ersion")
HTML Tidy for Apple macOS version 5.8.0
> On May 19, 2024, at 01:30, Ivan Krylov wrote:
>
> On Sat, 18 May 2024 21:10:18 +
> "Richard M. Heiberger" wrote:
>
>> when checking a package and discovering these messages about html5,
>> can you
n't think that will ever happen. It only happens when a user tries an
> "--as-cran" check, but doesn't have a current version of tidy installed.
> CRAN does have the up-to-date versions installed, so they won't see this.
>
> Duncan Murdoch
>
>> On 2024-05-
this is a suggestion to CRAN.
when checking a package and discovering these messages about html5, can you
generate an informational message about tidy with a link to updating tidy?
thank you
Rich
Sent from my iPhone
> On May 17, 2024, at 15:32, Marc Girondot via R-package-devel
> wrote:
>
>
--
Terry M Therneau, PhD
Department of Quantitative Health Sciences
Mayo Clinic
thern...@mayo.edu
"TERR-ree THUR-noh"
[[alternative HTML version deleted]]
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
this looks like a relative of the issue I tripped on that is discussed in the
email threads
https://stat.ethz.ch/pipermail/r-package-devel/2024q1/010531.html
https://stat.ethz.ch/pipermail/r-devel/2024-March/083259.html
At issue is the default export of
exportPattern(".")
System generated
is talking about compute time, and
illustrates a cases
where an O(n^2) case arises. As sentence that warns the use "of you do this
it will take
hours to run" is a perfect case for a pdf that should not be recreated by R CMD
check.
--
Terry M Therneau, PhD
Department of Quantitat
curl works for me now as well.
Glad it's resolved!
-Robert
On Wed, Mar 6, 2024 at 11:13 AM Gábor Csárdi wrote:
> Yes, it started failing about then, so I am pretty sure it is related.
>
> Thanks, Gabor
>
> On Wed, 6 Mar 2024 at 16:39, Mike Smith wrote:
>
> > Maintainer of the
quot;) ?
> On Mar 6, 2024, at 11:57, Joshua Ulrich wrote:
>
> On Wed, Mar 6, 2024 at 1:03 AM Richard M. Heiberger wrote:
>>
>> Thank you Duncan, Jeff, Ivan.
>>
>> I did all that Duncan and Jeff suggested, plus a bit more that appeared to
>> be necessary.
&g
Ivan,
thank you for including me on this thread on R-devel.
Please be sure to see the last email in my R-pkg-devel thread on
RcmdrPlugin.HH_1.1-48.tar.gz,
in which I discuss how I responded to this issue, specifically to my detailed
discussion
in the RcmdrPlugion.HH/NEWS.
Rich
> On Mar 6,
That does seem weird.
curl does indeed complain, but both Edge and Firefox running on my Pop!OS
22.04 have no problems with the certificate.
-Robert
On Wed, Mar 6, 2024 at 3:41 AM Gábor Csárdi wrote:
> I can't find any Linux distro that accepts that certificate. Even
> Debian testing fails
in the NEWS file, perhaps augmented with Ivan's
comments,
might be added to utils/man/globalVariables.Rd and to the
"
section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
"
> On Mar 6, 2024, at 01:38, Ivan Krylov wrote:
>
> В Tue, 5 Mar 2024 22:41:32 +
> "R
are explicitly included.
What should I try next?
> On Mar 5, 2024, at 18:21, Duncan Murdoch wrote:
>
> On 05/03/2024 5:41 p.m., Richard M. Heiberger wrote:
>> My package is being rejected by auto-check
>> Flavor: r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_6
My package is being rejected by auto-check
Flavor: r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
Check: for missing documentation entries, Result: WARNING
Undocumented code objects:
'.__global__'
All user-level objects in a package should have documentation entries.
See chapter
I want to thank Ivan and Bill for useful advice. I eventually found my memory
mistake,
which was of the 'obvious once you see it' variety. Ivan's note that it
appeared to be in
a small allocation was correct.
> I've hit a roadblock debugging a new update to the survival package. I do
>
mid-followup
make the
code more complex. This arises out of the "extended Kaplan-Meier"; I am not a
fan of
this statistically, but some will use it and expect my code to work.
