[R-pkg-devel] Rmarkdown vignette yields r inline warning on windows build [EXT]

[Matthew Young]

I’ve tried both ways (with and without a space after the backtick) and get the same error.

From: Max Turgeon <Max.Turgeon using umanitoba.ca>
Date: Friday, 1 May 2020 at 20:39
To: Matthew Young <my4 using sanger.ac.uk>, "r-package-devel using r-project.org" <r-package-devel using r-project.org>
Subject: Re: Rmarkdown vignette yields r inline warning on windows build [EXT]


Since you're looking for suggestions and that's all I have:



Could it be the space between the tick mark and the r? For example, does replacing ` round` with `round` (and all other instances) fix the issue?


Max Turgeon
Assistant Professor
Department of Statistics
Department of Computer Science
University of Manitoba
maxturgeon.ca [maxturgeon.ca]<https://urldefense.proofpoint.com/v2/url?u=http-3A__maxturgeon.ca&d=DwMF-g&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=XXcY8t_J1mVMCDTmi3629g&m=KD5hkiMRJXvOAV1srKNufKVz3MOekQAmaDIOmgmxB6A&s=AbhQu2y3TVl5oJQLLYAJXIyLZredpV9XsmkkeGsu1Js&e=>



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From: R-package-devel <r-package-devel-bounces using r-project.org> on behalf of Matthew Young <my4 using sanger.ac.uk>
Sent: May 1, 2020 2:24:40 PM
To: r-package-devel using r-project.org
Subject: [R-pkg-devel] Rmarkdown vignette yields r inline warning on windows build

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I am trying to submit a package to CRAN that includes a vignette built using rmarkdown.  It passes fine on the machines I have access to (ubuntu and osx).  When I submit to CRAN using the form, it passes the Debian checks, but fails on windows with the following WARNING:

! Missing $ inserted.
<inserted text>
                $
l.1030

You may need to add $ $ around a certain inline R expression `r `


I’m really not sure what is causing this error or how to debug it.  I do not have any inline r expressions in my vignette (code here https://github.com/constantAmateur/SoupX/blob/devel/vignettes/pbmcTutorial.Rmd [github.com]<https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_constantAmateur_SoupX_blob_devel_vignettes_pbmcTutorial.Rmd&d=DwMF-g&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=XXcY8t_J1mVMCDTmi3629g&m=KD5hkiMRJXvOAV1srKNufKVz3MOekQAmaDIOmgmxB6A&s=1GWJLKyp3TJoM0X6-KWdkBEwtTer6JTOQKvF0d5iSPE&e=>).  I do have back-ticked expression such as `round`, but they are not executed code.  Can anyone suggest what might be causing this issue?

Many thanks,

Matthew



--
 The Wellcome Sanger Institute is operated by Genome Research
 Limited, a charity registered in England with number 1021457 and a
 company registered in England with number 2742969, whose registered
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-- 
 The Wellcome Sanger Institute is operated by Genome Research 
 Limited, a charity registered in England with number 1021457 and a 
 company registered in England with number 2742969, whose registered 
 office is 215 Euston Road, London, NW1 2BE.
	[[alternative HTML version deleted]]