where there is a
community to help you.
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
"I don’t expect you to respond to my email outside your work hours"
> On Jun 7, 2022, at 7:17 PM, Brent G Ewing wr
Hi Andrea,
Please try again, I’ve fixed your email in the system.
Try to activate your account with this email
"andrea.rodriguez-martine...@imperial.ac.uk”. The previous email for some
reason had ‘@ic.ac.uk’.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Sc
Dear Laurent,
I’m adding Lisa to the package.
Dear Lisa, you’d need to activate your BiocCredentials account and add SSH keys
to access the package. The link for activation is
https://git.bioconductor.org/BiocCredentials/account_activation.
Once you do that you’ll gain access.
Best,
Nitesh
update both and confirm with are reply.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On May 13, 2022, at 6:28 AM, Nikolaos Pechlivanis wrote:
>
> Dear Mrs. Kern,
>
> Thank you for your pr
Hi Cameron and Max,
Max should have access to the package with the registered BiocCredentials
address.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Feb 10, 2022, at 1:06 PM, Cameron Severn wr
Is this resolved Philipp?
‘destiny’ seems to be failing on windows still
http://bioconductor.org/checkResults/release/bioc-LATEST/destiny/.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Dec 19, 2
. Please change the
maintainer once this happens on the DESCRIPTION file.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Dec 28, 2021, at 5:36 PM, Yang,Peng wrote:
>
> Hi Bioconductor team,
>
As far as password reset goes. Please check your spam as well.
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Dec 17, 2021, at 11:58 AM, Chris Eeles
> wrote:
>
> Hello Core Team,
>
> I am trying to
Hi,
Should be fixed.
Please check again now.
Best
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Dec 17, 2021, at 11:58 AM, Chris Eeles
> wrote:
>
> PDATK
___
Hi,
I’ve added Nicole. She should have maintainer access. Please change the
DESCRIPTION file.
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Nov 15, 2021, at 1:59 PM, Nicole Ortogero wrote:
>
> Hi Bio
/developers/how-to/version-numbering/
http://bioconductor.org/developers/
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Nov 17, 2021, at 5:01 PM, Yihang Xin wrote:
>
> Hi Alex and Nitesh,
>
> I wo
Please activate your account flying-sh...@web.de for BiocCredentials.
You should be good to go.
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Nov 18, 2021, at 4:23 AM, Philipp A. wrote:
>
> My addresses are
. Ideally, Alex would make the final sync from Github to Bioconductor
once all your development is done on Github.
If you would like access to the package on git.bioconductor even now, please
let me know and cc Alex.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor
Hi Philipp,
The email address that is registered to BiocCredentials right now is
'philipp.ange...@gmail.com'. It doesn’t look like an institutional email
address.
Could you please confirm the email change to flying-sh...@web.de ??
Best,
Nitesh
Nitesh Turaga
Scientist II, Department
to the account, please add your SSH keys and you’ll get access to the
package.
Best regards,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Nov 5, 2021, at 12:44 PM, Jesús Vélez Santiago
> wrote:
>
> Hi,
>
Hi Wubing,
You would need to activate your account first, at
https://git.bioconductor.org/BiocCredentials/account_activation.
Then you are able to set your password.
You have never activated your account.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor
as well,
https://bioconductor.org/developers/how-to/git/faq/.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Nov 8, 2021, at 12:23 PM, Philipp A. wrote:
>
> Hi,
>
> My package (destiny) has
Dear Selvi,
It looks like a transient issue that happens on and off.
I’m not sure there is any special insight I can offer here. I do not think any
action is needed on your end.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber
.
To sync your packages, please follow
http://bioconductor.org/developers/how-to/git/sync-existing-repositories/.
If you have any questions, please send them to bioc-devel@r-project.org as a
new email.
Best regards,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team
allowing commits to be pushed to the Bioconductor git server again.
Best regards,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
___
Bioc-devel@r-project.org mailing list
https
The release branch has been frozen.
http://bioconductor.org/developers/release-schedule/
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oct 25, 2021, at 10:28 AM, Federico, Anthony, Nicholas
> wrote:
&
Hello,
The release 3.13 branch of Bioconductor is now frozen. You will not be able to
push to this RELEASE_3_13 branch of your package again.
Please review the release schedule
http://bioconductor.org/developers/release-schedule/ for more information.
