Csl option in the YAML is not working with proxy

[fgardavaud]

Hi Rstudio Community,

I am trying to make a paper in Rmarkdown. It is mandatory for me to do it with the diagnostic and interventional imaging. I am doing like this:

---
title: "reserach document"
author: "Mister and miss X"
date: '`r format(Sys.time(), "%d %B, %Y")`'
#header-includes:
output:
  #word_document:
     # fig_caption: yes
     # toc: true
  pdf_document:
    fig_caption: yes
    keep_tex: no
    number_sections: yes
    toc: false
bibliography: biblio.bib
csl: diagnostic-and-interventional-imaging.csl 
---

here's my option to knit:

library(thesisdown)
require("knitr")
knitr::opts_knit$set(root.dir = rprojroot::find_rstudio_root_file())
knitr::opts_chunk$set(echo = FALSE)

when I knit the document I have the following error in the terminal (I anonymized intentionally the user/password/server/port) :

/Applications/RStudio.app/Contents/MacOS/pandoc/pandoc +RTS -K512m -RTS dose_study_FG.knit.md --to latex --from markdown+autolink_bare_uris+tex_math_single_backslash --output dose_study_FG.tex --lua-filter /Library/Frameworks/R.framework/Versions/4.1/Resources/library/rmarkdown/rmarkdown/lua/pagebreak.lua --lua-filter /Library/Frameworks/R.framework/Versions/4.1/Resources/library/rmarkdown/rmarkdown/lua/latex-div.lua --self-contained --number-sections --highlight-style tango --pdf-engine pdflatex --variable graphics --variable 'geometry:margin=1in' --citeproc 
output file: dose_study_FG.knit.md

pandoc: HttpExceptionContentWrapper {unHttpExceptionContentWrapper = InvalidProxyEnvironmentVariable "https_proxy" "https://user:passwork@server:port"}
Erreur : pandoc document conversion failed with error 1

If I comment the csl line in the YAML section it works but without the right format (this behavior is OK).
If I knit the document with my home network (so without institutional proxy) it works.

So,I have a conflict with proxy parameters.
I work on macOS system and I configure the ~/.Renviron file with the right proxy parameters as I can upload and install package on CRAN.

Could you please help me to solve this problem.
Thanks a lot.

[cderv]

@fgardavaud

pandoc: HttpExceptionContentWrapper

I think you are encountering this issue reporting in Pandoc

Does not interpret username and password in http_proxy environment variable

It seems using a http for proxy solves it. Maybe setting http_proxy would also be an option.

@fgardavaud

If I comment the csl line in the YAML section it works but without the right format (this behavior is OK).

I think it is because the CSL file must try to fetch resources on the web during its processing

Hope it helps

[gsapijaszko]

@cderv

I think it is because the CSL file must try to fetch resources[...]

Heh, I was wondering what the heck pandoc has with proxy :). Wasn't aware CSL can relay on remote stuff.

If that's the case, the solution might be to fetch the content and store it locally, then rewrite the CSL rules.

Regards,
Grzegorz

[fgardavaud]

Thanks a lot @cderv for your clues. It would be very difficult to find it myself.
To help the community, here's my new workflow:
I only use http_proxy variable in the ~/.Renviron file and it works.
https_proxy variable have been commented / deactivated.