[Bioc-devel] ClusterJudge problems reported in the build/check

[Kern, Lori]

Did you remember to do a version bump when submitting the changes?  It does not appear so.  The build machines will not recognize code changes without a valid version bump.  You should increase from 1.13.0 to 1.13.1 for the new changes to propagate and be available through BiocManager::install


Lori Shepherd

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 Adrian Pasculescu <a.pasculescu using gmail.com>
Sent: Wednesday, March 3, 2021 3:05 PM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: [Bioc-devel] ClusterJudge problems reported in the build/check

Hi all,

It seems that Bioconductor multi build/check does NOT use the updated git
of ClusterJudge package.  Here is the error reported:
https://secure-web.cisco.com/1FX8bgt-e3UVIXqqb7o-7tSGAl8so3G6pjPwwojk2QQzE8FVPxXkMmYTi6Ve9UfBEwCb6W1vcnFTrU3_U86EucqP5i09RQ4vU3GaCLUekFnbGRRxqJbcaqpQ1cdXybl9HpAEk1Hu9MFESy88sKvNmMt2G9OSMvSbFJW6hlMLn9ICPbS9jRGxDR59mw1KbT6YWS6-PvuVz2fpWO-oZg45QfvUmQzJzhV2BnnOH6TxPgIIAyKfnMA2UGy3xV9ZaXQzVINGxnD-F8sBJOwQtwIV7Fo72RopfChJ5iqb1L5rIsAld8NbXixe8lUphBCBuz9fz/https%3A%2F%2Fmaster.bioconductor.org%2FcheckResults%2F3.12%2Fbioc-LATEST%2FClusterJudge%2Fmalbec1-checksrc.html

However I fixed the error about a month ago and pushed the changes. The
small changes are in R/download_Yeast_GO_mapping.R and simply truncates the
number of columns in a delimited file that is downloaded:

I tested and it works fine after a fresh clone from bioconductor:
$git clone git using git.bioconductor.org:packages/ClusterJudge.git
git remote -v

origin git using git.bioconductor.org:packages/ClusterJudge.git (fetch)

origin git using git.bioconductor.org:packages/ClusterJudge.git (push)

upstream git using git.bioconductor.org:packages/ClusterJudge (fetch)

upstream git using git.bioconductor.org:packages/ClusterJudge (push)


The changes are also present in https://secure-web.cisco.com/1TyyaIunplwTvVhF-NHdSpEr78V5DPcEtWabrCkboVWX-mjqLDDnYIl6W2J2QWTAmQfWz65ITnFC-759X4c6wgW46xPwZsP4GRzvKzvGevlMufwsA1Fac_UwA-1-AHit3w5hUG6RyN1ldHodxAGsfJZjEhPk3NvyyFbT0PQh6fN45WWA2jSW1EtgZX3nU2pZHkhmiqVKZwIY7HJhcMJ-kBpzRhMSyuAwPQJV0zrvP0Ml8nVNTYfLj4uDBBSi4cay6UlgPkdaEpF9xwmKVOr7nC0DEzeDS5eNN3ffCQv2jNehRutitNJ62UsFqkQdQ5aq5/https%3A%2F%2Fgithub.com%2Fapasculescu%2FClusterJudge
however they don't seem to be pulled by BioConductor when it runs the multi
build/check. Where is Bioconductor pulling the ClusterJudge code from?

Many thanks,
Adrian Pasculescu

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