Best regards,
Nitesh Turaga
Scientist
Hi
The release 3.13 branch will be frozen after the next 2 hours. After today, you
will not be able push to this branch.
Please refer to http://bioconductor.org/developers/release-schedule/.
Best regards,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Hi,
What is your upstream remote set as?
git remote -v
Please send results. It might just be you are using the wrong SSH key. A good
solution is to try with a new SSH key on your BiocCredentials app.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor
Hi Chris,
Either way, this is a problem we have to solve post release. I’ve given the SSH
key you are using access to that package as well.
It should work now.
Best
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oc
Hi
Can you just try with a new SSH key? This is again related to using the wrong
account.
benjamin.haibe.ka...@utoronto.ca is the email associated with the
BiocCredentials account, and `ChristopherEeles` is the GitHub username / Bioc
ID attached to it.
Best,
Nitesh Turaga
Scientist II
I think point #2 is the bigger issue. We are pressed for time as far as reviews
go, and I’m happy to try and get sparrow reviewed, but cannot promise time for
sparrow.shiny.
You are welcome to submit though, but there is no guarantee that I will be
assigned to the package for review.
Nitesh
/account_activation.
If not I’ll change it to n...@u.washington.edu. Just let me know.
Best
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oct 4, 2021, at 4:22 PM, Noah G. Hoffman wrote:
>
> Hello,
>
H Matineh,
This is taken care of, and your package has been reset.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oct 5, 2021, at 9:14 AM, matine rb wrote:
>
> Dear Bioconductor community
Hi,
I’ve taken care of the resetting of the repo on Bioconductor from your GitHub
location https://github.com/compbiomed/curatedTBData.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oct 5, 2021, at 5
Hi Steve,
You are having it ;) I’m the one assigned to your package.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oct 4, 2021, at 5:42 PM, Steve Lianoglou wrote:
>
> Hi Nitesh,
>
> Tha
Hi Steve,
This is resolved now. You should see access to your package.
Waiting till the next cycle is fine if you think that is the best approach.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Oct 1, 2
/account_activation.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Sep 29, 2021, at 1:38 AM, Schalkwyk, Leonard wrote:
>
> I am the maintainer of the wateRmelon package. This message is coming from
>
Hi,
Joshua campbell is the maintainer of these two packages already.
If that is not reflected in the description file of the package, it is up to
Joshua to change it.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer
/importing-a-repository-with-github-importer
which is quite helpful.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Sep 17, 2021, at 2:35 PM, Jiyuan Fang wrote:
>
> Dear Sir/Madam,
>
> May I
Dear Surajit,
You should have access now with the new email. Please add SSH keys in the
BiocCredentials app, and you’ll gain access.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Sep 10, 2021, at 5:30
the conflicts in your code were
introduced in the ‘pre-git’ era. I can disable the hook for your package and we
can resolve it.
I’ll send you a private email to coordinate.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
nly” merge commits and the files that change with this command,
git log --merges -m --name-only -n 5
Hope this helps.
Best regards,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Aug 13, 2021, at 9
ndependent development of two separate packages adding a lot of complexity.
(We should not consider this method for the sake of good software engineering
practices)
I’m hoping other members on the team / community can provide better
suggestions.
Best,
Nitesh Turaga
Scientist II, Department of Da
Hi,
We don’t have LFS support on the Bioconductor git server.
I would suggest finding an alternative.
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Aug 24, 2021, at 6:18 PM, Anatoly Sorokin wrote:
>
&g
Hi Henrik,
You should have access to these packages again.
Please try again.
Best
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Aug 19, 2021, at 8:08 AM, Henrik Bengtsson
> wrote:
>
> Hi,
>
> I
check the
RSS feed for our git server http://bioconductor.org/developers/gitlog/
There are other helpful FAQ here,
http://bioconductor.org/developers/how-to/git/faq/.
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On
there. If all else
fails, generate a new SSH key and add it.
Best
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Jul 29, 2021, at 3:20 AM, Mattia Chiesa wrote:
>
> Dear all,
> sorry to keep asking but I d
Hi,
This is because all commits to RELEASE_3_12 have been blocked during the
release of Bioconductor 3.13.
You can now only commit/push to RELEASE_3_13 and devel.
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Jul
Please add your SSH keys and you’ll gain access to your package.
Once you get access, change the maintainer email address in the DESCRIPTION
file of the package.