--
Terry M Therneau, PhD
Department of Quantitative Health Sciences
Mayo Clinic
thern...@mayo.edu
"TERR-r
I decided to grab a copy of that PDF from the RStudio CRAN mirror, and
downloaded on Linux (where hopefully it won't be an issue) from the list of
vignettes.
Virus Total gives it the same hash as the above linked PDF, so it's
definitely been propagated from CRAN, and *may* be malicious.
That is
vs 160 characters for just a directory path.
From: Steven Scott
Sent: Thursday, December 14, 2023 12:11 PM
To: Vladimir Dergachev
Cc: McGrath, Justin M; r-package-devel@r-project.org
Subject: Re: [R-pkg-devel] Wrong mailing list: Could the 100 byte path
lso leaves plenty of space regardless where they choose to
extract the files.
From: Dirk Eddelbuettel
Sent: Wednesday, December 13, 2023 9:13 AM
To: Tomas Kalibera
Cc: Dirk Eddelbuettel; McGrath, Justin M; Ben Bolker; Martin Maechler;
r-package-devel@r-p
.
From: Dirk Eddelbuettel
Sent: Wednesday, December 13, 2023 8:59 AM
To: Tomas Kalibera
Cc: McGrath, Justin M; Ben Bolker; Martin Maechler;
r-package-devel@r-project.org
Subject: Re: [R-pkg-devel] Wrong mailing list: Could the 100 byte path length
limit be lifted?
On 13 December 2023 at 15:32
. There is no reason today
to reject packages with ustar compatible paths that are not v7 compatible.
Best wishes,
Justin
From: Tomas Kalibera
Sent: Wednesday, December 13, 2023 8:32 AM
To: McGrath, Justin M; Ben Bolker; Martin Maechler;
r-package-devel@r-project.org
check reports a NOTE?
Best wishes,
Justin
From: Martin Maechler
Sent: Wednesday, December 13, 2023 2:22 AM
To: Ben Bolker; McGrath, Justin M
Cc: Simon Urbanek; Duncan Murdoch
Subject: Re: [R-pkg-devel] Wrong mailing list: Could the 100 byte path length
limit be lifted?
>&g
the appropriate
list, but if you don't think so, I can instead ask on R-devel.
Best wishes,
Justin
From: Martin Maechler
Sent: Tuesday, December 12, 2023 10:13 AM
To: McGrath, Justin M
Cc: r-package-devel@r-project.org
Subject: Wrong mailing list: [R-pkg
We include other software in our source code. It has some long paths so a few
of the files end up with paths longer than 100 bytes, and we need to manually
rename them whenever we pull in updates.
The 100 byte path limit is from tar v7, and since POSIX1.1988, there has not
been a path length
Why are these functins in two different packages?
On the surface it looks like qrcode is a transformation function and opencv is
its inverse.
> On Nov 7, 2023, at 14:55, Thierry Onkelinx wrote:
>
> Dear all,
>
> The qrcode package converts text into a qrcode image. The opencv package is
> able
I have a demo file that uses a function defined in the package.
when I force the demo to be run with
R CMD check --test-dir=demo findme_1.0.tar.gz
then the function defined in the package is not recognized.
Here is the demo/findme.r file:
findme::findme()
findme()
Here is the result of:
R CMD
Hello,
I’ve submitted a package* and am having an issue because I cannot log into my
mcgaug...@gmail.com account at the support (https://support.bioconductor.org/)
site and set up a “geyser” tag.
When I try to reset my login password I never get an email to reset (yes I am
also checking the
on
figshare, and none of the reviewers expressed any issues with it.
Best of luck with the manuscript and package!
-Robert
--
Dr. Robert M Flight, PhD
Bioinformatics Analyst Senior
Puller of Rabbits from Hats
Research Parasite
Moseley Bioinformatics Lab
Resource
Hi Justin,
I pulled the Bioconductor devel docker image (
https://www.bioconductor.org/help/docker/#intro), fired it up, and
installed your github version of philr.
