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Hello! 🍁
A gtsummary user reported an error when exporting to PDF in R markdown (https://stackoverflow.com/questions/74334481). Below is an abridged example illustrating the error. Thank you!! ❤️
---
title: "test"
author: "Tengku Hanis"
date: "`r Sys.Date()`"
output: pdf_document
---
```{r pressure, echo=FALSE}
devtools::dev_mode(on = TRUE)
packageVersion("gt")
# build regression model
mod <- lm(mpg ~ ., data = mtcars)
summary(mod)
# summarize with gtsummary
x <- gtsummary::tbl_regression(mod, intercept = TRUE)
# this is the data frame I want to print
x$table_body
# but this fails when exporting to PDF
x$table_body |>
gt::gt(groupname_col = NULL, caption = NULL) |>
gt::sub_missing(columns = gt::everything(), missing_text = "")
```
This is the error I see in the RStudio IDE "Render" tab.
processing file: delete.Rmd
output file: delete.knit.md
"C:/Program Files/RStudio/bin/quarto/bin/tools/pandoc" +RTS -K512m -RTS delete.knit.md --to latex --from markdown+autolink_bare_uris+tex_math_single_backslash --output delete.tex --lua-filter "C:\PROGRA~1\R\R-42~1.2\library\RMARKD~1\RMARKD~1\lua\PAGEBR~1.LUA" --lua-filter "C:\PROGRA~1\R\R-42~1.2\library\RMARKD~1\RMARKD~1\lua\LATEX-~1.LUA" --self-contained --highlight-style tango --pdf-engine pdflatex --variable graphics --variable "geometry:margin=1in" --include-in-header "C:\Users\SjobergD\AppData\Local\Temp\Rtmp2bPSuA\rmarkdown-str68382b4620f6.html"
! Undefined control sequence.
<argument> ...al \expandafter \let \cmrsideswitch
\@tempa \fi \fi
l.142 (Intercept)
& (Intercept) & intercept & & label & & 32 & 32 & generi...
Error: LaTeX failed to compile delete.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See delete.log for more info.
Execution halted
Session info
sessioninfo::session_info()
#> ─ Session info ───────────────────────────────────────────────────────────────
#> setting value
#> version R version 4.2.2 (2022-10-31 ucrt)
#> os Windows 10 x64 (build 19042)
#> system x86_64, mingw32
#> ui RTerm
#> language (EN)
#> collate English_United States.utf8
#> ctype English_United States.utf8
#> tz America/New_York
#> date 2022-11-06
#> pandoc 2.18 @ C:/Program Files/RStudio/bin/quarto/bin/tools/ (via rmarkdown)
#>
#> ─ Packages ───────────────────────────────────────────────────────────────────
#> package * version date (UTC) lib source
#> cli 3.4.1 2022-09-23 [1] CRAN (R 4.2.1)
#> digest 0.6.30 2022-10-18 [1] CRAN (R 4.2.1)
#> evaluate 0.17 2022-10-07 [1] CRAN (R 4.2.1)
#> fastmap 1.1.0 2021-01-25 [1] CRAN (R 4.2.0)
#> fs 1.5.2 2021-12-08 [1] CRAN (R 4.2.0)
#> glue 1.6.2 2022-02-24 [1] CRAN (R 4.2.0)
#> highr 0.9 2021-04-16 [1] CRAN (R 4.2.0)
#> htmltools 0.5.3 2022-07-18 [1] CRAN (R 4.2.1)
#> knitr 1.40 2022-08-24 [1] CRAN (R 4.2.1)
#> lifecycle 1.0.3 2022-10-07 [1] CRAN (R 4.2.1)
#> magrittr 2.0.3 2022-03-30 [1] CRAN (R 4.2.0)
#> purrr 0.3.5 2022-10-06 [1] CRAN (R 4.2.1)
#> R.cache 0.16.0 2022-07-21 [1] RSPM (R 4.2.0)
#> R.methodsS3 1.8.2 2022-06-13 [1] CRAN (R 4.2.0)
#> R.oo 1.25.0 2022-06-12 [1] CRAN (R 4.2.0)
#> R.utils 2.12.1 2022-10-30 [1] CRAN (R 4.2.1)
#> reprex 2.0.2 2022-08-17 [1] RSPM (R 4.2.0)
#> rlang 1.0.6 2022-09-24 [1] CRAN (R 4.2.1)
#> rmarkdown 2.17 2022-10-07 [1] CRAN (R 4.2.1)
#> rstudioapi 0.14 2022-08-22 [1] CRAN (R 4.2.1)
#> sessioninfo 1.2.2 2021-12-06 [1] CRAN (R 4.2.0)
#> stringi 1.7.8 2022-07-11 [1] CRAN (R 4.2.1)
#> stringr 1.4.1 2022-08-20 [1] CRAN (R 4.2.1)
#> styler 1.8.0 2022-10-22 [1] CRAN (R 4.2.1)
#> withr 2.5.0 2022-03-03 [1] CRAN (R 4.2.0)
#> xfun 0.34 2022-10-18 [1] CRAN (R 4.2.1)
#> yaml 2.3.6 2022-10-18 [1] CRAN (R 4.2.1)
#>
#> [1] C:/Program Files/R/R-4.2.2/library
#>
#> ──────────────────────────────────────────────────────────────────────────────Metadata
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