This is a minor RcppAnnoy issue that should be fixed soon, hopefully.
Incidentally, this little episode has highlighted the advantages of
Bioconductor's release/devel configuration. If the upstream dependency
was a Bioc package, its updates are unlikely to break downstream
packages in
Great, thanks for the update!
From: Interdonato, Kayla
Sent: Thursday, February 27, 2020 2:40 PM
To: Ludwig Geistlinger; bioc-devel@r-project.org
Subject: Re: EXTERNAL: Re: [Bioc-devel] List of Deprecated Packages Bioc 3.11
When generating this
Dear Stan: tahnks but yes, the version was updated a while ago, after the
change in inst/CITATION was done
Dear Lori: thanks a lot for looking into this!
Federico
On Thu, 27 Feb 2020 at 15:30, Stian Lågstad wrote:
> Hi Federico,
>
> I believe you need to update the package version (in the
You can't use a package version other than the current release, so
BiocNeighbors needs to be updated (assuming that's the problem); I'm sure it
will be. Martin
On 2/28/20, 2:51 AM, "Bioc-devel on behalf of Leonardo Collado Torres"
wrote:
Hi,
When installing BiocNeighbors
When generating this annotation package, we believed the data we were
downloading was stale which is why we chose to deprecate it. Upon seeing the
deprecation list email, a user informed us of a different location where the
data may be more up to date. We are currently working through our
Dear Bioc-devel,
I am the maintainer of 'tigre', and tried to activate my account for
BiocCredentials. For some reason, the system claims that my email
(antti.honk...@helsinki.fi) is not associated with any package, although
it is specified in the DESCRIPTION.
How can I activate my account?
Hi,
When installing BiocNeighbors (1.4.1, latest release from Bioconductor
version 3.10) from source on linux I noticed the issue as a few hours
ago it all worked fine but now it doesn't. Locally, I noticed that I
had to update from RcppAnnoy 0.0.14 to 0.0.15, and while at my macOS I
can install
Why will org.At.tair.db be deprecated and by what will it be replaced? It's the
org package for Arabidopsis and thus central for gene ID mapping when working
with Arabidopsis data ...
Thanks,
Ludwig
--
Dr. Ludwig Geistlinger
Department of Epidemiology and Biostatistics
CUNY School of Public
The Bioconductor Team is continuing to identify packages that will be
deprecated in the next release to allow for the Bioconductor community to
respond accordingly. The list will be updated monthly. The current list of
deprecated packages for Bioc 3.11 is as follows:
Maintainer requested
Hi Minoo,
I'm adding this chain to the bioc-devel thread for follow up.
I've checked your Git credentials on your account with Bioconductor. Everything
is fine on our end. You need to actually push to the remote repository once you
have your "remotes" set up correctly.
Hi Federico,
I believe you need to update the package version (in the DESCRIPTION file)
to trigger a new build for those changes to be visible. If you update the
version and push that change then a new build will be triggered.
I see from http://bioconductor.org/checkResults/3.10/bioc-LATEST/
Thank you for letting us know. We will investigate on our end.
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
From: Bioc-devel on
Dear all,
I would like to change the citation in the vulcan package.
https://bioconductor.org/packages/release/bioc/html/vulcan.html
I have changed the reference in the inst/CITATION file within the package a
few weeks ago, but the old citation remains, even in the development
version:
Did you follow the advice Nitesh posted?
https://stat.ethz.ch/pipermail/bioc-devel/2020-February/016228.html
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
Dear Bioconductor team,
This is Minoo Ashtiani, maintainer of the IMMAN package. Recently, I had
problems updating my package and I asked you a few questions about it. I
was wondering if now I could update it successfully or not. I would be
truly grateful if you let me know.
Best regards,
--
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