Closed coltongearhart closed 11 months ago
cscheid
commented
11 months ago You have data-quarto-disable-processing="true", so Quarto is not going to process the content of the table. I'm not quite sure why you were expecting Quarto to process the contents of the table with that input.
cscheid
commented
11 months ago With that said, it is surprising to me that Pandoc's table reader does not appear to be inserting Math elements inside table header elements. We can see that Pandoc parses the HTML table into the following AST (using head(iris) for brevity):
- t: "Table"
attr: "('', ['table', 'table-striped'], ['quarto-postprocess,true', 'style,width: auto !important; '])"
caption:
- null
- []
colspecs:
- "(AlignRight, undefined)"
- "(AlignRight, undefined)"
- "(AlignRight, undefined)"
- "(AlignRight, undefined)"
- "(AlignLeft, undefined)"
head:
t: "TableHead"
attr: "('', [], [])"
rows:
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], ['quarto-table-cell-role,th'])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "$X$"
- t: "TableCell"
attr: "('', [], ['quarto-table-cell-role,th'])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "$f(X) = E(Y \\mid X)$"
- t: "TableCell"
attr: "('', [], ['quarto-table-cell-role,th'])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "$\\epsilon \\sim N(0,1)$"
- t: "TableCell"
attr: "('', [], ['quarto-table-cell-role,th'])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "$Y = f(X) + \\epsilon$"
- t: "TableCell"
attr: "('', [], ['quarto-table-cell-role,th'])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "$\\beta$"
body:
- t: "TableBody"
row_head_columns: 0
attr: "('', [], [])"
intermediate_head: []
body:
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "5.1"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "3.5"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "1.4"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "0.2"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "setosa"
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "4.9"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "3.0"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "1.4"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "0.2"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "setosa"
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "4.7"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "3.2"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "1.3"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "0.2"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "setosa"
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "4.6"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "3.1"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "1.5"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "0.2"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "setosa"
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "5.0"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "3.6"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "1.4"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "0.2"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "setosa"
- t: "TableRow"
attr: "('', [], [])"
cells:
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "5.4"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "3.9"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "1.7"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignRight"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "0.4"
- t: "TableCell"
attr: "('', [], [])"
alignment: "AlignLeft"
row_span: 1
col_span: 1
content:
- t: "Plain"
content: "setosa"
foot:
t: "TableFoot"
attr: "('', [], [])"
rows: []This isn't a regression from 1.3, from what I can tell. And, on further reflection, the behavior makes sense - the HTML format really doesn't support Math blocks like that, so I shouldn't expect Pandoc to parse it naturally.
I'm pretty confident this is correct behavior: kable (or kableExtra? I don't know who's ultimately responsible when both are used) is emitting HTML (as you can see with keep-md: true), and HTML doesn't support math blocks. If you want to use latex content, you'll need to find a different way to do it.
The way to do this in Quarto is to have the library emit markdown content inside a span with data-qmd attribute. But kable properly escapes table names, so you can't simply write
head(iris) %>%
kable(col.names = c("<span data-qmd='$X$'></span>",...I don't know what the solution for your problem is here besides figuring out how to make the libraries emit the correct output, but this isn't a bug in the behavior of quarto.
cscheid
commented
11 months ago Here's the output from keep-md: true:
```{.r .cell-code}
# some random latex commands in the col.names argument of some table, in this case iris data for MWE
head(iris) %>%
kable(col.names = c("<span data-qmd='$X$'></span>", "$f(X) = E(Y \\mid X)$", "$\\epsilon \\sim N(0,1)$", "$Y = f(X) + \\epsilon$", "$\\beta$")) %>%
kableExtra::kable_styling(bootstrap_options = "striped",
full_width = FALSE,
position = "left")::: {.cell-output-display}
<table class="table table-striped" style="width: auto !important; ">
<thead>
<tr>
<th style="text-align:right;"> <span data-qmd='$X$'></span> </th>
<th style="text-align:right;"> $f(X) = E(Y \mid X)$ </th>
<th style="text-align:right;"> $\epsilon \sim N(0,1)$ </th>
<th style="text-align:right;"> $Y = f(X) + \epsilon$ </th>
<th style="text-align:left;"> $\beta$ </th>
...
Bug description
Solution discussed in quarto-dev/quarto-cli/issues/5737 does not correct the processing of latex commands in col.names argument of kable()
Steps to reproduce
title: "Untitled" format: html
Expected behavior
Output of rendered html table should look like that of the inline output.
Actual behavior
Output of rendered html table should look has unprocessed column names.
Your environment
Quarto check output
[✓] Checking versions of quarto binary dependencies... Pandoc version 3.1.9: OK Dart Sass version 1.69.5: OK Deno version 1.37.2: OK [✓] Checking versions of quarto dependencies......OK [✓] Checking Quarto installation......OK Version: 1.4.517 Path: /Applications/quarto/bin
[✓] Checking tools....................OK TinyTeX: (not installed) Chromium: (not installed)
[✓] Checking LaTeX....................OK Using: Installation From Path Path: /Library/TeX/texbin Version: 2018
[✓] Checking basic markdown render....OK
[✓] Checking Python 3 installation....OK Version: 3.11.6 Path: /usr/local/opt/python@3.11/bin/python3.11 Jupyter: (None)
[✓] Checking R installation...........OK Version: 4.3.2 Path: /usr/local/Cellar/r/4.3.2/lib/R LibPaths:
[✓] Checking Knitr engine render......OK