And run the vignette. And I can reproduce the error:
> Error in philr.data.frame(otu.table, tree = tree, ...) :
>
> Zero values
of selection processes
for choosing
among ending dates.
Terry T.
--
Terry M Therneau, PhD
Department of Quantitative Health Sciences
Mayo Clinic
thern...@mayo.edu
"TERR-ree THUR-noh"
[[alternative HTML version deleted]]
__
R-devel@r-p
There is a new NOTE. This line with \& used to be acceptable.
I am not seeing what the suggested replacement is.
* checking Rd files ... [4s] NOTE
checkRd: (-1) bivariateNormal.Rd:42: Escaped LaTeX specials: \&
The full example is
\note{
Based on the \code{galaxy} example on pages 204--205 in
gt;
> This also works with non-ASCII characters embedded in longer sentences:
>
> > stringi::stri_escape_unicode("Åv — mærkelige tegn!") |> cat("\n")
> \u00c5v \u2014 m\u00e6rkelige tegn!
>
> > stringi::stri_unescape_unicode("\u00c5v \u2014 m\u00e6rkelige te
Thanks Uwe,
I’ll try submission to CRAN beginning of next week.
Rainer
On 15 Jan 2022 at 00:40:00, Uwe Ligges
wrote:
>
>
> On 14.01.2022 15:14, Rainer M Krug wrote:
>
> Hi
>
>
> I want to re-submit an archived package to CRAN, and I get, when checking
>
> on h
that is not relevant.
—
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology,
UCT), Dipl. Phys. (Germany)
Orcid ID: -0002-7490-0066
Department of Evolutionary Biology and Environmental Studies
University of Zürich
Office Y34-J-74
Winterthurerstrasse 190
8075 Zürich
anuela
> >
> >
> >
> > ____
> > Da: Nitesh Turaga
> > Inviato: luned� 20 dicembre 2021 15:36
> > A: Emanuela Iovino
> > Cc:bioc-devel@r-project.org
> > Oggetto: Re: [Bioc-devel] release of new version of package
> &
ut I never use Windows. My reading of "the
following
lines" is that I don't have to do anything. Is this correct?
Terry T.
--
Terry M Therneau, PhD
Department of Quantitative Health Sciences
Mayo Clinic
thern...@mayo.edu
"TERR-ree THUR-noh"
[[al
I am responding to a subset of what you asked. There are packages which use
multiple formulas
in their argument sequence.
What you have as a single formula with | as a separator
q | p | subject | time | rho ~ p + x + y | p + w + y | z + y
I think would be better as a comma-separated list of
> On 2 Sep 2021, at 14:02, Duncan Murdoch wrote:
>
> On 02/09/2021 6:29 a.m., Rainer M Krug wrote:
>> Hi
>> I submitted an update of the dmdScheme package and got the response back
>> from the pre-submission check that it failed on one platform with the Note:
>
omebody give any guidance, how to fix this? Which one is the “check
directory"?
Thanks,
Rainer
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology,
UCT), Dipl. Phys. (Germany)
Orcid ID: -0002-7490-0066
Department of Evolutionary Biology and Environmental S
or 3
is not
clear to me. It currently leads to failure in a coxph call that includes a
strata so I am
directly interested in a solution; e.g., coxph(Surv(time, status) ~ age +
(ph.ecog==2) +
strata(inst), data=lung)
Terry T
--
Terry M Therneau, PhD
Department of Quantitative Health Sciences
M
The survival package uses [.terms a fair bit, in particular it makes use of the
index
returned in the 'specials' attribute, but the base R code has at least two
problems.
First, it does not account for offset terms, if present, and also fails for a
formula such
as y ~ age + (sex=='male').
> One more question. If I use mjeqn at the beginning of a paragraph it
> automatically sets a line break afterwards.
> Any idea what I can do to prevent this?
follow it with
\vspace*{1ex}
to back up one line.
