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Modify JATS reader to handle BITS too (#9138)

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Add provision for title-group, book, book-part-wrapper, book-meta,
book-part-meta, book-title, book-title-group, index, toc, legend,
title, collection-meta
This commit is contained in:
Julia Diaz
2023-10-26 15:18:33 -07:00
committed by GitHub
parent b671e0dfe5
commit f2a22e71df
12 changed files with 1217 additions and 14 deletions
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src/Text/Pandoc/Readers/JATS.hs
+72 -14
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@@ -163,8 +163,10 @@ parseBlock (CRef x) = return $ plain $ str $ T.toUpper x
parseBlock (Elem e) = do
sectionLevel <- gets jatsSectionLevel
let parseBlockWithHeader = wrapWithHeader (sectionLevel+1) (getBlocks e)
case qName (elName e) of
"book" -> parseBook
"book-part-wrapper" -> parseBook
"p" -> parseMixed para (elContent e)
"code" -> codeBlockWithLang
"preformat" -> codeBlockWithLang
@@ -201,6 +203,7 @@ parseBlock (Elem e) = do
"article-meta" -> parseMetadata e
"custom-meta" -> parseMetadata e
"processing-meta" -> return mempty
"book-meta" -> parseMetadata e
"title" -> return mempty -- processed by header
"label" -> return mempty -- processed by header
"table" -> parseTable
@@ -223,6 +226,19 @@ parseBlock (Elem e) = do
then blockFormula displayMath e
else divWith (attrValue "id" e, ["disp-formula"], [])
<$> getBlocks e
"index" -> parseBlockWithHeader
"index-div" -> parseBlockWithHeader
"index-group" -> parseBlockWithHeader
"index-title-group" -> return mempty -- handled by index and index-div
"toc" -> parseBlockWithHeader
"toc-div" -> parseBlockWithHeader
"toc-entry" -> parseBlockWithHeader
"toc-group" -> parseBlockWithHeader
"toc-title-group" -> return mempty -- handled by toc
"legend" -> parseBlockWithHeader
"dedication" -> parseBlockWithHeader
"foreword" -> parseBlockWithHeader
"preface" -> parseBlockWithHeader
"?xml" -> return mempty
_ -> getBlocks e
where parseMixed container conts = do
@@ -368,19 +384,35 @@ parseBlock (Elem e) = do
parseElement = filterChildren isEntry
wrapWithHeader n mBlocks = do
isBook <- gets jatsBook
let n' = if isBook || n == 0 then n + 1 else n
let n' = case (filterChild (named "title") e >>= maybeAttrValue "display-as") of
Just t -> read $ T.unpack t
Nothing -> if isBook || n == 0 then n + 1 else n
headerText <- case filterChild (named "title") e of
Just t -> getInlines t
Nothing -> return mempty
Just t -> case maybeAttrValue "supress" t of
Just s -> if s == "no"
then getInlines t
else return mempty
Nothing -> getInlines t
Nothing -> do
let name = qName (elName e)
if (name == "dedication" || name == "foreword" || name == "preface")
then return $ str $ T.toTitle name
else case filterChild (named "index-title-group") e >>= filterChild (named "title") of
Just i -> getInlines i
Nothing -> case filterChild (named "toc-title-group") e >>= filterChild (named "title") of
Just t -> getInlines t
Nothing -> return mempty
oldN <- gets jatsSectionLevel
modify $ \st -> st{ jatsSectionLevel = n }
blocks <- mBlocks
let ident = attrValue "id" e
modify $ \st -> st{ jatsSectionLevel = oldN }
return $ (if
headerText == mempty
then mempty
else headerWith (ident,[],[]) n' headerText) <> blocks
return $ (if headerText == mempty
then mempty
else headerWith (ident,[],[]) n' headerText) <> blocks
parseBook = do
modify $ \st -> st{ jatsBook = True }
getBlocks e
getInlines :: PandocMonad m => Element -> JATS m Inlines
getInlines e' = trimInlines . mconcat <$>
@@ -388,16 +420,17 @@ getInlines e' = trimInlines . mconcat <$>
parseMetadata :: PandocMonad m => Element -> JATS m Blocks
parseMetadata e = do
getTitle e
getAuthors e
isBook <- gets jatsBook
if isBook then getBookTitle e else getArticleTitle e
if isBook then getBookAuthors e else getArticleAuthors e
getAffiliations e
getAbstract e
getPubDate e
getPermissions e
return mempty
getTitle :: PandocMonad m => Element -> JATS m ()
getTitle e = do
getArticleTitle :: PandocMonad m => Element -> JATS m ()
getArticleTitle e = do
tit <- case filterElement (named "article-title") e of
Just s -> getInlines s
Nothing -> return mempty
@@ -408,8 +441,21 @@ getTitle e = do
when (tit /= mempty) $ addMeta "title" tit
when (subtit /= mempty) $ addMeta "subtitle" subtit
getAuthors :: PandocMonad m => Element -> JATS m ()
getAuthors e = do
getBookTitle :: PandocMonad m => Element -> JATS m ()
getBookTitle e = do
tit <- case (filterElement (named "book-title-group") e >>= filterElement (named "book-title")) of
Just s -> getInlines s
Nothing -> return mempty
subtit <- case (filterElement (named "book-title-group") e >>= filterElement (named "subtitle")) of
Just s -> (text ": " <>) <$>
getInlines s
Nothing -> return mempty
when (tit /= mempty) $ addMeta "title" tit
when (subtit /= mempty) $ addMeta "subtitle" subtit
getArticleAuthors :: PandocMonad m => Element -> JATS m ()
getArticleAuthors e = do
authors <- mapM getContrib $ filterElements
(\x -> named "contrib" x &&
attrValue "contrib-type" x == "author") e
@@ -420,6 +466,18 @@ getAuthors e = do
(a:as, ns) -> reverse as ++ [a <> mconcat ns]
unless (null authors) $ addMeta "author" authors'
getBookAuthors :: PandocMonad m => Element -> JATS m ()
getBookAuthors e = do
authors <- mapM getContrib $ filterElements (\x -> named "contrib-group" x) e
>>= filterElements (\x -> named "contrib" x &&
attrValue "contrib-type" x == "author")
authorNotes <- mapM getInlines $ filterElements (named "author-notes") e
let authors' = case (reverse authors, authorNotes) of
([], _) -> []
(_, []) -> authors
(a:as, ns) -> reverse as ++ [a <> mconcat ns]
unless (null authors) $ addMeta "author" authors'
getAffiliations :: PandocMonad m => Element -> JATS m ()
getAffiliations x = do
affs <- mapM getInlines $ filterChildren (named "aff") x