BiocStyle::html_document doesn't completely respect mfrow

[LTLA]

Consider the following:

---
title: Test
author: Aaron Lun
output:
  html_document
---

asdas

```{r, fig.wide=TRUE, fig.asp=1/3}
par(mfrow=c(1,3), mar=c(5.1, 4.1, 4.1, 2.1))
for (i in 1:10) {
    plot(1,i)
}
```

When this is rmarkdown::render()d, all is well, with the last plot occupying one third of the width:

However, if we change html_document to BiocStyle::html_document, we get instead:

In short, the last plot is inflated to occupy the entire screen; this is pretty ugly.

Session information

R version 3.6.0 Patched (2019-05-10 r76483)
Platform: x86_64-apple-darwin17.7.0 (64-bit)
Running under: macOS High Sierra 10.13.6

Matrix products: default
BLAS:   /Users/luna/Software/R/R-3-6-branch-dev/lib/libRblas.dylib
LAPACK: /Users/luna/Software/R/R-3-6-branch-dev/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] BiocStyle_2.13.2

loaded via a namespace (and not attached):
 [1] BiocManager_1.30.4 compiler_3.6.0     bookdown_0.11      magrittr_1.5
 [5] tools_3.6.0        htmltools_0.3.6    yaml_2.2.0         Rcpp_1.0.1
 [9] stringi_1.4.3      rmarkdown_1.13     knitr_1.23         stringr_1.4.0
[13] xfun_0.8           digest_0.6.20      evaluate_0.14

[grimbough]

This behaviour is because BiocStyle automatically crops images, so the two columns of white space are removed. Perhaps it shouldn't do that if par() has been changed from the default values?

You can stop the behaviour by setting crop = NULL in the code chunk options e.g.

```{r, fig.wide=TRUE, fig.asp=1/3, crop=NULL}
par(mfrow=c(1,3), mar=c(5.1, 4.1, 4.1, 2.1))
for (i in 1:10) {
    plot(1,i)
}
```

gets me

[LTLA]

Thanks, it wasn't obvious that crop=FALSE was an option. This seems like a divergence from knitr defaults, so perhaps that should be mentioned somewhere in the documentation; certainly it would eliminate questions like this one.