Re: [R-pkg-devel] R package CRAN check error
Thanks Hadley, for making us aware of this tool. I have a question: the
spellchecker part works (I mean I corrected words that were clearly
misspelled leaving acronyms which are common in my field), but I get the
following messages after the spell check:
* using log directory
‘/private/var/folders/d1/mx6dcbzx3v39r260458z2b20gn/T/RtmpjaaTMI/RJafroc.Rcheck’
* using R version 3.4.3 (2017-11-30)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using options ‘--run-donttest --as-cran’
* checking for file ‘RJafroc/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RJafroc’ version ‘1.0.1’
* checking CRAN incoming feasibility ...*Error in aspell(files, filter =
list("dcf", ignore = ignore), control = control, : *
* No suitable spell-checker program found*
Execution halted
Was R CMD check successful?
1: Nope
2: No
3: Yes
I selected 3. Am I making the right choice?
Thanks,
Dev
On Fri, Feb 16, 2018 at 4:32 PM, Hadley Wickham <h.wick...@gmail.com> wrote:
> Or even better, devtools::release(): it walks you through a checklist
> of activities designed to make your submission as successful as
> possible.
>
> Hadley
>
> On Fri, Feb 16, 2018 at 2:46 PM, Georgi Boshnakov
> <georgi.boshna...@manchester.ac.uk> wrote:
> > You get a source package suitable for submission by running `R CMD check
> namepackage' or the equivalent devtools::build()
> >
> > Georgi
> >
> > -Original Message-
> > From: R-package-devel [mailto:r-package-devel-boun...@r-project.org] On
> Behalf Of Ilaria Amerise
> > Sent: 16 February 2018 11:35
> > To: r-package-devel
> > Subject: [R-pkg-devel] R package CRAN check error
> >
> > Hi everybody,
> >
> > on submitting a new version of a package I got a rejection because of
> the following Error in the CRAN-check.
> >
> > Any help would be highly appreciated.
> >
> > * using R version 3.4.3 (2017-11-30)
> > * using platform: x86_64-apple-darwin15.6.0 (64-bit)
> > * using session charset: UTF-8
> > * using option ‘--as-cran’
> > * checking for file ‘namepackage/DESCRIPTION’ ... OK
> > * checking extension type ... Package
> > * this is package ‘namepackage’ version ‘1.1.2’
> > * checking CRAN incoming feasibility ... Note_to_CRAN_maintainers
> > * checking package namespace information ... OK
> > * checking package dependencies ... OK
> > * checking if this is a source package ... ERROR Only *source* packages
> can be checked.
> > * DONE
> > Status: 1 ERROR
> >
> > Best regards,
> > Ilaria
> >
> > __
> > 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
>
>
>
> --
> http://hadley.nz
>
> __
> R-package-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-package-devel
>
--
Dev Chakraborty, PhD
Professor of Radiology retired
CEO, ExpertCAD Analytics LLC
412-480-7318 (cell)
(412) 427-5085 (alt. cell)
412-349-5305 (land line)
*Book website:*
https://www.crcpress.com/9781482214840
*Online supplementary material website:*
https://bitbucket.org/dpc10ster/onlinebookk21778
<https://www.crcpress.com/9781482214840>
*CAD Project website:*
www.expertcadanalytics.com
*JAFROC website*
www.devchakraborty.com
[[alternative HTML version deleted]]
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Re: [R-pkg-devel] Solaris and ggplot2
