != -1){
+      var last = name.split(',')[0].trim();
+      var firsts = name.split(',')[1];
+    } else {
+      var last = name.split(' ').slice(-1)[0].trim();
+      var firsts = name.split(' ').slice(0,-1).join(' ');
+    }
+    var initials = '';
+    if (firsts != undefined) {
+      initials = firsts.trim().split(' ').map(s => s.trim()[0]);
+      initials = initials.join('.')+'.';
+    }
+    return template.replace('${F}', firsts)
+      .replace('${L}', last)
+      .replace('${I}', initials);
+  });
+  if (names.length > 1) {
+    var str = name_strings.slice(0, names.length-1).join(sep);
+    str += (finalSep || sep) + name_strings[names.length-1];
+    return str;
+  } else {
+    return name_strings[0];
+  }
+}
+
+function venue_string(ent) {
+  var cite = (ent.journal || ent.booktitle || '');
+  if ('volume' in ent){
+    var issue = ent.issue || ent.number;
+    issue = (issue != undefined)? '('+issue+')' : '';
+    cite += ', Vol ' + ent.volume + issue;
+  }
+  if ('pages' in ent){
+    cite += ', pp. ' + ent.pages;
+  }
+  if (cite != '') cite += '. ';
+  if ('publisher' in ent){
+    cite += ent.publisher;
+    if (cite[cite.length-1] != '.') cite += '.';
+  }
+  return cite;
+}
+
+function link_string(ent){
+  if ('url' in ent){
+    var url = ent.url;
+    var arxiv_match = (/arxiv\.org\/abs\/([0-9\.]*)/).exec(url);
+    if (arxiv_match != null){
+      url = `http://arxiv.org/pdf/${arxiv_match[1]}.pdf`;
+    }
+
+    if (url.slice(-4) == '.pdf'){
+      var label = 'PDF';
+    } else if (url.slice(-5) == '.html') {
+      var label = 'HTML';
+    }
+    return ` &ensp;<a href="${url}">[${label||'link'}]</a>`;
+  }/* else if ("doi" in ent){
+    return ` &ensp;<a href="https://doi.org/${ent.doi}" >[DOI]</a>`;
+  }*/ else {
+    return '';
+  }
+}
+function doi_string(ent, new_line){
+  if ('doi' in ent) {
+    return `${new_line?'<br>':''} <a href="https://doi.org/${ent.doi}" style="text-decoration:inherit;">DOI: ${ent.doi}</a>`;
+  } else {
+    return '';
+  }
+}
+
+export function bibliography_cite(ent, fancy){
+  if (ent){
+    var cite =  '<b>' + ent.title + '</b> ';
+    cite += link_string(ent) + '<br>';
+    cite += author_string(ent, '${L}, ${I}', ', ', ' and ');
+    if (ent.year || ent.date){
+      cite += ', ' + (ent.year || ent.date) + '. ';
+    } else {
+      cite += '. ';
+    }
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    return cite;
+    /*var cite =  author_string(ent, "${L}, ${I}", ", ", " and ");
+    if (ent.year || ent.date){
+      cite += ", " + (ent.year || ent.date) + ". "
+    } else {
+      cite += ". "
+    }
+    cite += "<b>" + ent.title + "</b>. ";
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    cite += link_string(ent);
+    return cite*/
+  } else {
+    return '?';
+  }
+}
+
+export function hover_cite(ent){
+  if (ent){
+    var cite = '';
+    cite += '<b>' + ent.title + '</b>';
+    cite += link_string(ent);
+    cite += '<br>';
+
+    var a_str = author_string(ent, '${I} ${L}', ', ') + '.';
+    var v_str = venue_string(ent).trim() + ' ' + ent.year + '. ' + doi_string(ent, true);
+
+    if ((a_str+v_str).length < Math.min(40, ent.title.length)) {
+      cite += a_str + ' ' + v_str;
+    } else {
+      cite += a_str + '<br>' + v_str;
+    }
+    return cite;
+  } else {
+    return '?';
+  }
+}
+
+
+//https://scholar.google.com/scholar?q=allintitle%3ADocument+author%3Aolah
+function get_GS_URL(ent){
+  if (ent){
+    var names = ent.author.split(' and ');
+    names = names.map(name => name.split(',')[0].trim());
+    var title = ent.title.split(' ');//.replace(/[,:]/, "")
+    var url = 'http://search.labs.crossref.org/dois?';//""https://scholar.google.com/scholar?"
+    url += uris({q: names.join(' ') + ' ' + title.join(' ')});
+  }
+}

