jats-cli 1.1.0 → 1.1.2

package/README.md

@@ -94,6 +94,6 @@ As of v1.0.0 this package is [ESM only](https://gist.github.com/sindresorhus/a39
 <p style="text-align: center; color: #aaa; padding-top: 50px">
   Made with love by
   <a href="https://continuous.foundation" target="_blank" style="color: #aaa">
-    Continuous Science Foundation <img src="https://continuous.foundation/images/logo-small.svg" style="height: 1em" />
+    Continuous Science Foundation <img src="https://cdn.curvenote.com/static/site/csf/icon.svg" style="height: 1em" />
   </a>
 </p>

package/dist/jats-test.js

@@ -1,6 +1,6 @@
 import { Command, Option } from 'commander';
 import { clirun, tic } from 'myst-cli-utils';
-import yaml from 'js-yaml';
+import { load, dump } from 'js-yaml';
 import fs from 'fs';
 import { select, selectAll } from 'unist-util-select';
 import { is } from 'unist-util-is';
@@ -9,14 +9,12 @@ import { getSession } from 'jats-xml';
 import { parseJats } from './parse.js';
 const INDENT = '       ';
 function printNodes(expected, received) {
-    return chalk.reset(`\n${INDENT}${chalk.greenBright('Expected node containing')}:\n${INDENT}  ${yaml
-        .dump(expected)
-        .replace(/\n/g, `\n${INDENT}  `)}\n${INDENT}${chalk.redBright('Received node')}:\n${INDENT}  ${yaml.dump(received).replace(/\n/g, `\n${INDENT}  `)}`);
+    return chalk.reset(`\n${INDENT}${chalk.greenBright('Expected node containing')}:\n${INDENT}  ${dump(expected).replace(/\n/g, `\n${INDENT}  `)}\n${INDENT}${chalk.redBright('Received node')}:\n${INDENT}  ${dump(received).replace(/\n/g, `\n${INDENT}  `)}`);
 }
 export async function testJatsFile(session, file, opts) {
     const toc = tic();
     const jats = await parseJats(session, file);
-    const tests = yaml.load(fs.readFileSync(opts.cases).toString());
+    const tests = load(fs.readFileSync(opts.cases).toString());
     const results = tests.cases.map((testCase, index) => {
         if (!testCase.title) {
             return [`Test Case ${index}`, null, 'Test must include a title'];

package/dist/jats.cjs

@@ -33957,7 +33957,7 @@ var require_dist_cjs71 = __commonJS({
       Tier: () => Tier,
       TransitionDefaultMinimumObjectSize: () => TransitionDefaultMinimumObjectSize,
       TransitionStorageClass: () => TransitionStorageClass,
-      Type: () => Type2,
+      Type: () => Type,
       UploadPartCommand: () => UploadPartCommand,
       UploadPartCopyCommand: () => UploadPartCopyCommand,
       UploadPartCopyOutputFilterSensitiveLog: () => UploadPartCopyOutputFilterSensitiveLog,
@@ -34060,7 +34060,7 @@ var require_dist_cjs71 = __commonJS({
       Enabled: "Enabled",
       Suspended: "Suspended"
     };
-    var Type2 = {
+    var Type = {
       AmazonCustomerByEmail: "AmazonCustomerByEmail",
       CanonicalUser: "CanonicalUser",
       Group: "Group"
@@ -48999,7 +48999,7 @@ var {
 } = import_index.default;
 
 // src/version.ts
-var version = "1.1.0";
+var version = "1.1.2";
 var version_default = version;
 
 // src/parse.ts
@@ -55916,11 +55916,14 @@ var RuleId;
 })(RuleId || (RuleId = {}));
 