Thanks Kevin; I took care of that error but was unable to check my fix on r-hub solaris because ggplot failed to load on solaris; could it be that CRAN uses a different version of solaris that allows ggplot to load? Dev On Tue, Feb 13, 2018 at 6:50 PM Kevin Ushey <kevinus...@gmail.com> wrote: > Hi, > > Glancing at the R CMD check errors, available at: > > > https://www.r-project.org/nosvn/R.check/r-patched-solaris-x86/RJafroc-00install.html > ) > > It seems like the issues relate to ambiguous calls to 'sqrt()'. This > particular issue is discussed in R-exts, at: > > > https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Portable-C-and-C_002b_002b-code > > You would likely be able to resolve this by calling e.g. 'sqrt(2.0)' > instead of 'sqrt(2)'. > > Best, > Kevin > > On Tue, Feb 13, 2018 at 2:58 PM, Dev Chakraborty <dpc10s...@gmail.com> > wrote: > > My package RJafroc, which is currently on CRAN, passes all operating > > systems except solaris-x86-patched, and as a result has been flagged for > > removal. Using R-hub builder, I am unable to reproduce the log file > because > > a required package, ggplot2, does not exist for Solaris. I found the > > following conversation on GitHub at the following URL: > > https://github.com/tidyverse/ggplot2/issues/2273 (the conversation is > > reproduced below). > > > > Could use any advice. Thanks. > > > > Dev > > > > ** > > tdhock commented on Sep 23, 2017 > > Hey there, it seems that ggplot2 on CRAN has an ERROR on solaris > > https://www.r-project.org/nosvn/R.check/r-patched-so > > laris-x86/ggplot2-00check.html because of a test about date scales that > > does not pass. Do you have any plan to fix? > > > > This is an issue for me because I have a package that imports ggplot2, > and > > I would like to use rhub to check it on solaris before submitting it to > > CRAN. *However rhub can not perform the check because the ggplot2 package > > is not available on solaris*. Here is the related issue at rhub > > r-hub/rhub#83 > > > > @hadley > > Owner > > hadley commented on Oct 30, 2017 > > *Probably not, since solaris is going away.* > > > > [[alternative HTML version deleted]] > > > > __ > > R-package-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/r-package-devel > -- Dev Chakraborty, PhD Professor of Radiology retired CEO, ExpertCAD Analytics LLC 412-480-7318 (cell) (412) 427-5085 (alt. cell) 412-349-5305 (land line) *Book website:* https://www.crcpress.com/9781482214840 *Online supplementary material website:* https://bitbucket.org/dpc10ster/onlinebookk21778 <https://www.crcpress.com/9781482214840> *CAD Project website:* www.expertcadanalytics.com *JAFROC website* www.devchakraborty.com [[alternative HTML version deleted]] __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Solaris and ggplot2
My package RJafroc, which is currently on CRAN, passes all operating systems except solaris-x86-patched, and as a result has been flagged for removal. Using R-hub builder, I am unable to reproduce the log file because a required package, ggplot2, does not exist for Solaris. I found the following conversation on GitHub at the following URL: https://github.com/tidyverse/ggplot2/issues/2273 (the conversation is reproduced below). Could use any advice. Thanks. Dev ** tdhock commented on Sep 23, 2017 Hey there, it seems that ggplot2 on CRAN has an ERROR on solaris https://www.r-project.org/nosvn/R.check/r-patched-so laris-x86/ggplot2-00check.html because of a test about date scales that does not pass. Do you have any plan to fix? This is an issue for me because I have a package that imports ggplot2, and I would like to use rhub to check it on solaris before submitting it to CRAN. *However rhub can not perform the check because the ggplot2 package is not available on solaris*. Here is the related issue at rhub r-hub/rhub#83 @hadley Owner hadley commented on Oct 30, 2017 *Probably not, since solaris is going away.* [[alternative HTML version deleted]] __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Help with CRAN error
