The updates are complete. The Single Package Builder is now using Bioc 3.15
and R 4.2 for new package submissions.
We have identified a bug in BiocCheck that will cause current packages to fail
in BiocCheckGitClone on the Single Package Builder Report. That looks similar
to the following:
===============================
BiocCheckGitClone('spbtest3')
===============================
/usr/bin/tar:
/home/pkgbuild/packagebuilder/workers/jobs/51/spbtest3_20211129101146/spbtest3:
Cannot read: Is a directory /usr/bin/tar: At beginning of tape, quitting now
/usr/bin/tar: Error is not recoverable: exiting now Warning in untar(pkgname,
exdir = tmp_dir) : /usr/bin/tar -xf
'/home/pkgbuild/packagebuilder/workers/jobs/51/spbtest3_20211129101146/spbtest3'
-C '/tmp/RtmpTIAZO0/fileadac1b5fa962' returned error code 2 This is
BiocCheckGitClone version 1.31.13. BiocCheckGitClone is a work in progress.
Output and severity of issues may change. * Checking valid files... * Checking
DESCRIPTION... * Checking if DESCRIPTION is well formatted... Warning in
read.dcf(file.path(package_dir, "DESCRIPTION")) : cannot open compressed file
'/tmp/RtmpTIAZO0/fileadac1b5fa962/spbtest3/DESCRIPTION', probable reason 'No
such file or directory' * ERROR: DESCRIPTION is malformed. cannot open
the connection
We are working on the patch right now. In the meantime you can ignore this
ERROR.
Cheers,
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-boun...@r-project.org> on behalf of Kern, Lori
<lori.sheph...@roswellpark.org>
Sent: Monday, November 29, 2021 7:26 AM
To: bioc-devel@r-project.org <bioc-devel@r-project.org>
Subject: [Bioc-devel] Single Package Builder for New Package Submission
We will be making updates to the Single Package Builder for New Package
Submissions throughout the morning. This will cause some intermittent downtime
on the build on commit feature of new submission review process. We
appreciate your patience while we update.
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
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