[R-pkg-devel] r-release-osx-x86_64-mavericks - CRAN Package Check Results - ERROR
I have an error only on the maverichs flavour: https://cran.r-project.org/web/checks/check_results_Dominance.html as I have no Mac I do not know how I could fix it: Invalid MIT-MAGIC-COOKIE-1 keyWarning in fun(libname, pkgname) : couldn't connect to display ":0" Error in structure(.External(.C_dotTclObjv, objv), class = "tclObj") : [tcl] invalid command name "font". Calls: Sociogram ... .tkplot.convert.font -> -> tcl -> .Tcl.objv -> structure Execution halted Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Roxygen and Namespace
how can I tell Roxygen to write the namespace like
exportPattern("^[[:alpha:]]+")
import(igraph,chron,gdata,XLConnect)
importFrom("grDevices", "dev.off", "heat.colors", "postscript",
"rainbow")
importFrom("graphics", "arrows", "lines", "par", "plot", "text",
"title")
importFrom("stats", "na.omit")
by the way what does exportPattern("^[[:alpha:]]+") means?
Knut
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[R-pkg-devel] Roxygen and Template
I found in packgae ply - file adply.r: #' @template ply #' @template a- #' @template -d but no documentation about the template functionality, especially how to create the template file. (I tried to find it with google - of course) Is there any complete documentation about roxgen? Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Roxygen: function documentation to get \item{...} in .rd file
I am converting a package from creating the .rd files manually to roxygen.
I do not know how to add the additional parameters to the function
description, so that the \item{...}{ some parameters } will be created
in the .rd file
Kind regards Knut
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[R-pkg-devel] library dlstats -> cran_stats()
Dear all, Does anybody know whether the statistics are counting also updates? And if yes is it possible to get only the count of new installations? Kind regards Knut I __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Roxygen: function documentation to get \item{...} in .rd file
Am 12.03.2018 um 20:58 schrieb Joris Meys: Hi Knut, on a sidenote: did you try the Rd2roxygen package? That could also make your work a lot easier. https://cran.r-project.org/web/packages/Rd2roxygen/index.html Cheers Joris Hi Joris, thank's a lot. Rd2roxygen is very helpful Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] library dlstats -> cran_stats()
Am 16.03.2018 um 13:44 schrieb Spencer Graves: On 2018-03-16 06:53, Mark van der Loo wrote: Knut AFAIR the download statistics are limited to downloads from RStudio's cloud are there any other statistics from cran available? Kind regards Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Used package not updated - needs java < V 11
I am using in my Package XlConnect. If the Computer is using Java < 11 all is working. But if not, the package can not be used. inside teh functions tehre is an ' @importFrom XLConnect createSheet writeWorksheet saveWorkbook but only used for additional comfort to use excel sheets The package is usable without XlConnect if I change Imports: igraph,chron,gdata, XLConnect to Imports: igraph,chron,gdata Suggests:XLConnect but then I get the error checking package dependencies ... ERROR Namespace dependency not required: ‘XLConnect’ Just now the new version is on my private repository and working with or without Xlconnect depending on the java version How can I submit the package to cran until XlConnect is working with java > 11 REgards Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Used package not updated - needs java < V 11
Thank you for your answer, I tested WriteXLS and openxlsx ... but it is perl based and most of the Windows user do not have perl installed. Therefore I would change the missing XlConnect with missing Perl library. And that is more complicated, because the user has to add something on operating system level. No chance f.e on University cip pools and users unfamiliar with operating systems at all -> gdata - I will check how to change it Thank you Knut Am 15.12.20 um 15:43 schrieb Spencer Graves: I suggest NOT using "XLConnect". "sos" now uses WriteXLS. "Ecfun" now uses "openxlsx". Also, I received an email from CRAN maintainers months ago saying that "gdata" was being obsoleted. It's still on CRAN with a date of 2017-06-06 and a huge number of reverse dependencies. The CRAN maintainers may have gotten someone to agree to take it over who just hasn't finished fixing whatever deficiencies it has. However, you might see how difficult it might be to do without "gdata" as well. Spencer Graves __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Used package not updated - needs java < V 11
Am 15.12.20 um 14:37 schrieb Duncan Murdoch: thank you for your answer You should not have @importFrom XLConnect createSheet writeWorksheet saveWorkbook in your ROxygen comments; that results in an unconditional import. Instead, you should use fully qualified calls each time, i.e. XLConnect::createSheet, XLConnect::writeWorksheet, XLConnect::saveWorkbook #' @importFrom XLConnect::createSheet, XLConnect::writeWorksheet, XLConnect::saveWorkbook This causes the error "there is no package called ‘XLConnect::createSheet,’" Regards Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Used package not updated - needs java < V 11
Also, I received an email from CRAN maintainers months ago saying that "gdata" was being obsoleted. It's still on CRAN with a date of 2017-06-06 and a huge number of reverse dependencies. The CRAN maintainers may have gotten someone to agree to take it over who just hasn't finished fixing whatever deficiencies it has. However, you might see how difficult it might be to do without "gdata" as well. Spencer Graves Is it permissible to copy the code from rename.vars (gdata) inside my package with an hint: " Function rename.vars Source code from gdata as gdata is unmaintained since 2017-06-06 Rename variables in a dataframe Author(s) Don MacQueen (package gdata), macq\@llnl.gov." it is the only function I am using from gdata. Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Used package not updated - needs java < V 11
Am 16.12.20 um 16:57 schrieb Duncan Murdoch: > No, you should drop the @importFrom comment completely, and in your R > code use those fully qualified forms. > > Duncan Murdoch Sorry I did not read carefully Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] How to manage using different packages if available (suggests - imports)
The following problem:
there are three packages foo1, foo2 and foo3 to use with the update of a
package. The availability depends on the configuration of the host
system. f.e java version
If I write in the Description
...
