Documents with tables with long texts, created with visual markdown editor are not knitted

[ccamara]

Documents with tables and long texts created with Rstudio's visual editor cause the following error when running knitr and using elsevier template:

Error: LaTeX failed to compile Untitled.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See Untitled.log for more info. Execution halted

The offending table, created with visual editor has this format:

+----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+
| Column 1 | Column 2                                                           | Column 3                                                                                               |
+==========+====================================================================+========================================================================================================+
| Cell 1.1 | This is a very, very, long text that does not fit in a single line | And this is also a very very (even longer, maybe) text that makes it difficult to fit in a single line |
+----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+
| Cell 1.2 |                                                                    |                                                                                                        |
+----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+
| Cell 1.3 |                                                                    |                                                                                                        |
+----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+

: The offending table

See xfun::session_info('rticles') output:

R version 4.1.0 (2021-05-18)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19042), RStudio 1.4.1717

Locale:
  LC_COLLATE=English_United States.1252 
  LC_CTYPE=English_United States.1252   
  LC_MONETARY=English_United States.1252
  LC_NUMERIC=C                          
  LC_TIME=English_United States.1252    

Package version:
  base64enc_0.1.3   digest_0.6.27     evaluate_0.14     glue_1.4.2       
  graphics_4.1.0    grDevices_4.1.0   highr_0.9         htmltools_0.5.1.1
  jsonlite_1.7.2    knitr_1.33        magrittr_2.0.1    markdown_1.1     
  methods_4.1.0     mime_0.11         rlang_0.4.11      rmarkdown_2.9    
  rticles_0.20.2    stats_4.1.0       stringi_1.6.2     stringr_1.4.0    
  tinytex_0.32      tools_4.1.0       utils_4.1.0       xfun_0.24        
  yaml_2.2.1 

And the entire document:

---
title: Short Paper
author:
  - name: Alice Anonymous
    email: alice@example.com
    affiliation: Some Institute of Technology
    footnote: 1
  - name: Bob Security
    email: bob@example.com
    affiliation: Another University
  - name: Cat Memes
    email: cat@example.com
    affiliation: Another University
    footnote: 2
  - name: Derek Zoolander
    email: derek@example.com
    affiliation: Some Institute of Technology
    footnote: 2
address:
  - code: Some Institute of Technology
    address: Department, Street, City, State, Zip
  - code: Another University
    address: Department, Street, City, State, Zip
footnote:
  - code: 1
    text: "Corresponding Author"
  - code: 2
    text: "Equal contribution"
abstract: |
  This is the abstract.

  It consists of two paragraphs.

journal: "An awesome journal"
date: "`r Sys.Date()`"
bibliography: mybibfile.bib
#linenumbers: true
#numbersections: true
csl: elsevier-harvard.csl
output: rticles::elsevier_article
---

*Text based on elsarticle sample manuscript, see <http://www.elsevier.com/author-schemas/latex-instructions#elsarticle>*

# The Elsevier article class

### Table R code

This table works great.

```{r}
mtcars

Markdown Table

This table is also rendered:

Col1	Col2	Col3
Cell 1.1	Cell 2.1	Cell 3.1
Cell 1.2	Cell 2.2	Cell 3.2
Cell 1.3	Cell 2.3	Cell 3.3

: Table using Visual mardkwon editor

This table, on the contrary, is not. Please note the different formatting:

+----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+ | Column 1 | Column 2 | Column 3 | +==========+====================================================================+========================================================================================================+ | Cell 1.1 | This is a very, very, long text that does not fit in a single line | And this is also a very very (even longer, maybe) text that makes it difficult to fit in a single line | +----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+ | Cell 1.2 | | | +----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+ | Cell 1.3 | | | +----------+--------------------------------------------------------------------+--------------------------------------------------------------------------------------------------------+

: The offending tables

---

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[cderv]

I think this happens because some LaTeX packages are missing in the template, but required if you use Pandoc's grid table syntax. The Visual will use Grid tables in some cases.

This should work by adding this in your YAML header

output: 
  rticles::elsevier_article: 
    extra_dependencies: 
      - array
      - calc

Can you try ?

For the context, this is required because Pandoc will convert the grid table Markdown to a LaTeX syntax using those packages' functions.

We may need to add them into all our template to make them work with grid_tables. However, some editor does not allow to add other packages than those expected so it is not easy for us to know when to add them automatically or not.

• LaTeX packages that Pandoc could use : https://pandoc.org/MANUAL.html#creating-a-pdf
• Grid table: https://pandoc.org/MANUAL.html#extension-grid_tables

[ccamara]

Thank you very much, @cderv !

Simply adding those extra dependencies in the yaml worked! (Sorry, I'm not familiar at all with Latex -that's why I'm using this package)

[cderv]

I'll reopen because I think it would be better to add them into the template.

[ccamara]

Great! Thank you again and sorry for the inconvenience.

[cderv]

@ccamara This should be fine now with dev version of rticles

remotes::install_github("rstudio/rticles")

Thanks!

[ccamara]

Thank you very much @cderv!

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