[R-pkg-devel] package test returns error when R version 4.1.0

Uwe Ligges ||gge@ @end|ng |rom @t@t|@t|k@tu-dortmund@de
Wed Jul 7 16:46:49 CEST 2021 

Can you pls try again now.

Best,
Uwe Ligges

On 06.07.2021 23:18, Murray Efford wrote:
> I also get from Winbuilder:
> 
> ** byte-compile and prepare package for lazy loading
> ERROR: lazy loading failed for package 'secr'
> 
> even for the tar.gz of the version secr 4.4.4 that currently passes all checks on CRAN. Perhaps it is significant that secr also imports from raster that had a new version on CRAN 18th June.
> 
> Murray Efford
> 
> ________________________________________
> From: R-package-devel <r-package-devel-bounces using r-project.org> on behalf of Duncan Murdoch <murdoch.duncan using gmail.com>
> Sent: 07 July 2021 08:28
> To: Alex Chubaty
> Cc: r-package-devel using r-project.org
> Subject: Re: [R-pkg-devel] package test returns error when R version 4.1.0
> 
> On 06/07/2021 4:15 p.m., Alex Chubaty wrote:
>> Thanks for the suggestion Duncan.
>>
>> The same code version ran on winbuilder last week, but it's broken this
>> week.
> 
> If that happened with a released version of R, then it could be that
> some new package version is causing the problem, or it could be a
> transient problem on Winbuilder.
> 
> Devel versions of R change every day, so there are more possibilities
> for origins of the problem there.
> 
> Duncan Murdoch
> 
>>
>> I'll compare the dependencies between the two packages and focus on
>> those used by both for now, to see if it's caused by a broken dependency.
>>
>> Alex
>>
>>
>> On Tue, Jul 6, 2021 at 2:08 PM Duncan Murdoch <murdoch.duncan using gmail.com
>> <mailto:murdoch.duncan using gmail.com>> wrote:
>>
>>      Both NegLogoR and movecost have a lot of hard dependencies -- so many
>>      that I'm unwilling to install them with the limited bandwidth that I
>>      have right now.  I suspect that's related to the problem:  some
>>      dependency install is failing, and that causes something else to fail,
>>      and that leads to the not-very-informative failure messages.
>>
>>      This kind of problem is quite a lot of work to debug.  If I were going
>>      to attempt to do it, I would go for a bisection strategy:
>>
>>         - Do you have any old revision which succeeds?  If so, use bisection
>>      on the revisions until you find the change which first triggers the
>>      error.
>>
>>         - Perhaps no versions succeed, because something external to your
>>      package has triggered the error.  In this case, bisection would work on
>>      the dependencies:  cut out half of the dependencies and all the code
>>      that depends on those.  Have you fixed the error?  If so, add back half
>>      of the dependencies, otherwise cut out half of the remaining ones.
>>
>>         - If you're still getting the errors after cutting out all of the
>>      dependencies, then start cutting out code and data. Etc.
>>
>>      In any case, try to find a version of the package that doesn't trigger
>>      the error, and a minimal change to it that does.  Then perhaps you'll
>>      understand the root cause of the error.
>>
>>      Duncan Murdoch
>>
>>      On 06/07/2021 3:11 p.m., Alex Chubaty wrote:
>>       > FWIW I'm having the same issue with package NetLogoR (
>>       > https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FPredictiveEcology%2FNetLogoR%2F&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078338060%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=5XPRhpw3sUyHbOiiupslC%2BZ0pCxcvNekFmWzmZkQPig%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FPredictiveEcology%2FNetLogoR%2F&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=faXwrXOP1RHKEsPrqjmOhg4O8MWayRou6%2B1Y%2BPIj%2FuY%3D&reserved=0>)
>>       >
>>       > Passing windows tests locally but code can't be lazy loaded on
>>      winbuilder,
>>       > except for oldrel.
>>       >
>>       > Alex
>>       >
>>       >
>>       >
>>       >
>>       >
>>       > On Tue, Jul 6, 2021 at 10:18 AM Gianmarco Alberti <
>>       > gianmarcoalberti using gmail.com <mailto:gianmarcoalberti using gmail.com>>
>>      wrote:
>>       >
>>       >> Thank you all. I appreciate your help and discussion so far.