 // ../jats-utils/dist/utils.js
-function convertToUnist(node) {
+function convertToUnist(node, ctx) {
+  var _a;
+  const insidePreformat = (_a = ctx === null || ctx === void 0 ? void 0 : ctx.insidePreformat) !== null && _a !== void 0 ? _a : false;
   switch (node.type) {
     case "element": {
       const { name: name2, attributes, elements } = node;
-      const children = elements === null || elements === void 0 ? void 0 : elements.map(convertToUnist).filter((n) => !!n);
+      const nextInside = insidePreformat || name2 === "preformat";
+      const children = elements === null || elements === void 0 ? void 0 : elements.map((el) => convertToUnist(el, { insidePreformat: nextInside })).filter((n) => !!n);
       const { type: type2, ...attrs } = attributes !== null && attributes !== void 0 ? attributes : {};
       if (type2 !== void 0)
         attrs._type = type2;
@@ -55933,18 +55936,24 @@ function convertToUnist(node) {
     }
     case "text": {
       const { attributes, text } = node;
+      const raw = String(text);
+      if (!insidePreformat && !raw.trim()) {
+        return void 0;
+      }
+      const value = insidePreformat ? raw : raw.replace(/\n(\s+)$/, "");
       return {
         type: "text",
         ...attributes,
-        value: String(text).replace(/\n(\s+)$/, "")
+        value
       };
     }
     case "cdata": {
       const { attributes, cdata } = node;
+      const str2 = String(cdata);
       return {
         type: "cdata",
         ...attributes,
-        cdata: String(cdata).trim()
+        cdata: insidePreformat ? str2 : str2.trim()
       };
     }
     case "comment": {
@@ -58720,10 +58729,29 @@ var tableWrapOrder = order([
 