Suggests: foo1, foo2, foo3
inside of functions if have:
functionfoo <- function(data,usingpackage {
.
foo1, foo2 and foo3
if (usingpackage == "foo1") {
do_something
}
.
if (usingpackage == "foo2") {
do_something
}
if (usingpackage == "foo3") {
do_something
}
}
But of course it is not possible to get a positive check result.
It starts either with the missing package at suggest statement
or if I remove the suggest statement there is an error
'::' or ':::' imports not declared from:
‘foo1’ ‘foo2’ ‘foo3’
'loadNamespace' or 'requireNamespace' calls not declared from:
‘foo1’ ‘foo2’ ‘foo3’
Any hints to solve this issue?
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Re: [R-pkg-devel] How to manage using different packages if available (suggests - imports)
Am 18.02.21 um 16:52 schrieb Duncan Murdoch:
you can suppress them using by having environment variable
_R_CHECK_FORCE_SUGGESTS_ set to "FALSE". If you are worried about a
CRAN submission, explain to them in your submission message why they
can't have all your suggested packages.
Yes this is my major problem.
Thank you for your help
Knut
Duncan Murdoch
On 18/02/2021 10:36 a.m., Knut Krueger wrote:
The following problem:
there are three packages foo1, foo2 and foo3 to use with the update of a
package. The availability depends on the configuration of the host
system. f.e java version
If I write in the Description
...
Suggests: foo1, foo2, foo3
inside of functions if have:
functionfoo <- function(data,usingpackage {
.
foo1, foo2 and foo3
if (usingpackage == "foo1") {
do_something
}
.
if (usingpackage == "foo2") {
do_something
}
if (usingpackage == "foo3") {
do_something
}
}
But of course it is not possible to get a positive check result.
It starts either with the missing package at suggest statement
or if I remove the suggest statement there is an error
'::' or ':::' imports not declared from:
‘foo1’ ‘foo2’ ‘foo3’
'loadNamespace' or 'requireNamespace' calls not declared from:
‘foo1’ ‘foo2’ ‘foo3’
Any hints to solve this issue?
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[R-pkg-devel] Citation in DESCRIPTION file
I was suggested: "A citation in the Description file is typically a good idea because people can think whether your package is appropriate before reading all docs and installing the package, just from reading the CRAN overview page." but I do not find hints how to implement the doi and the references in the DESCRIPTION file Thank's in advance Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Citation in DESCRIPTION file
Am 22.02.21 um 12:07 schrieb Sebastian Meyer: Example: Einstein et al. (1935) . What is the syntax if I have multiple references f.e For function foo1: Autor1 (2000) >doi:23837454235r2354.45764> Autor2 (2003) >doi:d73234k458f83.38358235> For function foo2: Autor3 (2013) Regards Knut Best regards, Sebastian Meyer __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Unfixed error on cran submission: r-oldrel-macos-x86_64 ERROR
I clicked yes that I have fixed all errors, because I have no idea to fix Mac errors: No protocol specified No protocol specified Warning in fun(libname, pkgname) : couldn't connect to display ":0" Error in structure(.External(.C_dotTclObjv, objv), class = "tclObj") : [tcl] invalid command name "font". Calls: foo ... .tkplot.convert.font -> -> tcl -> .Tcl.objv -> structure Execution halted Flavor: r-oldrel-macos-x86_64 What can I do with errors at unknown operating systems ... I can fix windows and linux but not mac Regards Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Citation in DESCRIPTION file
Am 22.02.21 um 14:58 schrieb Uwe Ligges: Write it inline as in: See Author 1 (2021) and Author 2 (2004) . I see at the downloaded package that the urls are not usable by clicking. means the doi has not been converted to https://doi.org/xyz/1234567 Any chance to fix this in the description file? Regards Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Citation in DESCRIPTION file
Am 24.02.21 um 10:05 schrieb Sebastian Meyer: Yes I realized that it is a problem in various packages The question was, whether there is a mistake or a limitation. I was wondering because the CRAN PDF also is not formatting the doi in HTTP:\\... , but the URL Regards Knut I think you need to be more specific. Which "downloaded package"? Which viewer? As the list info says: "We can't help if we don't know what the problem is." FWIW, this format is used by many packages that I have installed on my machine and is rendered as a link on the CRAN package website, see https://CRAN.R-project.org/package=colorspace, for example. I can confirm that this format is not recognized in all HTML versions of package descriptions out there, maybe most prominently at https://rdrr.io/cran/colorspace/ and https://www.r-pkg.org/pkg/colorspace . The former does not even convert full URLs in the description text (such as the R-Forge URL). However, the lack of clickable DOIs seems to be a limitation of these websites not of your package description or the CRAN policy. The required format is officially documented at https://www.doi.org/doi_handbook/2_Numbering.html#2.6.1 Finally, again citing the list info: "Please note that while R-package-devel contributors will do their best to provide you accurate and authoritative information, the final arbiters of CRAN submission is the CRAN team." ;) Best regards, Sebastian Meyer Am 24.02.21 um 09:25 schrieb Knut Krueger: Am 22.02.21 um 14:58 schrieb Uwe Ligges: Write it inline as in: See Author 1 (2021) and Author 2 (2004) . I see at the downloaded package that the urls are not usable by clicking. means the doi has not been converted to https://doi.org/xyz/1234567 Any chance to fix this in the description file? Regards Knut __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