Rich
> On Jun 25, 2021, at 07:51, Marc Scherstjanoi
> wrote:
>
> Hi Wolfgang,
Kevin,
This vignette from ggplot2 itself gives the "officially recommended" ways
to avoid the warnings from R CMD check
https://ggplot2.tidyverse.org/articles/ggplot2-in-packages.html
Cheers,
-Robert
On Thu, Apr 22, 2021 at 4:39 PM Paul SAVARY
wrote:
> Hi Kevin,
>
> I was faced to the same
Andrew,
I think if you want to include a Bioconductor dependency, then I think you
add the "biocViews:" line to your description file to enable bioconductor
package installation.
See this answer on Bioinformatics stackexchange:
https://bioinformatics.stackexchange.com/a/3375/51
Hope that helps!
Simon
>
>
>
>> On Mar 16, 2021, at 7:19 AM, Therneau, Terry M., Ph.D. via R-devel
>> wrote:
>>
>> This change in R-devel just bit me. Under the newest release, if I
>> attach() another
>> .RData directory, the methods are not detected.
>>
ble', 'numeric')"
----
The use case was my local test environment for the survival package. I can
work around it.
--
Terry M Therneau, PhD
Department of Health Science Research
Mayo Clinic
thern...@mayo.edu
"TERR-ree THUR-noh"
[[alter
image instead.
Your only bet for testing Cytoscape functionality I believe is what you can
do locally, either on your direct machine or via a virtual machine.
Hope that helps,
-Robert
Robert M Flight, PhD
Bioinformatics Research Associate
Puller of Rabbits from Hats
Research Parasite
Resource Center
Thank you Brian. I had not quite grasped how the process works, now the
descriptions and
usage make sense.
Terry
On 2/19/21 4:28 AM, Prof Brian Ripley wrote:
> On 18/02/2021 18:30, Therneau, Terry M., Ph.D. via R-devel wrote:
>> This is a CRAN question:
>>
>> I have t
fsetmatrix): Unrecognized format..
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox
\fi \fi
A check of kpsewhich shows I have all the packages, and I don't see a pattern
in the .tex
files at the point of failure.
Terry T.
--
Terry M Therneau, PhD
This is a CRAN question:
I have taken care to compress files in the data directory using "xz" (and
checked that it
is the best). Is there then any impact or use for the LazyDataCompression
option in the
DESCRIPTION file?
--
Terry M Therneau, PhD
Department of Health Science Res
Hi Catherine,
It looks like igraph is not installed, which RCy3 depends on. This seems
odd, because my own package categoryCompare depends on RCy3 and igraph, and
it is building fine in the Bioconductor release and dev.
I would see if you can recreate this issue locally on the Ubuntu docker
ments for !(x %in% recommended). I am guessing
that this
would also break many dependent packages.
Terry T.
--
Terry M Therneau, PhD
Department of Health Science Research
Mayo Clinic
thern...@mayo.edu
"TERR-ree THUR-noh"
[[alternative HTML version deleted]]
__
to track down.
--
Terry M Therneau, PhD
Department of Health Science Research
Mayo Clinic
thern...@mayo.edu
"TERR-ree THUR-noh"
[[alternative HTML version deleted]]
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/
rs). And of course none work in sapply or lapply. Providing a
> shorthand in base may help to improve this. You don't have to use it
> if you don't want to, and you can establish coding standards that
> disallow it if you like.
>
> Best,
>
> luke
>
> On Mon,
he survival package now adds more lines of comments or other
documentation than lines of code. If I have to puzzle out what a line does, what about
the poor sod who inherits the maintainance?
--
Terry M Therneau, PhD
Department of Health Science Research
Mayo Clinic
thern...@mayo.edu
"TERR-ree TH
into a
single .rda file does save space, but it causes some issues with data(). The
overall
tarball goes from 7480 to 6100 in size (ls -s).
Terry
On 10/24/20 4:28 AM, Duncan Murdoch wrote:
> On 23/10/2020 9:25 p.m., Therneau, Terry M., Ph.D. via R-devel wrote:
>> I found an issue with
aldata' is of course one route, and is
suggested in
the "Writing R Extensions" guide. But this is not possible since survival is a
recommended package: it can't load any non-recommended package for it's tests
or
vignettes. Longer term, perhaps there is way around this constraint?