 // ../jats-xml/dist/jats.js
 function select2(selector, node) {
-  var _a;
-  return (_a = select(selector, node)) !== null && _a !== void 0 ? _a : void 0;
+  var _a, _b;
+  try {
+    return (_a = select(selector, node)) !== null && _a !== void 0 ? _a : void 0;
+  } catch (error) {
+    const nodeType = (_b = node === null || node === void 0 ? void 0 : node.type) !== null && _b !== void 0 ? _b : "(undefined)";
+    const msg = error instanceof Error ? error.message : String(error);
+    throw new Error(`[jats-xml/select] selector="${selector}" nodeType="${nodeType}" failed: ${msg}`);
+  }
 }
 var DEFAULT_DOCTYPE = 'article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Archiving and Interchange DTD with MathML3 v1.3 20210610//EN" "http://jats.nlm.nih.gov/publishing/1.3/JATS-archivearticle1-3-mathml3.dtd"';
+function significantChildElements(elements) {
+  return elements === null || elements === void 0 ? void 0 : elements.filter((elem) => {
+    var _a;
+    if (elem.type === "comment")
+      return false;
+    if (elem.type === "text") {
+      const t2 = String((_a = elem.text) !== null && _a !== void 0 ? _a : "");
+      if (!t2.trim())
+        return false;
+    }
+    return true;
+  });
+}
 var Jats = class {
   constructor(data, opts) {
     var _a, _b;
@@ -58732,13 +58760,18 @@ var Jats = class {
     if (opts === null || opts === void 0 ? void 0 : opts.source)
       this.source = opts.source;
     try {
-      this.raw = (0, import_xml_js3.xml2js)(data, { compact: false });
+      this.raw = (0, import_xml_js3.xml2js)(data, {
+        compact: false,
+        // Preserve whitespace-only text nodes between elements. This is usually unnecessary except inside <preformat>.
+        // convertToUnist drops these outside preformat so other content is processed independent of arbitrary xml whitespace.
+        captureSpacesBetweenElements: true
+      });
     } catch (error) {
       throw new Error("Problem parsing the JATS document, please ensure it is XML");
     }
     const { declaration, elements } = this.raw;
     this.declaration = declaration === null || declaration === void 0 ? void 0 : declaration.attributes;
-    const filteredElements = elements === null || elements === void 0 ? void 0 : elements.filter((elem) => elem.type !== "comment");
+    const filteredElements = significantChildElements(elements);
     if ((filteredElements === null || filteredElements === void 0 ? void 0 : filteredElements.length) && filteredElements[0].type !== "doctype") {
       (_a = this.log) === null || _a === void 0 ? void 0 : _a.warn("JATS is missing DOCTYPE declaration");
       filteredElements.unshift({ type: "doctype" });
@@ -58752,42 +58785,45 @@ var Jats = class {
     (_b = this.log) === null || _b === void 0 ? void 0 : _b.debug(toc("Parsed and converted JATS to unist tree in %s"));
   }
   get frontmatter() {
-    var _a, _b, _c, _d, _e, _f, _g, _h;
+    var _a, _b, _c, _d, _e, _f, _g, _h, _j, _k, _l;
     const title = this.articleTitle;
     const subtitle = this.articleSubtitle;
     const short_title = this.articleAltTitle;
     let date;
-    if (this.publicationDate) {
-      const pubDate = toDate(this.publicationDate);
-      if (pubDate) {
-        const year = pubDate.getFullYear();
-        const month = (pubDate.getMonth() + 1).toString().padStart(2, "0");
-        const day = pubDate.getDate().toString().padStart(2, "0");
+    const preferredDateNode = (_c = (_b = (_a = this.publicationDate) !== null && _a !== void 0 ? _a : this.pubHistoryPubDate) !== null && _b !== void 0 ? _b : this.pubHistoryAcceptedDate) !== null && _c !== void 0 ? _c : this.historyAcceptedDate;
+    if (preferredDateNode) {
+      const d = toDate(preferredDateNode);
+      if (d) {
+        const year = d.getUTCFullYear();
+        const month = (d.getUTCMonth() + 1).toString().padStart(2, "0");
+        const day = d.getUTCDate().toString().padStart(2, "0");
         date = `${year}-${month}-${day}`;
       }
     }
-    const authors = (_a = this.articleAuthors) === null || _a === void 0 ? void 0 : _a.map((auth) => {
+    const authors = (_d = this.articleAuthors) === null || _d === void 0 ? void 0 : _d.map((auth) => {
       return processContributor(auth);
     });
-    const affiliations = (_b = this.articleAffiliations) === null || _b === void 0 ? void 0 : _b.map((aff) => {
+    const affiliations = (_e = this.articleAffiliations) === null || _e === void 0 ? void 0 : _e.map((aff) => {
       return processAffiliation(aff);
     });
-    const keywords = (_d = (_c = this.keywords) === null || _c === void 0 ? void 0 : _c.map((k) => toText(k))) !== null && _d !== void 0 ? _d : [];
-    const firstSubject = select2(Tags.subject, (_e = this.articleCategories) !== null && _e !== void 0 ? _e : this.front);
+    const keywords = (_g = (_f = this.keywords) === null || _f === void 0 ? void 0 : _f.map((k) => toText(k))) !== null && _g !== void 0 ? _g : [];
+    const subjectScope = (_h = this.articleCategories) !== null && _h !== void 0 ? _h : this.front;
+    const journalCollSubject = select2(`${Tags.subjGroup}[subj-group-type="hwp-journal-coll"] ${Tags.subject}`, subjectScope);
+    const articleSubject = journalCollSubject !== null && journalCollSubject !== void 0 ? journalCollSubject : select2(Tags.subject, subjectScope);
     const journalTitle = select2(Tags.journalTitle, this.front);
     const license = this.license;
     let licenseString = null;
     if (license === null || license === void 0 ? void 0 : license["xlink:href"]) {
       licenseString = license["xlink:href"];
-    } else if (select2("[type=ali:license_ref]", license)) {
-      licenseString = toText(select2("[type=ali:license_ref]", license));
+    } else if (license && select2("[type=ali\\:license_ref]", license)) {
+      licenseString = toText(select2("[type=ali\\:license_ref]", license));
     } else if (selectAll("ext-link", license).length === 1) {
