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[R-pkg-devel] unexpected CRAN pretest failure

5 messages · Uwe Ligges, Joshua Ulrich, Rossum, Bart-Jan van

Original
Rossum, Bart-Jan van
# 
Dear community,

When trying to update my CRAN (https://cran.r-project.org/web/packages/statgenGxE/index.html) package in ran into unexpected error on Windows.
I had tested before submission on R-hub, which went fine, but CRAN complained, and this was confirmed on Winbuilder.
I noticed a slight difference in R-version used on CRAN/Winbuilder and R-hub.
However, the error itself seems to come from an lme4 function. 
I'm quite clueless on how to debug/fix this. 

CRAN and Winbuilder:
R Under development (unstable) (2020-12-13 r79623)
https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwin-builder.r-project.org%2FnK0OMOQ378SI&data=04%7C01%7Cbart-jan.vanrossum%40wur.nl%7C0bf8357a13b84c807ad708d8a0308e40%7C27d137e5761f4dc1af88d26430abb18f%7C0%7C0%7C637435477692513415%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=HqExR7SELQ7U32H67xF3ufPKxyTZm3162ZiGb6YetI8%3D&reserved=0

R-hub:
R Under development (unstable) (2020-11-30 r79529)
https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbuilder.r-hub.io%2Fstatus%2FstatgenGxE_1.0.4.tar.gz-fcc1e205a5fb4fd09559d301ee3502c9&data=04%7C01%7Cbart-jan.vanrossum%40wur.nl%7Cce0d271db460494b5a6908d8a0248bc0%7C27d137e5761f4dc1af88d26430abb18f%7C0%7C0%7C637435426112472834%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=j2RrXotL3qz5r1O6gcfXxb1VH8WuM2UaWaYQ5SnQFz0%3D&reserved=0

Any pointers are appreciated,
Bart-Jan
2 days later
Uwe Ligges
# 
This is form a change in R-devel.
Use a more recent R-devel to reproduce the issue.

Best,
Uwe Ligges
On 14.12.2020 15:02, Rossum, Bart-Jan van wrote:
Rossum, Bart-Jan van
# 
Dear Uwe,

Thanks for your reaction.
I installed the latest available R-devel version (2020-12-15 r79633) on my own windows pc, but even then the checks pas cleanly.
So, unfortunately I'm not able to reproduce the issue.

To be sure, I also retried on Winbuilder, which has a slightly different version (r79643), but there the issue is still present. 

Could there be something else I need to do to be able to reproduce this locally?

Regards,
Bart-Jan

-----Original Message-----
From: Uwe Ligges <ligges at statistik.tu-dortmund.de> 
Sent: Thursday, December 17, 2020 13:29
To: Rossum, Bart-Jan van <bart-jan.vanrossum at wur.nl>; r-package-devel at r-project.org
Subject: Re: [R-pkg-devel] unexpected CRAN pretest failure

This is form a change in R-devel.
Use a more recent R-devel to reproduce the issue.

Best,
Uwe Ligges
On 14.12.2020 15:02, Rossum, Bart-Jan van wrote:
Joshua Ulrich
# 
On Thu, Dec 17, 2020 at 7:25 AM Rossum, Bart-Jan van
<bart-jan.vanrossum at wur.nl> wrote:
I assume you used the pre-compiled version here:
https://cran.r-project.org/bin/windows/base/rdevel.html

That version probably lags behind the subversion repo for about a day.
So you need to build the latest R-devel from the latest source in the
subversion repo. It always has the latest version. Rocker and r-hub
help make this much easier than setting everything up locally on your
machine.

That said, it looks like the pre-compiled version is at r79643 now, so
you should be able to use it to reproduce the issue.

Best,
Josh
--
Joshua Ulrich  |  about.me/joshuaulrich
FOSS Trading  |  www.fosstrading.com
Rossum, Bart-Jan van
# 
I used that pre-compiled version indeed. I tried the latest version again this morning, it is now at r79645, and still all checks pass cleanly.

I also reran the r-hub and winbuilder checks this morning.
r-hub is at now at version r79633, the version where I first noted the issue with CRAN/winbuilder and it passes there as well.
However the issue is still present on winbuilder (r79643)

So still not able to reproduce the issue.

Best, Bart-Jan

-----Original Message-----
From: Joshua Ulrich <josh.m.ulrich at gmail.com> 
Sent: Thursday, December 17, 2020 18:07
To: Rossum, Bart-Jan van <bart-jan.vanrossum at wur.nl>
Cc: Uwe Ligges <ligges at statistik.tu-dortmund.de>; r-package-devel at r-project.org
Subject: Re: [R-pkg-devel] unexpected CRAN pretest failure
On Thu, Dec 17, 2020 at 7:25 AM Rossum, Bart-Jan van <bart-jan.vanrossum at wur.nl> wrote:
I assume you used the pre-compiled version here:
https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcran.r-project.org%2Fbin%2Fwindows%2Fbase%2Frdevel.html&amp;data=04%7C01%7Cbart-jan.vanrossum%40wur.nl%7Ccd5c0ba9587e4dcf87ce08d8a2ae3c33%7C27d137e5761f4dc1af88d26430abb18f%7C0%7C0%7C637438216965842718%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&amp;sdata=JhNcdzrAauc3%2FyB84lVtVD4ySNXD4jEPhys9X2W%2Bb7k%3D&amp;reserved=0

That version probably lags behind the subversion repo for about a day.
So you need to build the latest R-devel from the latest source in the subversion repo. It always has the latest version. Rocker and r-hub help make this much easier than setting everything up locally on your machine.

That said, it looks like the pre-compiled version is at r79643 now, so you should be able to use it to reproduce the issue.

Best,
Josh
--
Joshua Ulrich  |  about.me/joshuaulrich
FOSS Trading  |  https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.fosstrading.com%2F&amp;data=04%7C01%7Cbart-jan.vanrossum%40wur.nl%7Ccd5c0ba9587e4dcf87ce08d8a2ae3c33%7C27d137e5761f4dc1af88d26430abb18f%7C0%7C0%7C637438216965852712%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&amp;sdata=qVVHtq9MBbGBaEDMAIEf1AYv4tcboS2KEzmCc2ocmoE%3D&amp;reserved=0