Terry
of action to tackle this bottleneck.
best
Rafael H M Pereira
On Mon, Oct 19, 2020 at 5:46 AM Hugo Gruson
wrote:
> Hi all,
>
> this is a bit tricky since the documentation on the dashboard comes from
> an official, authoritative, source: the R journal [1].
>
> "pending: i
Hi all,
The CRAN incoming Dashboard indicates that the status of my package (r5r)
is "pending", which means 'the CRAN maintainers are waiting for an action
on your side. You should check your emails!'.
However, I haven't received any email with guidance on how to proceed. Is
there any CRAN
8)
>
> hence not on Solaris.
>
> Best,
> Uwe Ligges
>
>
> On 25.09.2020 14:44, Rafael H. M. Pereira wrote:
> > Hi all.
> >
> > I'm having a strange error with the CRAN checks on Solaris. The Solaris
> > server throws the error: Package required but not avail
Hi all.
I'm having a strange error with the CRAN checks on Solaris. The Solaris
server throws the error: Package required but not available: ‘jdx’ even
though jdx is listed in 'Imports' in my DESCRIPTION file. This error only
occurs on the solaris server. Any suggestions?
More info on this
When I run R CMD check on the survival package I invariably get a note:
...
* checking for file ‘survival/DESCRIPTION’ ... OK
* this is package ‘survival’ version ‘3.2-6’
* checking CRAN incoming feasibility ... NOTE
Maintainer: ‘Terry M Therneau ’
...
This is sufficient for the auto-check
r/tests/test_getSymbols.R#L4
>>
>> Best,
>> Josh
>>
>> On Fri, Sep 4, 2020 at 3:25 AM Rainer M Krug wrote:
>>>
>>> I know this has been asked a few times - but I can’t find anything which
>>> might help me.
>>>
>>> I ha
on remote machines.
My question is:
1) I have disabled all tests and all examples if there is no environmental
variable set with the API Key - is this OK for CRAN?
2) If not, how can I make this CRAN compliant?
Thanks,
Rainer
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc
I am using install_git to download my package from Github. The problem that I
am using submodule on my repo and install_git always uses the master branch of
this submodule.
I defined mu submodules to uses a specific commit, not the master.
I tried to used args="--recursive" but the same
If a user is using this command to install my package,
R CMD INSTALL -l /path/lib package_r.tar.gz
How can I get the lib value within the configure file?
--Sameh
[[alternative HTML version deleted]]
__
R-package-devel@r-project.org
I will also add that shell scripts that are in Docker containers will
often crash with confusing error messages if they have Windows line
endings.
On Sat, Jul 25, 2020 at 2:39 PM Duncan Murdoch wrote:
>
> On 25/07/2020 4:48 p.m., nos...@altfeld-im.de wrote:
> > Dear R developers,
> >
> > I am
Richel,
I think that feedback is important. Examples are examples first, and tests
second, as in if your examples no longer work, then maybe you need to check
your underlying code.
{testthat} tests belong in their own `tests` directory, and are used to
directly test your code and provide
s)
> Phone number : +33.6.30.97.34.27
> Research topics: population genetics, landscape ecology, graph theory,
> spatial statistics
>
> - Mail original -
> De: "Rainer M Krug"
> À: "Maëlle SALMON"
> Cc: "r-package-devel"
> Envoyé: Lu
rs package, the hoardr
> package) cf
> https://blog.r-hub.io/2020/03/12/user-preferences/#not-so-temporary-files3
>
> Maëlle.
>
> Den tisdag 23 juni 2020 14:56:30 CEST, Rainer M Krug skrev:
>
>
>
>
>
> Thanks Duncan.
>
>> On 23 Jun 2020, at 1
Yohann,
Here is a description of the strategy I used a couple of years ago.
https://rmflight.github.io/post/licensing-r-packages-that-include-others-code/
-Robert
On Tue, Jul 7, 2020 at 1:52 PM Gábor Csárdi wrote:
> HI,
>
> here is an example from a package that was accepted relatively
with "rappdirs::user_data_dir()".