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On
Hi
Are you using mattia.chi...@cardiologicomonzino.it to activate your
BiocCredentials account?
It seems this email is not the same as the one on the maintainer on the
DESCRIPTION file of the package.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core
Hello,
Please take a look at http://bioconductor.org/developers/how-to/git/faq/ #13
onwards to see if any of those issues fix your problem.
There is nothing wrong on our end.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber
Hi Nicole,
Please sync your two repos now. You should be all set.
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Jul 26, 2021, at 12:44 PM, Kramer, Nicole Emma
> wrote:
>
> Hi Nitesh,
>
>
Hi Nicole,
Thank you for cleaning the repos.
I will do the force push for you, but you will have to re-sync the Github repo
once it’s done.
I’ll email you as soon as I’m done with the force push.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team
Hi Mikhail,
You now have access to both packages.
Please remove the previous maintainer in the DESCRIPTION file and add yourself
as the new maintainer.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On
Hi Ludwig,
Could you please try to activate your account now?
I’ve changed your email.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Jul 15, 2021, at 10:57 AM, Geistlinger, Ludwig
> wrote:
>
Hi Margaret,
Please follow the documentation on the website,
http://bioconductor.org/developers/how-to/git/.
http://bioconductor.org/developers/how-to/version-numbering/
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer
Hi,
I will try to answer a couple of the questions you asked. I am not able to help
with your question on ‘qpdf'.
> On Jul 12, 2021, at 5:58 PM, Wight, Andrew E.
> wrote:
>
> Good evening all - I'm getting my first package ready for submission to
> Bioconductor, and I'm running into a
Hi Ben,
Please activate your account at
https://git.bioconductor.org/BiocCredentials/account_activation. Once you do
that, you can add SSH keys and gain access to your package.
Best,
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer
Hi
Please try again. You should not see this error anymore.
This was a mistake on our end.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Jul 1, 2021, at 1:49 AM, Michael Love wrote:
>
> I'
Hi,
Can you please try again??
It seems a minor issue on our end, which I just fixed.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science,
Bioconductor Core Team Member
Dana Farber Cancer Institute
> On Jun 30, 2021, at 1:41 PM, Victor Yuan wrote:
>
> Hi I ca
-the-command-line
2. https://www.atlassian.com/git/tutorials/using-branches/merge-conflicts
3. Bioconductor git hooks: https://github.com/Bioconductor/git-hooks
If you have any questions, please reply to this thread.
Best regards,
Nitesh
Nitesh Turaga
Scientist II, Department of Data Science
Hi Alan,
What you have written below looks correct to me.
A simpler way to remember this is how the versioning works - (X.Y.Z) or
(major.minor.patch).
You only every update the “patch” or the “Z” number in the versioning system.
Best,
Nitesh
Nitesh Turaga
Scientist II, Department
://bioconductor.org/developers/how-to/version-numbering/. You are only
allowed to bump the “patch” version (major.minor.patch - versioning scheme).
Best,
Nitesh
> On Jun 2, 2021, at 4:11 PM, Kandarp Joshi wrote:
>
> Dear Nitesh,
>
> My package epidecodeR was accepted in bioconductor las
with the email
from Utah.edu as I listed above and add your keys.
If that is not your email and you need the BYU email to be listed instead, let
me know and I’ll change it.
Best,
Nitesh
> On May 25, 2021, at 6:45 AM, Jonathon Hill wrote:
>
> Hi,
>
> I am the li
to this thread or open an
issue here, https://github.com/Bioconductor/bioconductor_docker on the Github
page.
Best regards,
Nitesh
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
://bioconductor.org/developers/how-to/git/faq/ please check FAQ number #14,
#15 and #16 to see if those might help as well.
Hopefully this sorts it out.
Nitesh
> On May 20, 2021, at 10:03 PM, Saskia Freytag
> wrote:
>
> Hi Nitesh,
>
> I have added multiple keys (using both my ma
You should also be able to see the RELEASE_3_13 branch on your package (example
below is BiocGenerics) at,
https://code.bioconductor.org/browse/BiocGenerics/RELEASE_3_13/
Best,
Nitesh
From: Nitesh Turaga
Date: Wednesday, May 19, 2021 at 7:31 AM
To: bioc-devel@r-project.org
Subject
should have access to the "master" (devel branch) and the
RELEASE_3_13 branch of their packages.
