Hi Aritra,
It would be helpful if we can explore the package source code. It helps to
provide a more accurate answer.
But you will find some other cases on the archive of the mailing list with
similar messages.
The message indicates that the static code analyzer hasn't detected the
definition of
eople, for advice to see what can be done.
I don't think when BiocGenerics depended on generics they accounted for
this kind of breakage or informed their reverse dependencies.
Many thanks for your help.
On Sat, 8 Feb 2025 at 21:07, Ivan Krylov wrote:
> В Sat, 8 Feb 2025 19:18:59 +0100
>
Dear list,
Checks of the package BaseSet I maintain are failing on r-devel with:
Error in UseMethod("tidy") : no applicable method for 'tidy' applied to
an object of class "GeneSet" Calls: tidy Execution halted
Surprisingly, similar code on tests pass without errors.
This GeneSet is a S4 class
is a problem
> you have to report it to the corresponding CRAN maintainer so for macOS
> that would be me.
>
> Cheers,
> Simon
>
>
> > On Jan 30, 2025, at 5:10 AM, Lluís Revilla
> wrote:
> >
> > Dear list,
> >
> > Recently after a package up
Dear list,
Recently after a package update I noticed an ERROR on one flavor.
I believe this is some problem with the r-release-macos-x86_64 flavor.
But I'm not sure if this is fixed on the system or not.
I was waiting to see if this got fixed with time (and thanks to the CRAN
volunteers).
A check
ok/
I hope it helps.
Good luck!
Best,
Lluís Revilla
PS: There are some issues on AmigaFFH package, you might receive a
message to update it.
On Wed, 8 Jan 2025 at 13:51, Pepijn de Vries wrote:
>
> Dear fellow package developers,
>
> A while back I have submitted a package to CRAN
at 17:23, Duncan Murdoch wrote:
>
> On 2025-01-03 10:04 a.m., Lluís Revilla wrote:
> > Thanks Henrik for confirming there is nothing similar currently.
> >
> > Duncan: Letting the user choose when to remove the folder/data at will is
> > easy.
> > I was trying
ent to
> remove.packages() that use the former.
>
> Agree, it would be neat if a package could clean up after itself when
> uninstalled.
>
> /Henrik
>
> On Thu, Jan 2, 2025 at 1:37 PM Lluís Revilla wrote:
> >
> > Dear Duncan,
> >
> > Thank you fo
Dear Duncan,
Thank you for your answer. I checked again and made a mock package
that removes a file with .onDetach.
The file was not removed upon uninstalling the package.
Lluís
On Thu, 2 Jan 2025 at 17:23, Duncan Murdoch wrote:
>
> On 2025-01-02 9:55 a.m., Lluís Revilla wrote:
>
Hi list,
I am developing a package that will download some data, and I'd like
to store it locally to not recalculate it often.
The CRAN policy requires tools::R_user_dir to be used and "the
contents are actively managed (including removing outdated material)"
or using TMPDIR but "such usage should
Dear Aixiang,
Thanks for using a Bioconductor package as your dependency.
Please use the maintainer preference to report bugs, as set on the
DESCRIPTION file: Bug Reports
http://github.com/zeehio/MassSpecWavelet/issues
The support site (support.bioconductor.org) is generally set up to
help users
Dear Mallory,
It would help a little bit if we know the package and we can check the
examples and code.
Perhaps it can help this little explanation of when to use donttest,
dontrun and other options:
https://contributor.r-project.org/cran-cookbook/general_issues.html#structuring-of-examples
If it
Dear Eric,
While changing the version number of an old package could solve this, it is
a work-around that won't help much:
Users will be able to install the binaries of an old package without the
new fixes and improvements of the later at the cost of another submission,
which might delay the submi
Hi Junhui,
There is a separate log for checking if your package works without
suggested packages: in the StepReg results
The noSuggests title leads to:
https://www.stats.ox.ac.uk/pub/bdr/noSuggests/StepReg.out
Where you can see that it fails if a user don't have BiocStyle installed.
I don't know i
this tip. Out of interest, is there a way to make win/Mac
> builder run revdep checks?
>
> Writing: wyclif.substack.com
> Book: www.wyclifsdust.com
>
>
> On Thu, 8 Feb 2024 at 10:26, Lluís Revilla
> wrote:
>
>> Hi David,
>>
>> If you didn't increase the
Hi David,
If you didn't increase the version number it could happen that the old
version of the package was used (as CRAN might not be aware that there is a
new version).
The CRAN repository policy says: "Increasing the version number at each
submission reduces confusion so is preferred even when
Dear Uwe and the CRAN team,
Many thanks for maintaining the package for so long (>10 years!).