>
> Do you know how to check if java is installed on their machine?
>
> I thought about using something like that:
>
> jv <- system2("java", args = c("-version"))
> if(jv != 0){
> stop("You hav
> R-package-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-package-devel
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology,
UCT), Dipl. Phys. (Germany)
Orcid ID: -0002-7490-0066
Department of Evolutionary Biology
Perfect. You also mention the “backports” package - how can I use that one to
be able to also support old versions of R?
Thanks,
Rainer
> On 23 Jun 2020, at 16:34, Hong Ooi wrote:
>
> Yes, that’s the one.
>
> From: Rainer M Krug
> Sent: Tuesday, 23 June 2020 11:12
config/user dir. This is
> available via R_user_dir() in R 4.0 (and earlier versions via the backports
> package). An older alternative that still works is to use the rappdirs
> package.
>
>
> -Original Message-
> From: R-package-devel On Behalf Of
> Rainer
the jar file into that directory or, when no permission is granted,
into the tmpdir()
Thanks, no major changes necessary for that,
Rainer
>
> Duncan Murdoch
>
> On 23/06/2020 8:18 a.m., Rainer M Krug wrote:
>> Hi
>> I have a package called `plantuml` (https://github.com/rkrug/
is doing stuff.
Any suggestions on how I could make this “CRAN conform”?
Thanks a lot,
Rainer
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology,
UCT), Dipl. Phys. (Germany)
Orcid ID: -0002-7490-0066
Department of Evolutionary Biology and Environmental Studies
Unive
Dear Lori,
Thank you. I'll forward your e-mail to our IT team and see if they can help.
If and when you do implement the export function in the Hubs, please let me
know.
Best,
Lisa
From: Shepherd, Lori
Sent: Friday, June 19, 2020 7:48 AM
To: Schneper, Lisa M
From: Shepherd, Lori
Sent: Wednesday, June 17, 2020 8:23 AM
To: Schneper, Lisa M. ; bioc-devel@r-project.org
Subject: Re: Problem installing sesameData on locked down server
If the institution is behind a proxy there is a different ExperimentHub (and
AnnotationHub) option for setting
Hi,
I would like to use the SeSAMe package to analyze methylation data that we've
generated. Unfortunately, I'm having difficulty installing the sesameData
package on our server. The server does not access the internet due to security.
I think I've installed all the dependencies. I was able
I have a version of R-devel on my development box that has the address
sanitizer turned
on. This was instrumental in finding a pair of subtle memory issues. (I had
read, but
never written, one element past the end of an array, which caused issues on
some
architectures.)
1. I now get a
I am getting this warning which I need to get rid of.
Found 'exit', possibly from 'exit' (C)
Found 'stderr', possibly from 'stderr' (C)
I am depending on several C-based software that has many calls for 'exit' and
'stderr'. In this case, how can I avoid this warning?
> listed in your SystemRequirements entry in your DESCRIPTION file?
>
>> On April 26, 2020 6:41:27 AM PDT, "Sameh M. Abdulah"
>> wrote:
>> I am getting this error when trying to install my package on CRAN. Do I
>> need to contact
>> CRAN to incl
I am getting this error when trying to install my package on CRAN. Do I need to
contact
CRAN to include it on the CRAN system? or there is another solution.
/usr/bin/ld: cannot find -ludev
collect2: error: ld returned 1 exit status
--Sameh
[[alternative HTML version deleted]]
How do I remove myself from this list?
On Wed, Apr 8, 2020 at 3:58 AM Stefano de Pretis wrote:
> Dear Bioc community,
>
> As the previous email described, we're facing issues in reproducing the
> TIMEOUT during the build of the INSPEcT package in the Windows environment.
> Does anyone have
I'm trying to chase down a possible issue with the survival package, and
so was trying to resurrect my ASAN version of r-devel. I added the
lines to config.site for CC, CFLAGS and MAIN_LDFLAGS per section 4.3.3
of the 'packages' documentation, and lines to ~/.R/Makevars.
