The Jats reader does not parse multiple bodies or parse the footer's content

[noahmalmed]

Description

This is an issue sprung from a PR comment.

Essentially, the code assumes there is only one body in a table ([when there can be many](Table Body (NISO JATS table model), one or more)) and fully skips parsing any of the content from the table footer.

Here are the areas of code that will most likely need to change.

Here we pass in an empty list where we should be passing in a list of parsed Rows from the xml

Here we only filter for one child called tbody but we should be filtering for multiple tbodys so we can parse them if they exist

Running Pandoc

Text XML:

<table>
    <col align="left" />
    <col align="left" />
    <col align="left" />
    <thead>
        <tr>
            <td>
                <p>1</p>
            </td>
            <td>
                <p>2</p>
            </td>
            <td>
                <p>3</p>
            </td>
        </tr>
    </thead>
    <tbody>
        <tr>
            <td>
                <p>a</p>
            </td>
            <td>
                <p>b</p>
            </td>
            <td>
                <p>c</p>
            </td>
        </tr>
    </tbody>
    <tfoot>
        <tr>
            <td>footer 1</td>
            <td>footer 2</td>
            <td>footer 3</td>
        </tr>
    </tfoot>
</table>

Pandoc native output:

[ Table
    ( "" , [] , [] )
    (Caption Nothing [])
    [ ( AlignLeft , ColWidthDefault )
    , ( AlignLeft , ColWidthDefault )
    , ( AlignLeft , ColWidthDefault )
    ]
    (TableHead
       ( "" , [] , [] )
       [ Row
           ( "" , [] , [] )
           [ Cell
               ( "" , [] , [] )
               AlignDefault
               (RowSpan 1)
               (ColSpan 1)
               [ Para [ Str "1" ] ]
           , Cell
               ( "" , [] , [] )
               AlignDefault
               (RowSpan 1)
               (ColSpan 1)
               [ Para [ Str "2" ] ]
           , Cell
               ( "" , [] , [] )
               AlignDefault
               (RowSpan 1)
               (ColSpan 1)
               [ Para [ Str "3" ] ]
           ]
       ])
    [ TableBody
        ( "" , [] , [] )
        (RowHeadColumns 0)
        []
        [ Row
            ( "" , [] , [] )
            [ Cell
                ( "" , [] , [] )
                AlignDefault
                (RowSpan 1)
                (ColSpan 1)
                [ Para [ Str "a" ] ]
            , Cell
                ( "" , [] , [] )
                AlignDefault
                (RowSpan 1)
                (ColSpan 1)
                [ Para [ Str "b" ] ]
            , Cell
                ( "" , [] , [] )
                AlignDefault
                (RowSpan 1)
                (ColSpan 1)
                [ Para [ Str "c" ] ]
            ]
        ]
    ]
    (TableFoot ( "" , [] , [] ) [])
]

Note: only one tbody is parsed into the Pandoc AST and no content from the tfoot is parsed into the Pandoc AST

Pandoc version?
pandoc 3.1.2, MacOS Monterey