I see the latest changes are in some internal C code related to
updating the libxml2 library.
In CRAN's experience, is this the highest time consuming task?
I have some questions about how the maintenan
Hi Li Gen,
This NOTE is part of the new checks on CRAN to comply with its policy.
The error message was introduced in c85587 (2023/11/22), when
incorporating this suggestion
https://bugs.r-project.org/show_bug.cgi?id=18611.
You can see the changes and checks in the browser here:
https://github.com
Hi Dewey,
Currently there are several packages on a subfolder for human inspection.
I don't think you can do anything else: sending this email might help
drawing attention from your reviewer to your package.
There might be some issues in the package that you'll need to address, try
to find them in
The reasons that CRAN has for this (from:
https://cran.r-project.org/src/contrib/PACKAGES.in) are:
X-CRAN-History: Archived on 2023-08-19 for policy violation.
Downloading on installation from github.
Unarchived on 2023-08-30.
X-CRAN-Comment: Archived on 2023-08-31 for policy violation.
.
Hi,
Are you referring to your package formods?
I see it was released the same Friday 17 and it is already on CRAN.
If this is not the package, it might be on the backlog of packages
submitted to CRAN.
You can check the queue at:
https://r-hub.github.io/cransays/articles/dashboard.html
Best,
Llu
Dear John,
I think the problem is that the package ggPMX is suggested, but
nlmixr2rpt isn't prepared for when it isn't available.
In such cases, a package shouldn't fail the checks.
>From the CRAN policies https://cran.r-project.org/web/packages/policies.html :
"A package listed in ‘Suggests’ or
Hi,
I can't read any vignettes of gcplyr in Firefox 109.0.1 from a Windows 10.
But sorry, I don't have any solution.
On Thu, 9 Feb 2023 at 21:18, Duncan Murdoch
wrote:
> On 09/02/2023 10:27 a.m., Mike Blazanin wrote:
> > Hi all, my package gcplyr has several vignettes which, from CRAN, appear
>
tually, I don’t really agree to have to resubmit, and
> my time for doing so is very limited. Maybe in the next few weeks or so.
> >
> > Best
> >
> > Carsten
> >
> >
> > Von: Lluís Revilla [mailto:lluis.revi...@gmail.com]
> > Gesendet: Donnerstag, 22. Sep
Hi Carsten,
This seems to be an unfortunate chain of events between different packages:
RcppMLPACK -> emstreeR -> wflo
Package RcppMLPACK was archived on 2021-12-20 as issues were not corrected
despite reminders.
This resulted in the package emstreeR being archived on 2021-12-20 as
requires archi
I'm ready to take over the package I will ask the CRAN team and
give them more details.
Many thanks to all.
Lluís Revilla
On Fri, 2 Jul 2021 at 08:38, Uwe Ligges wrote:
>
>
>
> On 01.07.2021 23:52, Duncan Murdoch wrote:
> > On 01/07/2021 3:11 p.m., Dirk Eddelbuettel wro
Thanks Uwe for answering,
I have a question related to changing maintainers.
What happens when the old/current maintainer does not respond to
emails or other methods of contact?
Would the new maintainer need to wait until the package is removed
from CRAN to submit it again?
Best,
Lluís
PS: Not
Hi all,
Some time ago, there was a question[1] about "how long is the average
waiting time when submitting a new package ("newbies") until you get a
manual reply or it's on CRAN, submitting an update with all OK before
it hits CRAN".
I have analyzed the data provided by cransays[2] (Many thanks!)
bbrev", y="Ref_ID",
cex=1,gap=2.5,degree = 60,
canvas.xlim = c(-5, 5),
canvas.ylim = c(-3, 3),
grid.col = color.grid)
Hope you can solve it.
Cheers,
Lluís
On Thu, 5 Nov 2020 at 22:00, Pablo Fonseca wrote:
>
> Dear Lluís Revilla,
>
> Thank you very much for the comment
Hi Pablo,
"The magick package is required to crop" is related to using
BiocStyle for your vignette. Not sure what causes it, but I reported
this error some time ago:
https://github.com/Bioconductor/BiocStyle/issues/77.
On related issues and on bioc-devel mailing list
(https://stat.ethz.ch/piperma
Hi Anthony,
I stumbled with the same issue for a package I submitted recently, the
problem seems to be that LaTex doesn't know how to map this unicode
character to a typesetting.
My unicode character was \u2229 and I tried several ways to avoid this warning.
On the vignette built with knitr I dec
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