-      licenseString = (_f = select2("ext-link", license)["xlink:href"]) !== null && _f !== void 0 ? _f : null;
+      licenseString = (_j = select2("ext-link", license)["xlink:href"]) !== null && _j !== void 0 ? _j : null;
     } else if (license) {
       licenseString = toText(license);
     }
     let openAccess;
-    const licenseType = (_g = license === null || license === void 0 ? void 0 : license["license-type"]) === null || _g === void 0 ? void 0 : _g.toLowerCase();
+    const licenseType = (_k = license === null || license === void 0 ? void 0 : license["license-type"]) === null || _k === void 0 ? void 0 : _k.toLowerCase();
     if (licenseType && ["openaccess", "open-access"].includes(licenseType)) {
       openAccess = true;
     } else if (licenseString === null || licenseString === void 0 ? void 0 : licenseString.match(/^\s*Open Access\s*This/)) {
@@ -58802,7 +58838,7 @@ var Jats = class {
       title: title ? toText(title) : void 0,
       subtitle: subtitle ? toText(subtitle) : void 0,
       short_title: short_title ? toText(short_title) : void 0,
-      doi: (_h = this.doi) !== null && _h !== void 0 ? _h : void 0,
+      doi: (_l = this.doi) !== null && _l !== void 0 ? _l : void 0,
       identifiers,
       date,
       authors: authors.length ? authors : void 0,
@@ -58810,7 +58846,7 @@ var Jats = class {
       affiliations: affiliations.length ? affiliations : void 0,
       keywords: keywords.length ? keywords : void 0,
       venue: journalTitle ? { title: toText(journalTitle) } : void 0,
-      subject: firstSubject ? toText(firstSubject) : void 0,
+      subject: articleSubject ? toText(articleSubject) : void 0,
       license: licenseString !== null && licenseString !== void 0 ? licenseString : void 0,
       open_access: openAccess
     }, { property: "frontmatter", messages: {} });
@@ -58842,6 +58878,49 @@ var Jats = class {
   get publicationDate() {
     return this.publicationDates.find((d) => !!select2(Tags.day, d));
   }
+  /**
+   * JATS `<history>` can include multiple `<date date-type="...">` nodes,
+   * often including an "accepted" date that is a better default for project/page `date`.
+   */
+  get historyDates() {
+    var _a;
+    return selectAll("history date", (_a = this.articleMeta) !== null && _a !== void 0 ? _a : this.front);
+  }
+  get historyAcceptedDate() {
+    const accepted = this.historyDates.find((d) => {
+      var _a;
+      const dt = String((_a = d["date-type"]) !== null && _a !== void 0 ? _a : "").toLowerCase();
+      return dt === "accepted" || dt === "accept";
+    });
+    if (accepted && select2(Tags.day, accepted))
+      return accepted;
+    return void 0;
+  }
+  /**
+   * Some sources store important dates under:
+   * `<article-meta><pub-history><event><date date-type="...">...</date></event></pub-history>`.
+   */
+  get pubHistoryDates() {
+    var _a;
+    return selectAll("pub-history event date", (_a = this.articleMeta) !== null && _a !== void 0 ? _a : this.front);
+  }
+  findPubHistoryDateByType(types3) {
+    const wanted = new Set(types3.map((t2) => t2.toLowerCase()));
+    const found = this.pubHistoryDates.find((d) => {
+      var _a;
+      const dt = String((_a = d["date-type"]) !== null && _a !== void 0 ? _a : "").toLowerCase();
+      return wanted.has(dt);
+    });
+    if (found && select2(Tags.day, found))
+      return found;
+    return void 0;
+  }
+  get pubHistoryPubDate() {
+    return this.findPubHistoryDateByType(["pub", "published", "publication"]);
+  }
+  get pubHistoryAcceptedDate() {
+    return this.findPubHistoryDateByType(["accepted", "accept"]);
+  }
   get license() {
     return select2(Tags.license, this.permissions);
   }
@@ -58905,11 +58984,19 @@ var Jats = class {
   get subArticles() {
     return selectAll(Tags.subArticle, this.tree);
   }
+  /** First `ref-list` in back matter. */
   get refList() {
-    return select2(Tags.refList, this.back);
+    return this.refLists[0];
   }
+  /** All `ref-list` elements under `back`, in document order. */
+  get refLists() {
+    if (!this.back)
+      return [];
+    return selectAll(Tags.refList, this.back);
+  }
+  /** Every `ref` from every `ref-list` under `back`, in document order. */
   get references() {
-    return selectAll(Tags.ref, this.refList);
+    return this.refLists.flatMap((list) => selectAll(Tags.ref, list));
   }
   sort() {
     var _a;
@@ -58943,12 +59030,12 @@ var Jats = class {
   }
 };
 function hasSingleArticle(element) {
-  var _a;
   if (element.name === "article") {
     return true;
   }
-  if (element.name === "pmc-articleset" && ((_a = element.elements) === null || _a === void 0 ? void 0 : _a.length) === 1 && element.elements[0].name === "article") {
-    return true;
+  if (element.name === "pmc-articleset") {
+    const children = significantChildElements(element.elements);
+    return (children === null || children === void 0 ? void 0 : children.length) === 1 && children[0].name === "article";
   }
   return false;
 }
@@ -62513,51 +62600,12 @@ function renamed(from, to) {
     throw new Error("Function yaml." + from + " is removed in js-yaml 4. Use yaml." + to + " instead, which is now safe by default.");
   };
 }
-var Type = type;
-var Schema = schema;
-var FAILSAFE_SCHEMA = failsafe;
-var JSON_SCHEMA = json;
-var CORE_SCHEMA = core;
-var DEFAULT_SCHEMA = _default;
 var load = loader.load;
 var loadAll = loader.loadAll;
 var dump = dumper.dump;
-var YAMLException = exception;
-var types3 = {
-  binary,
-  float,
-  map,
-  null: _null,
-  pairs,
-  set,
-  timestamp,
-  bool,
-  int,
-  merge,
-  omap,
-  seq,
-  str
-};
 var safeLoad = renamed("safeLoad", "load");
 var safeLoadAll = renamed("safeLoadAll", "loadAll");
 var safeDump = renamed("safeDump", "dump");
-var jsYaml = {
-  Type,
-  Schema,
-  FAILSAFE_SCHEMA,
-  JSON_SCHEMA,
-  CORE_SCHEMA,
-  DEFAULT_SCHEMA,
-  load,
-  loadAll,
-  dump,
-  YAMLException,
-  types: types3,
-  safeLoad,
-  safeLoadAll,
-  safeDump
-};
-var js_yaml_default = jsYaml;
 