src/transforms/helpers0/hover-box.js

@@ -0,0 +1,108 @@
+function make_hover_css(pos) {
+  const pretty = window.innerWidth > 600;
+  const padding = pretty? 18 : 12;
+  const outer_padding = pretty ? 18 : 0;
+  const bbox = document.querySelector('body').getBoundingClientRect();
+  let left = pos[0] - bbox.left, top = pos[1] - bbox.top;
+  let width = Math.min(window.innerWidth-2*outer_padding, 648);
+  left = Math.min(left, window.innerWidth-width-outer_padding);
+  width = width - 2 * padding;
+  return (`position: absolute;
+     background-color: #FFF;
+     opacity: 0.95;
+     max-width: ${width}px;
+     top: ${top}px;
+     left: ${left}px;
+     border: 1px solid rgba(0, 0, 0, 0.25);
+     padding: ${padding}px;
+     border-radius: ${pretty? 3 : 0}px;
+     box-shadow: 0px 2px 10px 2px rgba(0, 0, 0, 0.2);
+     z-index: ${1e6};`);
+}
+
+export class HoverBox {
+
+  constructor(contentHTML, triggerElement) {
+    this.visible = false;
+    // div hold teh contents of the box that will become visible
+    this.div = contentHTML;
+    this.bindDivEvents(this.div);
+    // triggerElement holds the element that needs to be hovered etc to show contents
+    this.triggerElement = triggerElement;
+    this.bindTriggerEvents(this.triggerElement);
+    this.hide();
+  }
+
+  bindDivEvents(node) {
+    // For mice, same behavior as hovering on links
+    this.div.addEventListener('mouseover', () => {
+      if (!this.visible) this.showAtNode(node);
+      this.stopTimeout();
+    });
+    this.div.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+    // Don't trigger body touchstart event when touching within box
+    this.div.addEventListener('touchstart', (event) => {
+      event.stopPropagation();
+    }, {passive: true});
+    // Close box when touching outside box
+    document.body.addEventListener('touchstart', () => {
+      this.hide();
+    }, {passive: true});
+  }
+
+  bindTriggerEvents(node) {
+    node.addEventListener('mouseover', () => {
+      if (!this.visible) {
+        this.showAtNode(node);
+      }
+      this.stopTimeout();
+    });
+
+    node.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+
+    node.addEventListener('touchstart', (event) => {
+      if (this.visible) {
+        this.hide();
+      } else {
+        this.showAtNode(node);
+      }
+      // Don't trigger body touchstart event when touching link
+      event.stopPropagation();
+    }, {passive: true});
+  }
+
+  show(position) {
+    this.visible = true;
+    const css = make_hover_css(position);
+    this.div.setAttribute('style', css );
+  }
+
+  showAtNode(node) {
+    const bbox = node.getBoundingClientRect();
+    this.show([bbox.right, bbox.bottom]);
+  }
+
+  hide() {
+    this.visible = false;
+    this.div.setAttribute('style', 'display:none');
+    this.stopTimeout();
+  }
+
+  stopTimeout() {
+    if (this.timeout) {
+      clearTimeout(this.timeout);
+    }
+  }
+
+  extendTimeout(time) {
+    this.stopTimeout();
+    this.timeout = setTimeout(() => {
+      this.hide();
+    }, time);
+  }
+
+}