I followed that
gt;
>>
>>
>> ____
>> From: R-package-devel
>> <mailto:r-package-devel-boun...@r-project.org> on behalf of Rainer M Krug
>> <mailto:rai...@krugs.de>
>> Sent: March 19, 2020 11:21:08 AM
>&
r
>
> Best,
> Kevin
>
> On Thu, Mar 19, 2020 at 9:21 AM Rainer M Krug wrote:
>>
>> Hi
>>
>> My package dmdScheme gets always one note after submission to CRAN:
>>
>>
>> ...
>> * checking for detritus in
... OK
* DONE
Any suggestions how I can track down the where these are coming from? Each time
my package has to go through a manual check at CRAN…
Thanks,
Rainer
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology,
UCT), Dipl. Phys. (Germany)
Orcid ID: -0002-7490
Is it perhaps an https:// address? You browser will make the
adjustment. CRAN will give this message.
On Thu, Mar 12, 2020 at 10:08 PM jared_wood wrote:
>
> I write an URL of MalaCards (a database) in my description, because I need
> the data in this database. However, there is an error here
Umm, but README.md becomes README.html on CRAN, and it is very nice to have.
I'm not sure what the error you are seeing is, but having README on CRAN is
nice.
Have you .Rbuildignore 'd README.Rmd?? That should be ignored if I remember
correctly.
-Robert
On Sat, Mar 7, 2020, 5:55 PM Jeff
I ended up finding the issue by a focused code review.
Once in the past, I had a version that would fail under one architecture but
not another,
in that case some help from Brian Ripley pointed me to the offending line of C
code.
That line read, but did not write, at an invalid memory
This is a small heads up for package maintainers. Under the more recent
R-devel, R CMD
check turned up some changes in the *.out files. The simple demonstration is
to type
"round(51/80, 3)", which gives .638 under the old and .637 under the new.
(One of my
coxph test cases has a
My latest submission of survival3.1-10 to CRAN fails a check, but only on
windows, which
I don't use.
How do I track this down?
The test in question works fine on my Linux box.
Terry
[[alternative HTML version deleted]]
__
so that it does not try to call cluster?
Another approach I tried was not exporting cluster(), but that fails when
model.frame
tries to call it.
Terry
On 2/24/20 12:21 PM, Duncan Murdoch wrote:
> On 24/02/2020 8:55 a.m., Therneau, Terry M., Ph.D. via R-devel wrote:
>> I recently had
I recently had a long argument wrt the survival package, namely that the
following code
didn't do what they expected, and so they reported it as a bug
survival::coxph( survival::Surv(time, status) ~ age + sex +
survival::strata(inst),
data=lung)
a. The Google R style guide recommends
I would guess that your NAMESPACE file doesn't export dnormfun.
On Fri, Feb 21, 2020 at 1:38 PM Weimin Zhang wrote:
>
> Thank you Max.
>
> The reason I used the super assignment "<<-" is because the "dnormfun"
> function later called by function kronecker(X, Y, FUN = "*",...) through
> FUN="
or a table:
>
>
>
> \begin{table}[!tbp]
>
> \begin{center}
>
> \begin{tabular}{l}
>
> \hline\hline
>
> \multicolumn{1}{c}{}\tabularnewline
>
> \hline
>
> ~\tabularnewline
>
> a\tabularnewline
>
> b\tabularnewline
>
> \hline
>
> \end{tabu
Please be consistent with the latex() function in the Hmisc package. For
example, for an array x, latex (x) produces a complete latex table
environment. See the ?latex helpfile for details.
Rich
On Mon, Feb 17, 2020 at 10:07 wrote:
> Hello,
>
>
>
> I'm working on a function in a package that
ng like file.copy( setdiff(list.files(recursive=TRUE)),
>> scan(".Rbuildignore", what=character())), to = destdir) ?
>>
>> On 2020-02-11 8:50 a.m., Rainer Krug wrote:
>>> Thinking about it - what would be the easiest way, to copy the package,
>>> excluding
probably because R CMD build does something like cp * to
> copy everything to a temp folder first up, before processing it. An argument
> could be made that it should manually loop through all files and dirs,
> checking each against .Rbuildignore before copying.
>
>
> From: Rain
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