 // src/jats-test.ts
 var import_fs3 = __toESM(require("fs"), 1);
@@ -62566,19 +62614,21 @@ function printNodes(expected, received) {
   return source_default2.reset(
     `
 ${INDENT}${source_default2.greenBright("Expected node containing")}:
-${INDENT}  ${js_yaml_default.dump(expected).replace(/\n/g, `
+${INDENT}  ${dump(
+      expected
+    ).replace(/\n/g, `
 ${INDENT}  `)}
 ${INDENT}${source_default2.redBright(
       "Received node"
     )}:
-${INDENT}  ${js_yaml_default.dump(received).replace(/\n/g, `
+${INDENT}  ${dump(received).replace(/\n/g, `
 ${INDENT}  `)}`
   );
 }
 async function testJatsFile(session, file, opts) {
   const toc = tic();
   const jats = await parseJats(session, file);
-  const tests = js_yaml_default.load(import_fs3.default.readFileSync(opts.cases).toString());
+  const tests = load(import_fs3.default.readFileSync(opts.cases).toString());
   const results = tests.cases.map((testCase, index2) => {
     if (!testCase.title) {
       return [`Test Case ${index2}`, null, "Test must include a title"];
@@ -63537,7 +63587,7 @@ var defaultPseudoSignature = {
   type: "String",
   optional: true
 };
-function calculatePseudoSignature(types4) {
+function calculatePseudoSignature(types3) {
   var result = {
     type: "NoArgument",
     optional: false
@@ -63548,7 +63598,7 @@ function calculatePseudoSignature(types4) {
     }
     result.type = type3;
   }
-  for (var _i = 0, types_1 = types4; _i < types_1.length; _i++) {
+  for (var _i = 0, types_1 = types3; _i < types_1.length; _i++) {
     var type2 = types_1[_i];
     if (type2 === "NoArgument") {
       result.optional = true;
@@ -64980,18 +65030,20 @@ var import_xml_js4 = __toESM(require_lib2(), 1);
 