>>       >>
>>       >> To complicate the matter further, I have done an experiment. I
>>      have tried
>>       >> to test a new version which is 99.9% identical to the last
>>      official one on
>>       >> CRAN because I wanted to understand if the issue was with some
>>      new code
>>       >> added to the version I have been testing in the last couple of days.
>>       >>
>>       >> The new version 1.2 (virtually identical to the 1.1 on CRAN) did
>>      not pass
>>       >> the tests as per my earlier description. Same errors. The only
>>      Ok is on my
>>       >> computer and with devtools’ winoldrealeases()
>>       >>
>>       >> I really don’t know that to do next.
>>       >>
>>       >> Best
>>       >> Gm
>>       >>
>>       >> ************************************************
>>       >> Dr Gianmarco Alberti (PhD Udine)
>>       >> Lecturer in Spatial Forensics
>>       >> Coordinator of the BA dissertations
>>       >> Department of Criminology
>>       >> Faculty for Social Wellbeing
>>       >> Room 332, Humanities B (FEMA)
>>       >> University of Malta, Msida, Malta (Europe) - MSD 2080
>>       >> tel +356 2340 3718
>>       >>
>>       >> Academic profiles
>>       >> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.researchgate.net%2Fprofile%2FGianmarco_Alberti4&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=03qtEfvqo6lqgqCe7QRBIOLM%2BSHSNDAEFqOwPT25pnc%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.researchgate.net%2Fprofile%2FGianmarco_Alberti4&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=03qtEfvqo6lqgqCe7QRBIOLM%2BSHSNDAEFqOwPT25pnc%3D&reserved=0>
>>       >> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmalta.academia.edu%2FGianmarcoAlberti&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=S9uUT6rfFrnB2Fhic84eYMuhA3qZ23HMhbYXANLCEbI%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmalta.academia.edu%2FGianmarcoAlberti&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=S9uUT6rfFrnB2Fhic84eYMuhA3qZ23HMhbYXANLCEbI%3D&reserved=0>
>>       >>
>>       >> Google Scholar profile
>>       >> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.google.com%2Fcitations%3Fuser%3DtFrJKQ0AAAAJ%26hl%3Den&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=ktVjpaYkTtPx0%2BniHOTrq8Bz2FkegI8QMWkpcU%2B%2BY1s%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.google.com%2Fcitations%3Fuser%3DtFrJKQ0AAAAJ%26hl%3Den&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=ktVjpaYkTtPx0%2BniHOTrq8Bz2FkegI8QMWkpcU%2B%2BY1s%3D&reserved=0>
>>       >>
>>       >> Correspondence Analysis website
>>       >> https://apc01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcainarchaeology.weebly.com%2F&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=y5f2wO8GCmbcuACuiIjhvlmnczh3N096S%2BLfXUMnG9g%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcainarchaeology.weebly.com%2F&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=y5f2wO8GCmbcuACuiIjhvlmnczh3N096S%2BLfXUMnG9g%3D&reserved=0>
>>       >>
>>       >> R packages on CRAN:
>>       >> CAinterprTools
>>       >>
>>      https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fweb%2Fpackages%2FCAinterprTools%2Findex.html&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=DkyH2A6ZVY4BAwEw%2BxVxEp6xVCN1fZWvxKqH7nR3OFI%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fweb%2Fpackages%2FCAinterprTools%2Findex.html&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=DkyH2A6ZVY4BAwEw%2BxVxEp6xVCN1fZWvxKqH7nR3OFI%3D&reserved=0>
>>       >>
>>       >> GmAMisc
>>       >> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fpackage%3DGmAMisc&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=SKhC8DWY62W2hmb%2BSSnu7yQ49ysHRKW1o6M1DXq3XeU%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fpackage%3DGmAMisc&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=SKhC8DWY62W2hmb%2BSSnu7yQ49ysHRKW1o6M1DXq3XeU%3D&reserved=0>
>>       >>
>>       >> movecost
>>       >> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fweb%2Fpackages%2Fmovecost%2Findex.html&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=ZoZci%2FxGKJPeWZsLFfjR5wC0nlqKMc4BUguMRoKdctI%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fweb%2Fpackages%2Fmovecost%2Findex.html&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=ZoZci%2FxGKJPeWZsLFfjR5wC0nlqKMc4BUguMRoKdctI%3D&reserved=0>
>>       >> ************************************************
>>       >> Il 6 lug 2021, 14:53 +0200, brodie gaslam via R-package-devel <
>>       >> r-package-devel using r-project.org
>>      <mailto:r-package-devel using r-project.org>>, ha scritto:
>>       >>>
>>       >>>> On Tuesday, July 6, 2021, 8:09:18 AM EDT, dbosak01 using gmail.com
>>      <mailto:dbosak01 using gmail.com> <
>>       >> dbosak01 using gmail.com <mailto:dbosak01 using gmail.com>> wrote:
>>       >>>>
>>       >>>> Martin:
>>       >>>>
>>       >>>> What I suggested was he remove the LazyData entry from the
>>      description
>>       >> file
>>       >>>> if he was NOT lazy loading data.  If someone is lazy loading data,
>>       >> then that
>>       >>>> is a different situation, and they obviously need to set the
>>      entry.