Thanks for your suggestion. I do a published book that describes what this package does. Dev On Sun, Feb 4, 2018 at 2:44 PM, Roy Mendelssohn - NOAA Federal < roy.mendelss...@noaa.gov> wrote: > Glad you found the solution. I would add as an aside, I have found a > good vignette is worth the effort. R docs tend to be like Unix docs, > relatively short and terse and can be hard for someone not familiar with > the package what all the options might do. A good vignette allows you to > lay out in detail how to use the package, and to do so in context. > > -Roy > > > On Feb 4, 2018, at 11:32 AM, Dev Chakraborty <dpc10s...@gmail.com> > wrote: > > > > Roy, > > > > I don't use a knitR file, but my DESCRIPTION file had a field: > > > > VignetteBuilder: knitr > > > > Deleting this field solved the problem (i.e., got rid of that message in > my original email) > > > > Thanks for all your help. > > > > Dev > > > > > > > > On Sun, Feb 4, 2018 at 2:05 PM, Roy Mendelssohn - NOAA Federal < > roy.mendelss...@noaa.gov> wrote: > > If you can't find the solution yourself, posting the top matter of your > vignette file would also help. > > > > -Roy > > > > > On Feb 4, 2018, at 10:54 AM, Joshua Ulrich <josh.m.ulr...@gmail.com> > wrote: > > > > > > On Sun, Feb 4, 2018 at 12:47 PM, Dev Chakraborty <dpc10s...@gmail.com> > wrote: > > >> Dear All, > > >> > > >> I get the following message on running R CMD check -- as - cran: > > >> > > >> Package has a VignetteBuilder field but no prebuilt vignette index. > > >> > > >> I do not know how to fix this. Any help will be appreciated. > > >> > > > I don't know how to fix it either. That said, often a great first > > > step is to search for the error. A Google search for, "Package has a > > > VignetteBuilder field but no prebuilt vignette index.", which points > > > to: https://stackoverflow.com/q/30976308. > > > > > > And a Google search "VignetteBuilder" has several promising "how to" > > > results, and there is a "Non-Sweave Vignettes" section of Writing R > > > Extensions: > > > https://cran.r-project.org/doc/manuals/r-release/R-exts. > html#Non_002dSweave-vignettes. > > > > > > It will be easier for others to help you if you can do some > > > investigation on your own and come back with more specifics. > > > > > >> Sincerely, > > >> > > >> Dev > > >> > > >> > > >> -- > > >> Dev Chakraborty, PhD > > >> Professor of Radiology retired > > >> > > >>[[alternative HTML version deleted]] > > >> > > >> __ > > >> R-package-devel@r-project.org mailing list > > >> https://stat.ethz.ch/mailman/listinfo/r-package-devel > > > > > > > > > > > > -- > > > Joshua Ulrich | about.me/joshuaulrich > > > FOSS Trading | www.fosstrading.com > > > R/Finance 2018 | www.rinfinance.com > > > > > > __ > > > R-package-devel@r-project.org mailing list > > > https://stat.ethz.ch/mailman/listinfo/r-package-devel > > > > ** > > "The contents of this message do not reflect any position of the U.S. > Government or NOAA." > > ** > > Roy Mendelssohn > > Supervisory Operations Research Analyst > > NOAA/NMFS > > Environmental Research Division > > Southwest Fisheries Science Center > > ***Note new street address*** > > 110 McAllister Way > > Santa Cruz, CA 95060 > > Phone: (831)-420-3666 > > Fax: (831) 420-3980 > > e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/ > > > > "Old age and treachery will overcome youth and skill." > > "From those who have been given much, much will be expected" > > "the arc of the moral universe is long, but it bends toward justice" > -MLK Jr. > > > > > > > > > > -- > > Dev Chakraborty, PhD > > Professor of Radiology retired > > CEO, ExpertCAD Analytics LLC > > 412-480-7318 (cell) > > (412) 427-5085 (alt. cell) > > 412-349-5305 (land line) > > > > Book website: > > https://www.crcpress.com/9781482214840 > > Online supplementary material website: > >
Re: [R-pkg-devel] Help with CRAN error
