[Bioc-devel] Builds suddenly failing

Kern, Lori Lor|@Shepherd @end|ng |rom Ro@we||P@rk@org
Tue Nov 29 13:56:14 CET 2022

I can reproduce this locally using the most recent R and packages. It could be a dependency of your package changed or a change in base R itself.  Please investigate and make sure you are using the latest version of R and all the latest versions of Bioconductor/R packages.
BiocManager::install / BiocManager::valid can assist in making sure all dependent packages are up-to-date.


Lori Shepherd - Kern

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Garrett Jenkinson <gargar934 using gmail.com>
Sent: Tuesday, November 29, 2022 7:45 AM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: [Bioc-devel] Builds suddenly failing

I recently (over past couple weeks) started receiving notices like the one below, despite not having pushed any changes to my package for quite some time (and all builds passing previously). Was there a change to the build system or requirements that could be causing this?

Thank you,

> On Nov 28, 2022, at 11:00 AM, BBS-noreply using bioconductor.org wrote:
> [This is an automatically generated email. Please don't reply.]
> Hi borealis maintainer,
> According to the Multiple platform build/check report for BioC 3.16,
> the borealis package has the following problem(s):
>  o ERROR for 'R CMD build' on nebbiolo2. See the details here:
>      https://secure-web.cisco.com/1yYO2YUe1UiuNkFx0y64nsi6WQNfgKzqbJOCD-Fyq9tB_EQ2UIKmRoVx3OJB_9XnqK4BaciWccM7ppHEsACYoovKith-vZ8LQ3ZxIk6ytI-zRwqQzi5SBOU8TN9MivO3ffF0Lf2EGRixdhx_m9HdpqtXeCxei1t-THmtCztDyJb71d9o3WBJN9LIvWhygfiSouoWWKymcKae4Ea8AuCsD0VDhe_g8Od5_XDLkzIdQMmiCkdx4hnXuQeN0J1m4MB5L8wF1rX5NBs4U67NQVa8i2wT2qNomo1JZWdmpFbDTZtrA5VrT2aAlZJr0DmYzOLqD/https%3A%2F%2Fmaster.bioconductor.org%2FcheckResults%2F3.16%2Fbioc-LATEST%2Fborealis%2Fnebbiolo2-buildsrc.html
> Please take the time to address this by committing and pushing
> changes to your package at git.bioconductor.org
> Notes:
>  * This was the status of your package at the time this email was sent to you.
>    Given that the online report is updated daily (in normal conditions) you
>    could see something different when you visit the URL(s) above, especially if
>    you do so several days after you received this email.
>  * It is possible that the problems reported in this report are false positives,
>    either because another package (from CRAN or Bioconductor) breaks your
>    package (if yours depends on it) or because of a Build System problem.
>    If this is the case, then you can ignore this email.
>  * Please check the report again 24h after you've committed your changes to the
>    package and make sure that all the problems have gone.
>  * If you have questions about this report or need help with the
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>    (all package maintainers are requested to subscribe to this list)
> For immediate notification of package build status, please
> subscribe to your package's RSS feed. Information is at:
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> Thanks for contributing to the Bioconductor project!

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