src/transforms/helpers0/layout.js

@@ -0,0 +1,33 @@
+// const marginSmall = 16;
+// const marginLarge = 3 * marginSmall;
+// const margin = marginSmall + marginLarge;
+// const gutter = marginSmall;
+// const outsetAmount = margin / 2;
+// const numCols = 4;
+// const numGutters = numCols - 1;
+// const columnWidth = (768 - 2 * marginLarge - numGutters * gutter) / numCols;
+//
+// const screenwidth = 768;
+// const pageWidth = screenwidth - 2 * marginLarge;
+// const bodyWidth = pageWidth - columnWidth - gutter;
+
+export function body(selector) {
+  return `${selector} {
+      grid-column: margin-left / body;
+    }
+  `;
+}
+
+export function page(selector) {
+  return `${selector} {
+      grid-column: margin-left / page;
+    }
+  `;
+}
+
+export function screen(selector) {
+  return `${selector} {
+    grid-column: start / end;
+  }
+  `;
+}

src/transforms/helpers1/bibtex.js

@@ -0,0 +1,33 @@
+import bibtexParse from 'bibtex-parse-js';
+
+function normalizeTag(string) {
+  return string
+    .replace(/[\t\n ]+/g, ' ')
+    .replace(/{\\["^`.'acu~Hvs]( )?([a-zA-Z])}/g, (full, x, char) => char)
+    .replace(/{\\([a-zA-Z])}/g, (full, char) => char);
+}
+
+export function parseBibtex(bibtex) {
+  const bibliography = new Map();
+  const parsedEntries = bibtexParse.toJSON(bibtex);
+  for (const entry of parsedEntries) {
+    // normalize tags; note entryTags is an object, not Map
+    for (const [key, value] of Object.entries(entry.entryTags)) {
+      entry.entryTags[key] = normalizeTag(value);
+    }
+    entry.entryTags.type = entry.entryType;
+    // add to bibliography
+    bibliography.set(entry.citationKey, entry.entryTags);
+  }
+  return bibliography;
+}
+
+export function serializeFrontmatterToBibtex(frontMatter) {
+  return `@article{${frontMatter.slug},
+  author = {${frontMatter.bibtexAuthors}},
+  title = {${frontMatter.title}},
+  journal = {${frontMatter.journal.title}},
+  year = {${frontMatter.publishedYear}},
+  note = {${frontMatter.url}}
+}`;
+}

