[R-pkg-devel] RES: RES: Possible unknown color in r
Tiago Olivoto
t|@goo||voto @end|ng |rom gm@||@com
Fri Jan 10 20:44:56 CET 2020
Hi Berry,
Thank you for the note.
When I run my example code with transparent_color() all was working (the
color was transparent).
Now, reproducing the code again it becomes black. Could be this be changed
after package "farver" be updated to v. 2.0.2?
You is right regarding the use of col = NA. I have some functions that uses
ggplot2 and col = NA works with lines
library(ggplot2)
ggplot(mpg, aes(displ, hwy)) +
geom_smooth(color = NA, method = "lm")
but return a warning message with points
ggplot(mpg, aes(displ, hwy)) +
geom_point(color = NA)
# Warning message:
# Removed 234 rows containing missing values (geom_point).
It seems that the correct "transparent" color I was looking for can be set
without a warning with "#FFFFFF00"
ggplot(mpg, aes(displ, hwy)) +
geom_point(color = "#FFFFFF00")
Thanks for the tips.
Tiago.
De: Berry Boessenkool <berryboessenkool using hotmail.com>
Enviada em: sexta-feira, 10 de janeiro de 2020 15:42
Para: 'Joris Meys' <Joris.Meys using UGent.be>; r-package-devel using r-project.org;
tiagoolivoto using gmail.com
Assunto: Re: [R-pkg-devel] RES: Possible unknown color in r
Side Note:
plot(1, col="#000000FF", cex=4, pch=16)
is black on my machine.
The last two values are alpha (I think) and should be 00 for transparency.
Instead of writing an extra function, you could also use col=NA.
Berry
_____
From: R-package-devel <r-package-devel-bounces using r-project.org
<mailto:r-package-devel-bounces using r-project.org> > on behalf of Tiago Olivoto
<tiagoolivoto using gmail.com <mailto:tiagoolivoto using gmail.com> >
Sent: Friday, January 10, 2020 18:05
To: 'Joris Meys' <Joris.Meys using UGent.be <mailto:Joris.Meys using UGent.be> >;
r-package-devel using r-project.org <mailto:r-package-devel using r-project.org>
<r-package-devel using r-project.org <mailto:r-package-devel using r-project.org> >
Subject: [R-pkg-devel] RES: Possible unknown color in r
Hi Joris,
Thank you for your suggestions.
After installing the version v 2.0.2 of "farver" I was able to reproduce the
WARNING.
To fix this issue, I created a simple helper function:
transparent_color <- function() {
return("#000000FF")
}
And changed "transparent" with "transparent_color()" in my R scripts.
After, I built and check again with 'R CMD check --as-cran
metan_1.2.1.tar.gz' and no longer WARNINGS were observed.
Thanks again,
Tiago
-----Mensagem original-----
De: Joris Meys <Joris.Meys using UGent.be <mailto:Joris.Meys using UGent.be> >
Enviada em: sexta-feira, 10 de janeiro de 2020 10:57
Para: r-package-devel using r-project.org <mailto:r-package-devel using r-project.org> ;
tiagoolivoto using gmail.com <mailto:tiagoolivoto using gmail.com>
Assunto: Re: [R-pkg-devel] Possible unknown color in r
Hi Tiago,
It's indeed that. For some reason col2rgb() knows the unofficial
"transparent". Replace this with the correct value from the vector colors(),
i.e. "white". "transparent" is not mentioned in that vector, so it shouldn't
be used in a package. See also ?rgb2col and ?colors.
Cheers
Joris
--
Joris Meys
Statistical consultant
Department of Data Analysis and Mathematical Modelling Ghent University
Coupure Links 653, B-9000 Gent (Belgium)
------------------------------
Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php
________________________________________
From: Tiago Olivoto <tiagoolivoto using gmail.com <mailto:tiagoolivoto using gmail.com>
>
Sent: Friday, January 10, 2020 2:17 PM
To: Joris Meys; r-package-devel using r-project.org
<mailto:r-package-devel using r-project.org>
Subject: RES: [R-pkg-devel] Possible unknown color in r
Hi Joris,
Thank you so much for your assistance.
