Add support for JATs specific options

- First option, enable `link-citations` by default since this is used to produce xref elements to citations.

Author: dragonstyle

src/format/formats-shared.ts

@@ -53,6 +53,7 @@ import {
   kLatexMaxRuns,
   kLatexOutputDir,
   kLatexTlmgrOpts,
+  kLinkCitations,
   kLinkExternalIcon,
   kLinkExternalNewwindow,
   kMergeIncludes,
@@ -187,6 +188,18 @@ export function plaintextFormat(displayName: string, ext: string): Format {
   });
 }
 
+export function jatsFormat(displayName: string, ext: string): Format {
+  return createFormat(displayName, ext, {
+    pandoc: {
+      standalone: true,
+      [kDefaultImageExtension]: "png",
+    },
+    metadata: {
+      [kLinkCitations]: true,
+    },
+  });
+}
+
 function defaultFormat(displayName: string): Format {
   return {
     identifier: {

src/format/formats.ts

@@ -27,6 +27,7 @@ import {
   createFormat,
   createHtmlPresentationFormat,
   createWordprocessorFormat,
+  jatsFormat,
   plaintextFormat,
 } from "./formats-shared.ts";
 import { revealjsFormat } from "./reveal/format-reveal.ts";
@@ -173,16 +174,16 @@ export function defaultWriterFormat(to: string): Format {
       break;
 
     case "jats":
-      writerFormat = plaintextFormat("JATS", "xml");
+      writerFormat = jatsFormat("JATS", "xml");
       break;
     case "jats_archiving":
-      writerFormat = plaintextFormat("JATS Archiving", "xml");
+      writerFormat = jatsFormat("JATS Archiving", "xml");
       break;
     case "jats_articleauthoring":
-      writerFormat = plaintextFormat("JATS Authoring", "xml");
+      writerFormat = jatsFormat("JATS Authoring", "xml");
       break;
     case "jats_publishing":
-      writerFormat = plaintextFormat("JATS Publising", "xml");
+      writerFormat = jatsFormat("JATS Publising", "xml");
       break;
 
     case "ipynb":