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

Gianmarco Alberti g|@nm@rco@|bert| @end|ng |rom gm@||@com
Wed Jul 7 22:21:06 CEST 2021 

Dear All,
Thanks for the useful discussion.

After Uwe’s prompt, I have tested the package again, and everything is fine now.
Was it a CRAN issue?

Whatever the issue was, I am glad my new version is bound to be on CRAN soon (I have just submitted it).

Best
Gianmarco

************************************************
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://www.researchgate.net/profile/Gianmarco_Alberti4
https://malta.academia.edu/GianmarcoAlberti

Google Scholar profile
https://scholar.google.com/citations?user=tFrJKQ0AAAAJ&hl=en

Correspondence Analysis website
http://cainarchaeology.weebly.com/

R packages on CRAN:
CAinterprTools
https://cran.r-project.org/web/packages/CAinterprTools/index.html

GmAMisc
https://cran.r-project.org/package=GmAMisc

movecost
https://cran.r-project.org/web/packages/movecost/index.html
************************************************
On 7 Jul 2021, 16:47 +0200, Uwe Ligges <ligges using statistik.tu-dortmund.de>, wrote:
> 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
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> > > > >
> > > > > Google Scholar profile
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> > > > >
> > > > > 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
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> > > > >
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> > > > >
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