src/transforms/helpers1/citation.js

@@ -0,0 +1,165 @@
+export function inline_cite_short(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var n = data.citations.indexOf(key)+1;
+      return ''+n;
+    } else {
+      return '?';
+    }
+  }
+  return '['+keys.map(cite_string).join(', ')+']';
+}
+
+export function inline_cite_long(keys){
+  function cite_string(key){
+    if (key in data.bibliography){
+      var ent = data.bibliography[key];
+      var names = ent.author.split(' and ');
+      names = names.map(name => name.split(',')[0].trim());
+      var year = ent.year;
+      if (names.length == 1) return names[0] + ', ' + year;
+      if (names.length == 2) return names[0] + ' & ' + names[1] + ', ' + year;
+      if (names.length  > 2) return names[0] + ', et al., ' + year;
+    } else {
+      return '?';
+    }
+  }
+  return keys.map(cite_string).join(', ');
+}
+
+function author_string(ent, template, sep, finalSep){
+  var names = ent.author.split(' and ');
+  let name_strings = names.map(name => {
+    name = name.trim();
+    if (name.indexOf(',') != -1){
+      var last = name.split(',')[0].trim();
+      var firsts = name.split(',')[1];
+    } else {
+      var last = name.split(' ').slice(-1)[0].trim();
+      var firsts = name.split(' ').slice(0,-1).join(' ');
+    }
+    var initials = '';
+    if (firsts != undefined) {
+      initials = firsts.trim().split(' ').map(s => s.trim()[0]);
+      initials = initials.join('.')+'.';
+    }
+    return template.replace('${F}', firsts)
+      .replace('${L}', last)
+      .replace('${I}', initials);
+  });
+  if (names.length > 1) {
+    var str = name_strings.slice(0, names.length-1).join(sep);
+    str += (finalSep || sep) + name_strings[names.length-1];
+    return str;
+  } else {
+    return name_strings[0];
+  }
+}
+
+function venue_string(ent) {
+  var cite = (ent.journal || ent.booktitle || '');
+  if ('volume' in ent){
+    var issue = ent.issue || ent.number;
+    issue = (issue != undefined)? '('+issue+')' : '';
+    cite += ', Vol ' + ent.volume + issue;
+  }
+  if ('pages' in ent){
+    cite += ', pp. ' + ent.pages;
+  }
+  if (cite != '') cite += '. ';
+  if ('publisher' in ent){
+    cite += ent.publisher;
+    if (cite[cite.length-1] != '.') cite += '.';
+  }
+  return cite;
+}
+
+function link_string(ent){
+  if ('url' in ent){
+    var url = ent.url;
+    var arxiv_match = (/arxiv\.org\/abs\/([0-9\.]*)/).exec(url);
+    if (arxiv_match != null){
+      url = `http://arxiv.org/pdf/${arxiv_match[1]}.pdf`;
+    }
+
+    if (url.slice(-4) == '.pdf'){
+      var label = 'PDF';
+    } else if (url.slice(-5) == '.html') {
+      var label = 'HTML';
+    }
+    return ` &ensp;<a href="${url}">[${label||'link'}]</a>`;
+  }/* else if ("doi" in ent){
+    return ` &ensp;<a href="https://doi.org/${ent.doi}" >[DOI]</a>`;
+  }*/ else {
+    return '';
+  }
+}
+function doi_string(ent, new_line){
+  if ('doi' in ent) {
+    return `${new_line?'<br>':''} <a href="https://doi.org/${ent.doi}" style="text-decoration:inherit;">DOI: ${ent.doi}</a>`;
+  } else {
+    return '';
+  }
+}
+
+export function bibliography_cite(ent, fancy){
+  if (ent){
+    var cite =  '<b>' + ent.title + '</b> ';
+    cite += link_string(ent) + '<br>';
+    cite += author_string(ent, '${L}, ${I}', ', ', ' and ');
+    if (ent.year || ent.date){
+      cite += ', ' + (ent.year || ent.date) + '. ';
+    } else {
+      cite += '. ';
+    }
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    return cite;
+    /*var cite =  author_string(ent, "${L}, ${I}", ", ", " and ");
+    if (ent.year || ent.date){
+      cite += ", " + (ent.year || ent.date) + ". "
+    } else {
+      cite += ". "
+    }
+    cite += "<b>" + ent.title + "</b>. ";
+    cite += venue_string(ent);
+    cite += doi_string(ent);
+    cite += link_string(ent);
+    return cite*/
+  } else {
+    return '?';
+  }
+}
+
+export function hover_cite(ent){
+  if (ent){
+    var cite = '';
+    cite += '<b>' + ent.title + '</b>';
+    cite += link_string(ent);
+    cite += '<br>';
+
+    var a_str = author_string(ent, '${I} ${L}', ', ') + '.';
+    var v_str = venue_string(ent).trim() + ' ' + ent.year + '. ' + doi_string(ent, true);
+
+    if ((a_str+v_str).length < Math.min(40, ent.title.length)) {
+      cite += a_str + ' ' + v_str;
+    } else {
+      cite += a_str + '<br>' + v_str;
+    }
+    return cite;
+  } else {
+    return '?';
+  }
+}
+
+
+//https://scholar.google.com/scholar?q=allintitle%3ADocument+author%3Aolah
+function get_GS_URL(ent){
+  if (ent){
+    var names = ent.author.split(' and ');
+    names = names.map(name => name.split(',')[0].trim());
+    var title = ent.title.split(' ');//.replace(/[,:]/, "")
+    var url = 'http://search.labs.crossref.org/dois?';//""https://scholar.google.com/scholar?"
+    url += uris({q: names.join(' ') + ' ' + title.join(' ')});
+  }
+}