I've built and checked my package with:
R CMD build /d/Desktop/metan
R CMD check --as-cran metan_1.2.1.tar.gz
No WARNINGS were observed. Please, see the log file attached.
Sorry for failing in providing the link to access the check results in the
last email. You can see the link to the test that doesn't pass bellow.
Dear maintainer,
package metan_1.2.1.tar.gz does not pass the incoming checks automatically,
please see the following pre-tests:
Windows:
<https://win-builder.r-project.org/incoming_pretest/metan_1.2.1_20200109_043
<https://win-builder.r-project.org/incoming_pretest/metan_1.2.1_20200109_043
%0b153/Windows/00check.log>
153/Windows/00check.log>
Status: 1 WARNING, 1 NOTE
Debian:
<https://win-builder.r-project.org/incoming_pretest/metan_1.2.1_20200109_043
<https://win-builder.r-project.org/incoming_pretest/metan_1.2.1_20200109_043
%0b153/Debian/00check.log>
153/Debian/00check.log>
It sounds strange because in the last submissions the package passed in the
incoming checks, and the only change I've made from v1.2.0 to 1.2.1 was
adding some references in the description file.
Best regards,
Tiago
-----Mensagem original-----
De: Joris Meys <Joris.Meys using UGent.be <mailto:Joris.Meys using UGent.be> >
Enviada em: sexta-feira, 10 de janeiro de 2020 09:23
Para: r-package-devel using r-project.org <mailto:r-package-devel using r-project.org> ;
tiagoolivoto using gmail.com <mailto:tiagoolivoto using gmail.com>
Assunto: Re: [R-pkg-devel] Possible unknown color in r
Hi Tiago,
Without knowing which package you're talking about or a link to the check
results, it's impossible to know whether that warning is a proper one or a
side effect of something else.
In general though: it is well known that relying on devtools is not enough
for a good CRAN submission. The guidelines for CRAN clearly state :
"Please ensure that R CMD check --as-cran has been run on the tarball to be
uploaded before submission. This should be done with the current version of
R-devel (or if that is not possible and explained in the submission, current
R-patched or the current release of R.)"
So before submitting a package to CRAN and after running your devtools::
check_etc, open a terminal and run the following commands:
R CMD build path_to_pkg_folder
R CMD check --as-cran package_version.tar.gz
The --as-cran is important, as is doing so against a R-devel. I use devtools
myself extensively, but these checks have to be done outside the RStudio
ecosystem to be sure.
Kind regards
Joris
--
Joris Meys
Statistical consultant
Department of Data Analysis and Mathematical Modelling Ghent University
Coupure Links 653, B-9000 Gent (Belgium)
------------------------------
Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php
________________________________________
From: R-package-devel <r-package-devel-bounces using r-project.org
<mailto:r-package-devel-bounces using r-project.org> > on behalf of
Tiago Olivoto <tiagoolivoto using gmail.com <mailto:tiagoolivoto using gmail.com> >
Sent: Friday, January 10, 2020 12:43 PM
To: r-package-devel using r-project.org <mailto:r-package-devel using r-project.org>
Subject: [R-pkg-devel] Possible unknown color in r
Dear all,
In the last submission of my package the CRAN team has suggested including
some references in the description field of the DESCRIPTION file.
When I submitted it to CRAN it did not pass the incoming checks
automatically and I got the following WARNING.
Quitting from lines 108-117 (vignettes_metan.Rmd)
Error: processing vignette 'vignettes_metan.Rmd' failed with diagnostics:
Unknown colour name: transparent
It seems that this warning is related to a function with the argument
'col.segm.gen = "transparent"'.
I don't changed anything in this function and in the last submissions no
warning was related.
For curiosity I ran:
> col2rgb("yellow")
[,1]
red 255
green 255
blue 0
> col2rgb("transparent")
[,1]
red 255
green 255
blue 255
No warnings or errors were observed while running devtools::check_rhub(),
devtools::check_win_devel(), and devtools::check_win_release()
Any suggestion?
Best,
Tiago
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