[R-pkg-devel] Fixed for messages

[Thierry Onkelinx]

Dear Roy,

Make sure that in DESCRIPTION you have at least

Suggests: knitr, rmarkdown
VignetteBuilder: knitr

The vignette requires

%\VignetteEngine{knitr::rmarkdown}

webshot is used by rmarkdown or knitr to convert dynamic HTML output
to a static image when the output is not HTML. Are you using pdf as
output format for the vignette? Consider using
rmarkdown::html_vignette.

Best regards,

ir. Thierry Onkelinx
Statisticus / Statistician

Vlaamse Overheid / Government of Flanders
INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE
AND FOREST
Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance
thierry.onkelinx at inbo.be
Havenlaan 88 bus 73, 1000 Brussel
www.inbo.be

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2018-01-08 17:40 GMT+01:00 Roy Mendelssohn - NOAA Federal
<roy.mendelssohn at noaa.gov>:
> Thanks Henrik:
>
> I am a little slow,  I want to make certain I do this correctly.  I already have knitr in my Suggests,  and the message is:
>
>>>> knitr::rmarkdown
>
> So do I put in my Suggests list  rmarkdown or knitr::rmarkdown
>
> And most importantly,  thanks for the explanation about what is happening with R-devel.  Of the responses I have seen,  it is the first one (at least to me) that is clear what is going on to cause the errors,  and how to approach correcting them.
>
> -Roy
>
>
>
>
>
>> On Jan 8, 2018, at 8:32 AM, Henrik Bengtsson <henrik.bengtsson at gmail.com> wrote:
>>
>> On Mon, Jan 8, 2018 at 7:31 AM, Roy Mendelssohn - NOAA Federal
>> <roy.mendelssohn at noaa.gov> wrote:
>>> Hi All:
>>>
>>> In tesitng a package on winbuild-devel (but not on release)  I get the following errors or warnings:
>>>
>>>> Warning in engine$weave(file, quiet = quiet, encoding = enc) :
>>>>  The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
>>>>
>>>
>>> There was an email about this a few days ago,  but then,  as now,  it is not clear to me specifically what I need to do where so that I don't get this warning.  Do I need to include rmarkdown in the Suggests,
>>
>> Yes, add it to Suggests.
>>
>>  or do I need to do something specific in the Vignette.  Or is this
>> just a question that winbuild hasn't installed it yet in the
>> development version and I can ignore it for now?
>>>
>>> Also I am getting this error (again only in the development version):
>>>
>>>> Error: processing vignette 'Usingxtractomatic.Rmd' failed with diagnostics:
>>>> there is no package called 'webshot'
>>>>
>>>
>>>
>>>
>>> Now I don't explicitly use a package called 'webshot',  but the lines referenced in the error message are:
>>>
>>>> require("DT")
>>>> DT::datatable(searchResult)
>>>>
>>>
>>> where "searchResult" is just a list.   DT itself does not explicitly import "webshot" either.
>>
>> It most likely depend on 'webshot' indirectly through some of your
>> package dependencies.  So, add this one too to Suggests.
>>
>> As far as I understand it, the new R-devel tests basically tests your
>> package with the minimal setup of packages (a "sandboxed" .libPaths())
>> inferred from you DESCRIPTION (by excluding Suggests of the packages
>> you depend on, which is where I think 'webshot' lives).
>>
>> /Henrik
>>
>>>
>>> I would like to submit this package,  but I don't want to submit with any errors or warnings. Again,  I only get these on winbuild-devel.
>>>
>>> Thanks for any help.
>>>
>>> -Roy
>>>
>>>
>>>
>>>
>>> **********************
>>> "The contents of this message do not reflect any position of the U.S. Government or NOAA."
>>> **********************
>>> Roy Mendelssohn
>>> Supervisory Operations Research Analyst
>>> NOAA/NMFS
>>> Environmental Research Division
>>> Southwest Fisheries Science Center
>>> ***Note new street address***
>>> 110 McAllister Way
>>> Santa Cruz, CA 95060
>>> Phone: (831)-420-3666
>>> Fax: (831) 420-3980
>>> e-mail: Roy.Mendelssohn at noaa.gov www: http://www.pfeg.noaa.gov/
>>>
>>> "Old age and treachery will overcome youth and skill."
>>> "From those who have been given much, much will be expected"
>>> "the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
>>>
>>> ______________________________________________
>>> R-package-devel at r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/r-package-devel
>
> **********************
> "The contents of this message do not reflect any position of the U.S. Government or NOAA."
> **********************
> Roy Mendelssohn
> Supervisory Operations Research Analyst
> NOAA/NMFS
> Environmental Research Division
> Southwest Fisheries Science Center
> ***Note new street address***
> 110 McAllister Way
> Santa Cruz, CA 95060
> Phone: (831)-420-3666
> Fax: (831) 420-3980
> e-mail: Roy.Mendelssohn at noaa.gov www: http://www.pfeg.noaa.gov/
>
> "Old age and treachery will overcome youth and skill."
> "From those who have been given much, much will be expected"
> "the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
>
> ______________________________________________
> R-package-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-package-devel