 // ../jats-convert/dist/transforms/admonitions.js
 function admonitionTransform(tree, file) {
-  const captions = selectAll2(`${Tags.boxedText} > ${Tags.caption}`, tree);
-  captions.forEach((caption) => {
-    const title = select3(Tags.title, caption);
+  const boxedTexts = selectAll2(Tags.boxedText, tree);
+  boxedTexts.forEach((boxedText) => {
+    const caption = select3(`${Tags.caption}`, boxedText);
+    const title = caption ? select3(Tags.title, caption) : select3(Tags.title, boxedText);
     if (!title) {
       fileWarn(file, "Encountered boxed-text without title", {
-        node: caption,
+        node: boxedText,
         ruleId: RuleId.jatsParses
       });
-      return;
+    } else {
+      const nodeToReplace = caption !== null && caption !== void 0 ? caption : title;
+      nodeToReplace.type = "admonitionTitle";
+      nodeToReplace.children = title.children;
     }
-    caption.type = "admonitionTitle";
-    caption.children = title.children;
   });
   const noCaptions = selectAll2(`${Tags.boxedText} > ${Tags.caption}`, tree);
   noCaptions.forEach((caption) => {
@@ -65004,6 +65056,20 @@ function admonitionTransform(tree, file) {
 function toText2(node) {
   return toText(node);
 }
+function toTextPreserveWhitespace(node) {
+  if (!node)
+    return "";
+  if (typeof node === "string")
+    return node;
+  if (typeof node.value === "string")
+    return node.value;
+  if (typeof node.cdata === "string")
+    return node.cdata;
+  const children = node.children;
+  if (!children || children.length === 0)
+    return "";
+  return children.map((child) => toTextPreserveWhitespace(child)).join("");
+}
 function copyNode2(node) {
   return copyNode(node);
 }
@@ -65725,7 +65791,7 @@ function journalTransforms(fullTree, body) {
 }
 
