Pandoc: export to JATS XML

Author: dhimmel

.gitmodules

@@ -1,3 +1,6 @@
 [submodule "ci/opentimestamps-client"]
 	path = ci/opentimestamps-client
 	url = https://github.com/opentimestamps/opentimestamps-client.git
+[submodule "build/assets/pandoc-jats"]
+	path = build/assets/pandoc-jats
+	url = https://github.com/mfenner/pandoc-jats

build/assets/pandoc-jats

@@ -51,6 +51,23 @@ wkhtmltopdf \
   webpage/index.html \
   output/manuscript.pdf
 
+# Create JATS XML output
+# https://github.com/mfenner/pandoc-jats
+echo "Exporting JATS XML manuscript"
+pandoc --verbose \
+  --smart \
+  --from=markdown \
+  --to=build/assets/pandoc-jats/JATS.lua \
+  --filter pandoc-fignos \
+  --filter pandoc-eqnos \
+  --filter pandoc-tablenos \
+  --template=build/assets/pandoc-jats/default.jats \
+  --bibliography=$BIBLIOGRAPHY_PATH \
+  --csl=$CSL_PATH \
+  --metadata link-citations=true \
+  --output=output/manuscript.xml \
+  $INPUT_PATH
+
 # Create DOCX output when user specifies to do so
 if [ "$BUILD_DOCX" = "true" ];
 then

build/build.sh

@@ -13,4 +13,4 @@ This directory contains the following files:
 + [`references.json`](references.json) is CSL-JSON file of bibliographic item metadata ([see specification](https://github.com/citation-style-language/schema/blob/master/csl-data.json)) for all references.
 + [`variables.json`](variables.json) contains variables that were passed to the jinja2 templater. These variables contain those automatically generated by the manubot as well as those provided by the user via the `--template-variables-path` option.
 
-Pandoc consumes `manuscript.md` and `references.json` to create the formatted manuscript, which is exported to `manuscript.html`, `manuscript.pdf`, and optionally `manuscript.docx`.
+Pandoc consumes `manuscript.md` and `references.json` to create the formatted manuscript, which is exported to `manuscript.html`, `manuscript.pdf`, `manuscript.xml`, and optionally `manuscript.docx`.