Roy, I don't use a knitR file, but my DESCRIPTION file had a field: VignetteBuilder: knitr Deleting this field solved the problem (i.e., got rid of that message in my original email) Thanks for all your help. Dev On Sun, Feb 4, 2018 at 2:05 PM, Roy Mendelssohn - NOAA Federal < roy.mendelss...@noaa.gov> wrote: > If you can't find the solution yourself, posting the top matter of your > vignette file would also help. > > -Roy > > > On Feb 4, 2018, at 10:54 AM, Joshua Ulrich <josh.m.ulr...@gmail.com> > wrote: > > > > On Sun, Feb 4, 2018 at 12:47 PM, Dev Chakraborty <dpc10s...@gmail.com> > wrote: > >> Dear All, > >> > >> I get the following message on running R CMD check -- as - cran: > >> > >> Package has a VignetteBuilder field but no prebuilt vignette index. > >> > >> I do not know how to fix this. Any help will be appreciated. > >> > > I don't know how to fix it either. That said, often a great first > > step is to search for the error. A Google search for, "Package has a > > VignetteBuilder field but no prebuilt vignette index.", which points > > to: https://stackoverflow.com/q/30976308. > > > > And a Google search "VignetteBuilder" has several promising "how to" > > results, and there is a "Non-Sweave Vignettes" section of Writing R > > Extensions: > > https://cran.r-project.org/doc/manuals/r-release/R-exts. > html#Non_002dSweave-vignettes. > > > > It will be easier for others to help you if you can do some > > investigation on your own and come back with more specifics. > > > >> Sincerely, > >> > >> Dev > >> > >> > >> -- > >> Dev Chakraborty, PhD > >> Professor of Radiology retired > >> > >>[[alternative HTML version deleted]] > >> > >> __ > >> R-package-devel@r-project.org mailing list > >> https://stat.ethz.ch/mailman/listinfo/r-package-devel > > > > > > > > -- > > Joshua Ulrich | about.me/joshuaulrich > > FOSS Trading | www.fosstrading.com > > R/Finance 2018 | www.rinfinance.com > > > > __ > > R-package-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/r-package-devel > > ** > "The contents of this message do not reflect any position of the U.S. > Government or NOAA." > ** > Roy Mendelssohn > Supervisory Operations Research Analyst > NOAA/NMFS > Environmental Research Division > Southwest Fisheries Science Center > ***Note new street address*** > 110 McAllister Way > Santa Cruz, CA 95060 > Phone: (831)-420-3666 > Fax: (831) 420-3980 > e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/ > > "Old age and treachery will overcome youth and skill." > "From those who have been given much, much will be expected" > "the arc of the moral universe is long, but it bends toward justice" -MLK > Jr. > > -- Dev Chakraborty, PhD Professor of Radiology retired CEO, ExpertCAD Analytics LLC 412-480-7318 (cell) (412) 427-5085 (alt. cell) 412-349-5305 (land line) *Book website:* https://www.crcpress.com/9781482214840 *Online supplementary material website:* https://bitbucket.org/dpc10ster/onlinebookk21778 <https://www.crcpress.com/9781482214840> *CAD Project website:* www.expertcadanalytics.com *JAFROC website* www.devchakraborty.com [[alternative HTML version deleted]] __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Help with CRAN error
Dear All, I get the following message on running R CMD check -- as - cran: Package has a VignetteBuilder field but no prebuilt vignette index. I do not know how to fix this. Any help will be appreciated. Sincerely, Dev -- Dev Chakraborty, PhD Professor of Radiology retired [[alternative HTML version deleted]] __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Help with correcting error in package
Thank you; this is most helpful; Dev
On Sat, Feb 3, 2018 at 1:16 PM, Joshua Ulrich <josh.m.ulr...@gmail.com>
wrote:
> On Sat, Feb 3, 2018 at 11:44 AM, Dev Chakraborty <dpc10s...@gmail.com>
> wrote:
> > Dear All,
> >
> > I tried unsuccessfully to upload a package named RJafroc to CRAN. On my
> OSX
> > machine it passes R CMD Check with no errors, warnings or notes.