 // ../jats-convert/dist/version.js
-var version3 = "1.1.0";
+var version3 = "1.1.2";
 var version_default3 = version3;
 
 // ../jats-convert/dist/myst/inlineCitations.js
@@ -65959,6 +66025,14 @@ function abbreviationsFromTree(tree, frontmatter) {
 function maybeStopWord(word) {
   return word.length < 5;
 }
+function isQuotedParentheticalLabel(abbr) {
+  var _a, _b;
+  const t2 = abbr.trim();
+  if (!t2)
+    return false;
+  const mark = /\p{Quotation_Mark}/u;
+  return mark.test((_a = t2[0]) !== null && _a !== void 0 ? _a : "") || mark.test((_b = t2[t2.length - 1]) !== null && _b !== void 0 ? _b : "");
+}
 function exploreAbbrPossibilities(letter, possibilities) {
   const newPossibilities = [];
   possibilities.forEach(({ prev, next }) => {
@@ -65988,7 +66062,7 @@ function abbreviationsFromText(text) {
   textList.forEach((word, index2) => {
     var _a;
     const abbr = (_a = word.match(/^\(([^\s]{2,})\).{0,1}/)) === null || _a === void 0 ? void 0 : _a[1];
-    if (!abbr)
+    if (!abbr || isQuotedParentheticalLabel(abbr) || doi.validate(abbr.trim()) || isUrl(abbr.trim()))
       return;
     const possibleWords = [];
     let wordIndex = index2 - 1;
@@ -66117,8 +66191,11 @@ var handlers = {
   // },
   // code(node, state) {
   //   const { lang } = node as Code;
-  //   state.renderInline(node, 'code', { language: lang });
+  //   state.renderInline(node, 'code', { lang });
   // },
+  preformat(node, state2) {
+    state2.addLeaf("code", { value: toTextPreserveWhitespace(node), lang: "text" });
+  },
   list(node, state2) {
     state2.renderInline(node, "list", {
       ordered: node["list-type"] === "ordered"
@@ -66249,6 +66326,10 @@ var handlers = {
     const link = node === null || node === void 0 ? void 0 : node["xlink:href"];
     state2.addLeaf("image", { url: link });
   },
+  ["inline-graphic"](node, state2) {
+    const link = node === null || node === void 0 ? void 0 : node["xlink:href"];
+    state2.addLeaf("image", { url: link });
+  },
   fig(node, state2) {
     var _a;
     const caption = select3("caption", node);
@@ -66726,15 +66807,15 @@ async function jatsConvert(session, input, opts) {
   const logJson = import_node_path10.default.join(dir, `${basename}.log.json`);
   const logYml = import_node_path10.default.join(dir, `${basename}.log.yml`);
   import_node_fs11.default.writeFileSync(logJson, JSON.stringify(logInfo, null, 2));
-  import_node_fs11.default.writeFileSync(logYml, js_yaml_default.dump(logInfo));
+  import_node_fs11.default.writeFileSync(logYml, dump(logInfo));
   if ((opts === null || opts === void 0 ? void 0 : opts.frontmatter) === "page") {
     import_node_fs11.default.writeFileSync(mystJson, JSON.stringify({ mdast: tree, frontmatter }, null, 2));
   } else if ((opts === null || opts === void 0 ? void 0 : opts.frontmatter) === "project") {
     if (import_node_fs11.default.existsSync(mystYml)) {
-      const previous = js_yaml_default.load(import_node_fs11.default.readFileSync(mystYml).toString());
-      import_node_fs11.default.writeFileSync(mystYml, js_yaml_default.dump({ ...previous, project: { ...previous.project, ...frontmatter } }));
+      const previous = load(import_node_fs11.default.readFileSync(mystYml).toString());
+      import_node_fs11.default.writeFileSync(mystYml, dump({ ...previous, project: { ...previous.project, ...frontmatter } }));
     } else {
-      import_node_fs11.default.writeFileSync(mystYml, js_yaml_default.dump({ version: 1, project: frontmatter, site: {} }));
+      import_node_fs11.default.writeFileSync(mystYml, dump({ version: 1, project: frontmatter, site: {} }));
     }
     import_node_fs11.default.writeFileSync(mystJson, JSON.stringify({ mdast: tree, frontmatter: { title: frontmatter.title } }, null, 2));
   } else {

package/dist/version.d.ts

@@ -1,3 +1,3 @@
-declare const version = "1.1.0";
+declare const version = "1.1.2";
 export default version;
 //# sourceMappingURL=version.d.ts.map

package/dist/version.js

@@ -1,2 +1,2 @@
-const version = '1.1.0';
+const version = '1.1.2';
 export default version;

package/package.json

@@ -1,8 +1,8 @@
 {
   "name": "jats-cli",
-  "version": "1.1.0",
+  "version": "1.1.2",
   "description": "Typescript CLI for with JATS",
-  "author": "Rowan Cockett <rowan@continuous.foundation>",
+  "author": "Rowan Cockett <rowan@continuousfoundation.org>",
   "homepage": "https://github.com/continuous-foundation/jats",
   "license": "MIT",
   "sideEffects": false,
@@ -45,11 +45,11 @@
   "dependencies": {
     "doi-utils": "^2.0.6",
     "fair-principles": "^2.0.0",
-    "jats-convert": "^1.1.0",
-    "jats-fetch": "^1.1.0",
-    "jats-tags": "^1.1.0",
-    "jats-utils": "^1.1.0",
-    "jats-xml": "^1.1.0",
+    "jats-convert": "^1.1.2",
+    "jats-fetch": "^1.1.2",
+    "jats-tags": "^1.1.2",
+    "jats-utils": "^1.1.2",
+    "jats-xml": "^1.1.2",
     "js-yaml": "^4.1.0",
     "unist-util-is": "^5.2.1",
     "unist-util-select": "^4.0.0"