Skip to content

fix(JATS): Don't duplicate footnote content in abstract #969

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
rgieseke wants to merge 6 commits into
base: master
Choose a base branch
from
Open

fix(JATS): Don't duplicate footnote content in abstract #969

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
6 commits
Select commit Hold shift + click to select a range
a1c71af
fix(JATS): Don't duplicate footnote content in abstract
rgieseke Jul 6, 2021
c36e3c1
Merge branch 'master' into jats-fix-footnote-in-abstract
rgieseke Jul 28, 2021
b52f8db
fix(JATS): Update test snapshot
rgieseke Jul 28, 2021
ed5aae6
Merge branch 'master' into jats-fix-footnote-in-abstract
rgieseke Jul 30, 2021
5e695ab
Merge branch 'master' into jats-fix-footnote-in-abstract
rgieseke Sep 3, 2021
b2e1ebb
Merge branch 'master' into jats-fix-footnote-in-abstract
rgieseke Feb 23, 2022
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
21 changes: 21 additions & 0 deletions src/codecs/jats/__file_snapshots__/footnote.jats.xml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1,21 @@
<?xml version="1.0" encoding="utf-8"?>
<!DOCTYPE article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Archiving and Interchange DTD v1.1 20151215//EN" "JATS-archivearticle1.dtd">
<article xmlns:xlink="http://www.w3.org/1999/xlink" article-type="research-article">
<front>
<article-meta>
<title-group>
<article-title>Untitled</article-title>
</title-group>
<contrib-group/>
<abstract>
<p>The abstract can contain a footnote.</p>
</abstract>
</article-meta>
</front>
<body>
<sec>
<p>Further thoughts below.</p>
</sec>
</body>
<back/>
</article>
31 changes: 31 additions & 0 deletions src/codecs/jats/__file_snapshots__/footnote.yaml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1,31 @@
type: Article
description:
- The abstract can contain a footnote.
- type: Note
id: note-1
noteType: Footnote
content:
- type: Paragraph
id: footnote1
content:
- A footnote from the abstract.
identifiers: []
title: Untitled
meta: {}
content:
- type: Paragraph
content:
- Further
- type: Note
id: note-2
noteType: Footnote
content:
- type: Paragraph
id: footnote2
content:
- 'An '
- type: Strong
content:
- important
- ' footnote.'
- ' thoughts below.'
7 changes: 6 additions & 1 deletion src/codecs/jats/__fixtures__/footnote.xml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,6 +1,11 @@
<?xml version="1.0"?>
<article>
<front>
<abstract>
<p>The abstract can contain a footnote.<fn id="note-1"><p id="footnote1">A footnote from the abstract.</p></fn></p>
</abstract>
</front>
<body>
<p>Further<fn id="note-1"><p id="Ch0.note-1">An <bold>important</bold> footnote.</p></fn> thoughts below.</p>
<p>Further<fn id="note-2"><p id="footnote2">An <bold>important</bold> footnote.</p></fn> thoughts below.</p>
</body>
</article>
2 changes: 1 addition & 1 deletion src/codecs/jats/index.ts
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -509,7 +509,7 @@ function decodeAbstract(
state: DecodeState
): stencila.Article['description'] {
if (elem === null) return undefined
const ps = all(elem, 'p')
const ps = children(elem, 'p')
if (ps.length === 0) return undefined
if (ps.length === 1) {
const content = decodeInlineContent(ps, state)
Expand Down
1 change: 1 addition & 0 deletions src/codecs/jats/jats.test.ts
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -77,6 +77,7 @@ describe('encode: Math', () => {
test.each([
'fig.xml',
'statement.xml',
'footnote.xml',
'quote.xml',
'elife-30274-v1',
'elife-43154-v2',
Expand Down