>>       >>>>
>>       >>>> But clearly Gm has a different problem.  He has now tried
>>      "LazyData:
>>       >> true",
>>       >>>> "LazyData: false", and removing the LazyData entry entirely.
>>      And he is
>>       >>>> still getting this error:
>>       >>>>
>>       >>>> * installing *source* package 'movecost' ...
>>       >>>> ** using staged installation
>>       >>>> ** R
>>       >>>> ** data
>>       >>>> ** byte-compile and prepare package for lazy loading
>>       >>>> ERROR: lazy loading failed for package 'movecost'
>>       >>>> * removing 'd:/RCompile/CRANguest/R-release/lib/movecost'
>>       >>>
>>       >>> FWIW I think this is lazy loading of the code, which I think is
>>       >>> different to what LazyData controls.  This is described in
>>       >>> R-Internals:
>>       >>>
>>       >>> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fdoc%2Fmanuals%2FR-ints.html%23Lazy-loading&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=h%2FGUwYdqUFaP7y2R9r%2BD40xKGAQ3A7igBm0PWP9%2BlpM%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fdoc%2Fmanuals%2FR-ints.html%23Lazy-loading&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078348021%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=h%2FGUwYdqUFaP7y2R9r%2BD40xKGAQ3A7igBm0PWP9%2BlpM%3D&reserved=0>
>>       >>>
>>       >>> I know nothing about it so I will not comment further.
>>       >>>
>>       >>> Best,
>>       >>>
>>       >>> B.
>>       >>>
>>       >>> ______________________________________________
>>       >>> R-package-devel using r-project.org
>>      <mailto:R-package-devel using r-project.org> mailing list
>>       >>> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-package-devel&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078357978%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=qdOZZ66nPru98mfJQfM6X2A5dJ71uGdmfuqdgaMTd0c%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-package-devel&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078357978%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=qdOZZ66nPru98mfJQfM6X2A5dJ71uGdmfuqdgaMTd0c%3D&reserved=0>
>>       >>
>>       >>          [[alternative HTML version deleted]]
>>       >>
>>       >> ______________________________________________
>>       >> R-package-devel using r-project.org
>>      <mailto:R-package-devel using r-project.org> mailing list
>>       >> https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-package-devel&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078357978%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=qdOZZ66nPru98mfJQfM6X2A5dJ71uGdmfuqdgaMTd0c%3D&reserved=0
>>      <https://apc01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-package-devel&data=04%7C01%7Cmurray.efford%40otago.ac.nz%7C0215a2eac18a47b8f63108d940bcd5d9%7C0225efc578fe4928b1579ef24809e9ba%7C1%7C0%7C637612003078357978%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=qdOZZ66nPru98mfJQfM6X2A5dJ71uGdmfuqdgaMTd0c%3D&reserved=0>
>>       >>
>>       >
>>       >       [[alternative HTML version deleted]]
>>       >
>>       > ______________________________________________
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