> However, I
> > get the following output from CRAN, from which I cannot tell which
> function
> > is causing the error (I am truncating the intermediate lines, which
> appear
> > to be the opening screen upon starting R, with ellipses; the full output
> > produced by the CRAN pre-test is attached):
> >
> Submit your package to http://win-builder.r-project.org. That will
> provide you access to all the output in the Rcheck.RJafroc directory.
>
> Also note that the "Confirmation" step of the submission process
> suggests, "You could [run R CMD check] using the win-builder service
> at http://win-builder.r-project.org;. And the CRAN Repository Policy
> says, "It should be normal for those without Windows machines of their
> own to use the winbuilder service to check a package before
> submission." You could also use https://builder.r-hub.io/. Both are
> great resources for the community.
>
> >
> >
> > *** running examples for arch 'x64' ... ERROR*
> >
> >
> > *Running examples in 'RJafroc-Ex.R' failed*
> >
> >
> > *The error occurred in:*
> >
> >
> > *R Under development (unstable) (2018-02-01 r74194) -- "Unsuffered
> > Consequences"*
> >
> > *Copyright (C) 2018 The R Foundation for Statistical Computing*
> >
> > *Platform: x86_64-w64-mingw32/x64 (64-bit)*
> >
> >
> > *R is free software and comes with ABSOLUTELY NO WARRANTY.*
> >
> > *You are welcome to redistribute it under certain conditions*
> >
> >
> > *...*
> >
> > *...*
> >
> > *Type 'q()' to quit R.*
> >
> >
> > *> pkgname <- "RJafroc"*
> >
> > *> source(file.path(R.home("share"), "R", "examples-header.R"))*
> >
> >
> > Thanking you in advance for any help rendered,
> >
> > Sincerely,
> >
> > Dev
> >
> > --
> > Dev Chakraborty, PhD
> > Professor of Radiology, retired
> > __
> > R-package-devel@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-package-devel
>
>
>
> --
> Joshua Ulrich | about.me/joshuaulrich
> FOSS Trading | www.fosstrading.com
> R/Finance 2018 | www.rinfinance.com
>
--
Dev Chakraborty, PhD
Professor of Radiology retired
CEO, ExpertCAD Analytics LLC
412-480-7318 (cell)
(412) 427-5085 (alt. cell)
412-349-5305 (land line)
*Book website:*
https://www.crcpress.com/9781482214840
*Online supplementary material website:*
https://bitbucket.org/dpc10ster/onlinebookk21778
<https://www.crcpress.com/9781482214840>
*CAD Project website:*
www.expertcadanalytics.com
*JAFROC website*
www.devchakraborty.com
[[alternative HTML version deleted]]
__
R-package-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-package-devel
[R-pkg-devel] Help with correcting error in package
Dear All,
I tried unsuccessfully to upload a package named RJafroc to CRAN. On my OSX
machine it passes R CMD Check with no errors, warnings or notes. However, I
get the following output from CRAN, from which I cannot tell which function
is causing the error (I am truncating the intermediate lines, which appear
to be the opening screen upon starting R, with ellipses; the full output
produced by the CRAN pre-test is attached):
*** running examples for arch 'x64' ... ERROR*
*Running examples in 'RJafroc-Ex.R' failed*
*The error occurred in:*
*R Under development (unstable) (2018-02-01 r74194) -- "Unsuffered
Consequences"*
*Copyright (C) 2018 The R Foundation for Statistical Computing*
*Platform: x86_64-w64-mingw32/x64 (64-bit)*
*R is free software and comes with ABSOLUTELY NO WARRANTY.*
*You are welcome to redistribute it under certain conditions*
*...*
*...*
*Type 'q()' to quit R.*
*> pkgname <- "RJafroc"*
*> source(file.path(R.home("share"), "R", "examples-header.R"))*
Thanking you in advance for any help rendered,
Sincerely,
Dev
--
Dev Chakraborty, PhD
Professor of Radiology, retired
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