src/transforms/helpers1/hover-box.js

@@ -0,0 +1,108 @@
+function make_hover_css(pos) {
+  const pretty = window.innerWidth > 600;
+  const padding = pretty? 18 : 12;
+  const outer_padding = pretty ? 18 : 0;
+  const bbox = document.querySelector('body').getBoundingClientRect();
+  let left = pos[0] - bbox.left, top = pos[1] - bbox.top;
+  let width = Math.min(window.innerWidth-2*outer_padding, 648);
+  left = Math.min(left, window.innerWidth-width-outer_padding);
+  width = width - 2 * padding;
+  return (`position: absolute;
+     background-color: #FFF;
+     opacity: 0.95;
+     max-width: ${width}px;
+     top: ${top}px;
+     left: ${left}px;
+     border: 1px solid rgba(0, 0, 0, 0.25);
+     padding: ${padding}px;
+     border-radius: ${pretty? 3 : 0}px;
+     box-shadow: 0px 2px 10px 2px rgba(0, 0, 0, 0.2);
+     z-index: ${1e6};`);
+}
+
+export class HoverBox {
+
+  constructor(contentHTML, triggerElement) {
+    this.visible = false;
+    // div hold teh contents of the box that will become visible
+    this.div = contentHTML;
+    this.bindDivEvents(this.div);
+    // triggerElement holds the element that needs to be hovered etc to show contents
+    this.triggerElement = triggerElement;
+    this.bindTriggerEvents(this.triggerElement);
+    this.hide();
+  }
+
+  bindDivEvents(node) {
+    // For mice, same behavior as hovering on links
+    this.div.addEventListener('mouseover', () => {
+      if (!this.visible) this.showAtNode(node);
+      this.stopTimeout();
+    });
+    this.div.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+    // Don't trigger body touchstart event when touching within box
+    this.div.addEventListener('touchstart', (event) => {
+      event.stopPropagation();
+    }, {passive: true});
+    // Close box when touching outside box
+    document.body.addEventListener('touchstart', () => {
+      this.hide();
+    }, {passive: true});
+  }
+
+  bindTriggerEvents(node) {
+    node.addEventListener('mouseover', () => {
+      if (!this.visible) {
+        this.showAtNode(node);
+      }
+      this.stopTimeout();
+    });
+
+    node.addEventListener('mouseout', () => {
+      this.extendTimeout(250);
+    });
+
+    node.addEventListener('touchstart', (event) => {
+      if (this.visible) {
+        this.hide();
+      } else {
+        this.showAtNode(node);
+      }
+      // Don't trigger body touchstart event when touching link
+      event.stopPropagation();
+    }, {passive: true});
+  }
+
+  show(position) {
+    this.visible = true;
+    const css = make_hover_css(position);
+    this.div.setAttribute('style', css );
+  }
+
+  showAtNode(node) {
+    const bbox = node.getBoundingClientRect();
+    this.show([bbox.right, bbox.bottom]);
+  }
+
+  hide() {
+    this.visible = false;
+    this.div.setAttribute('style', 'display:none');
+    this.stopTimeout();
+  }
+
+  stopTimeout() {
+    if (this.timeout) {
+      clearTimeout(this.timeout);
+    }
+  }
+
+  extendTimeout(time) {
+    this.stopTimeout();
+    this.timeout = setTimeout(() => {
+      this.hide();
+    }, time);
+  }
+
+}

src/transforms/helpers1/layout.js

@@ -0,0 +1,33 @@
+// const marginSmall = 16;
+// const marginLarge = 3 * marginSmall;
+// const margin = marginSmall + marginLarge;
+// const gutter = marginSmall;
+// const outsetAmount = margin / 2;
+// const numCols = 4;
+// const numGutters = numCols - 1;
+// const columnWidth = (768 - 2 * marginLarge - numGutters * gutter) / numCols;
+//
+// const screenwidth = 768;
+// const pageWidth = screenwidth - 2 * marginLarge;
+// const bodyWidth = pageWidth - columnWidth - gutter;
+
+export function body(selector) {
+  return `${selector} {
+      grid-column: margin-left / body;
+    }
+  `;
+}
+
+export function page(selector) {
+  return `${selector} {
+      grid-column: margin-left / page;
+    }
+  `;
+}
+
+export function screen(selector) {
+  return `${selector} {
+    grid-column: start / end;
+  }
+  `;
+}