Message-ID: <9d223e7a-332d-0ba8-3571-727f6d398bbe@gmail.com>
Date: 2021-03-04T19:58:59Z
From: Duncan Murdoch
Subject: [R-pkg-devel] Why .Rbuildignore doesn't ignore?
In-Reply-To: <CACr7k5KxhjqNboNVybZfsf-njEYbXyutKe7oyMqEJ+pO3NucdQ@mail.gmail.com>
I don't have any strong suggestions. Things I'd look for:
- is the .Rbuildignore filename spelled correctly? It was in your
message, but maybe there's something different in the actual file on
disk. Running file.exists(".Rbuildignore") should return TRUE if your
working directory is the main package directory.
- is it encoded properly? I don't know that this would cause trouble,
but it might. Run tools::showNonASCIIfile(".Rbuildignore") to see if
there are any non-ASCII chars in it.
- are the filename patterns entered correctly? Spaces or punctuation
before or after the patterns will be taken to be part of the pattern.
If your working directory is the top level package directory, this
emulates the test R CMD build uses:
files <- list.files()
files[tools:::inRbuildignore(files, ".")]
It should list all the files that you want to ignore.
Duncan Murdoch
On 04/03/2021 2:06 p.m., Jose Barrera wrote:
> Dear Duncan and Jeff,
>
> Yes, I see those files when tar xvf miclust_1.2.6.tar.gz.
>
> As usual, I am both building and checking in a terminal (outside RStudio):
>
> $ R CMD build miclust --resave-data
> * checking for file ?miclust/DESCRIPTION? ... OK
> * preparing ?miclust?:
> * checking DESCRIPTION meta-information ... OK
> * checking for LF line-endings in source and make files and shell scripts
> * checking for empty or unneeded directories
> * building ?miclust_1.2.6.tar.gz?
> Warning: invalid uid value replaced by that for user 'nobody'
> Warning: invalid gid value replaced by that for user 'nobody'
>
> Then
>
> $ R CMD check --as-cran miclust_1.2.6.tar.gz
>
> If I move miclust.Rproj and README.Rmd outside the development directory,
> then there is no problem, but I find that solution somewhat dirty. Any
> ideas?
>
> Thanks,
>
> Jose Barrera
> Statistician, Associate Lecturer
>
> *IS**Global*
> Barcelona Institute for Global Health - Campus MAR
> Barcelona Biomedical Research Park (PRBB) (Room Hypatia)
>
> Doctor Aiguader, 88
> 08003 Barcelona, Spain
> Tel. +34 93 2147383
> jose.barrera at isglobal.org
> <https://www.linkedin.com/in/josebarrera>
> Personal website: sites.google.com/view/josebarrera
> www.isglobal.org
>
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>
> El jue, 4 mar 2021 a las 18:19, Jeff Newmiller (<jdnewmil at dcn.davis.ca.us>)
> escribi?:
>
>> Don't run check against your development directory. Run it against the
>> tar.gz file.
>>
>> On March 4, 2021 5:09:07 AM PST, Jose Barrera <jose.barrera at isglobal.org>
>> wrote:
>>> Dear all,
>>>
>>> devtools::check() gives me the following NOTE:
>>>
>>> * Non-standard files/directories found at top level:
>>> ?README.Rmd? ?miclust.Rproj?
>>>
>>> I get the same result with R CMD check --as-cran and R CMD check in a
>>> terminal.
>>>
>>> My .Rbuildignore includes both ^.*\.Rproj$ and ^README\.Rmd$.
>>>
>>> I haven't had this issue when checking another package I recently and
>>> successfully sent to CRAN, so I have no idea why I get that NOTE now.
>>>
>>> I would appreciate any help to know why .Rbuildignore seems not to
>>> ignore
>>> those files.
>>>
>>> Thanks,
>>>
>>> Jose Barrera
>>> Statistician, Associate Lecturer
>>>
>>> *IS**Global*
>>> Barcelona Institute for Global Health - Campus MAR
>>> Barcelona Biomedical Research Park (PRBB) (Room Hypatia)
>>>
>>> Doctor Aiguader, 88
>>> 08003 Barcelona, Spain
>>> Tel. +34 93 2147383
>>> jose.barrera at isglobal.org
>>> <https://www.linkedin.com/in/josebarrera>
>>> Personal website: sites.google.com/view/josebarrera
>>> www.isglobal.org
>>>
>>> This message is intended exclusively for its addressee and may contain
>>> information that is CONFIDENTIAL and protected by professional
>>> privilege.
>>> If you are not the intended recipient you are hereby notified that any
>>> dissemination, copy or disclosure of this communication is strictly
>>> prohibited by law. If this message has been received in error, please
>>> immediately notify us via e-mail and delete it.
>>>
>>> DATA PROTECTION. We inform you that your personal data, including your
>>> e-mail address and data included in your email correspondence, are
>>> included
>>> in the ISGlobal Foundation filing system. Your personal data will be
>>> used
>>> for the purpose of contacting you and sending information on the
>>> activities
>>> of the above foundations. You can exercise your rights to access to
>>> personal data, rectification, erasure, restriction of processing, data
>>> portability and object by contacting the following address:
>>> *lopd at isglobal.org
>>> <lopd at isglobal.org>*. ISGlobal Privacy Policy at *www.isglobal.org
>>> <http://www.isglobal.org/>*.
>>>
>>>
>>
>>> -----------------------------------------------------------------------------------------------------------------------------
>>>
>>> CONFIDENCIALIDAD. Este mensaje y sus anexos se dirigen exclusivamente a
>>> su
>>> destinatario y puede contener informaci?n confidencial, por lo que la
>>> utilizaci?n, divulgaci?n y/o copia sin autorizaci?n est? prohibida por
>>> la
>>> legislaci?n vigente. Si ha recibido este mensaje por error, le rogamos
>>> lo
>>> comunique inmediatamente por esta misma v?a y proceda a su destrucci?n.
>>>
>>> PROTECCI?N DE DATOS. Sus datos de car?cter personal utilizados en este
>>> env?o, incluida su direcci?n de e-mail, forman parte de ficheros de
>>> titularidad de la Fundaci?n ISGlobal para cualquier finalidades de
>>> contacto, relaci?n institucional y/o env?o de informaci?n sobre sus
>>> actividades. Los datos que usted nos pueda facilitar contestando este
>>> correo quedar?n incorporados en los correspondientes ficheros,
>>> autorizando
>>> el uso de su direcci?n de e-mail para las finalidades citadas. Puede
>>> ejercer los derechos de acceso, rectificaci?n, supresi?n, limitaci?n
>>> del
>>> tratamiento, portabilidad y oposici?n dirigi?ndose a *lopd at isglobal.org
>>> <lopd at isglobal.org>* . Pol?tica de privacidad en *www.isglobal.org
>>> <http://www.isglobal.org/>*.
>>
>> --
>> Sent from my phone. Please excuse my brevity.
>>
>