Thank you for your contributions, and we are looking forward to more.
Best regards,
Nitesh Turaga
[[alternative HTML version deleted]]
__
packages (software, data experiment, workflow, and books). The
process will take about 2.5 - 3 hours once commits are stopped.
If there are any issues in the meantime, please reply to this thread and c.c
bioc-devel@r-project.org<mailto:bioc-devel@r-project.org>.
Best regards,
Nitesh
Hi Saskia ,
Please try to add new keys. It�s possible you aren�t using the correct key pair
to access your package.
Best,
Nitesh
From: Bioc-devel on behalf of Saskia Freytag
Date: Saturday, May 15, 2021 at 8:42 PM
To: bioc-devel@r-project.org
Subject: [Bioc-devel] Access to schex
Hi,
I
Hi,
You are already the maintainer of this package.
I don�t understand your request here. Did you have a problem pushing to the
package?
Nitesh
From: Devon Kohler
Date: Wednesday, May 12, 2021 at 12:46 PM
To: maintai...@bioconductor.org ,
bioc-devel@r-project.org
Cc: Tsung-Heng Tsai
Hi,
I�ve changed the email to
m...@sebastianbauer.info<mailto:m...@sebastianbauer.info>. You did used to have
sebastian.ba...@charite.de<mailto:sebastian.ba...@charite.de>.
Please activate now, and add your SSH keys to gain access to the package.
Best,
Nitesh
From: Bioc-deve
cc-ing bioc-devel
From: Nitesh Turaga
Date: Tuesday, May 11, 2021 at 10:13 AM
To: Johnson, Ben
Subject: Re: BFG clean-up and reset for compartmap
That is exactly right.
I would also delete/archive non-bioconductor feature branches like dev, hg38
etc. Only master and RELEASE_X_Y branches
on the package itself will be on your end to make.
Change the maintainer email, subscribe to bioc-devel etc.
Best,
Nitesh
From: Nitesh Turaga
Date: Tuesday, May 11, 2021 at 7:59 AM
To: Pablo Moreno
Cc: Suhaib Mohammed , maintai...@bioconductor.org
, bioc-devel@r-project.org
, gene-express...@ebi.ac.uk
the branches and run BFG.
Best,
Nitesh
From: Johnson, Ben
Date: Tuesday, May 11, 2021 at 8:02 AM
To: Nitesh Turaga , bioc-devel@r-project.org
Subject: Re: BFG clean-up and reset for compartmap
Hi Nitesh,
It would be https://github.com/biobenkj/compartmap. Thanks!
Best,
Ben K Johnson
Postdoctoral
Hi,
What exactly is the github repo we have to pull from?
Nitesh
From: Bioc-devel on behalf of Johnson, Ben
Date: Monday, May 10, 2021 at 3:11 AM
To: bioc-devel@r-project.org
Subject: [Bioc-devel] BFG clean-up and reset for compartmap
Hi all,
We had a couple manifest files that were
ccount and add SSH keys.
gene-express...@ebi.ac.uk<mailto:gene-express...@ebi.ac.uk> will also have to
follow all the protocols of a maintainer, so someone will have to actively
monitor it and subscribe to
bioc-devel@r-project.org<mailto:bioc-devel@r-project.org> mailing list.
Be
Hi,
This is now done.
Please try to activate your account on BiocCredentials.
https://git.bioconductor.org/BiocCredentials/account_activation and add SSH
keys.
You will gain access to the package then.
Best,
Nitesh
From: Zhang, Bing
Date: Sunday, May 9, 2021 at 5:07 PM
To: maintai
Hi Gabriel,
Thanks for taking the time to fix the package size to < 5MB.
I�ve synced your package repo on git.bioconductor.org. You should be good to go
now.
If you have any further questions on this, please feel free to reply to this
thread.
Best,
Nitesh
From: Bioc-devel on beh
DESCRIPTION file yourself.
Best regards,
Nitesh
From: Bioc-devel on behalf of Mikhail
Dozmorov
Date: Tuesday, May 4, 2021 at 9:45 PM
To: bioc-devel
Subject: [Bioc-devel] Maintainer for preciseTAD
Hi,
I noted our package https://bioconductor.org/packages/preciseTAD/ shows
build error
Hi Mauro,
I just checked and you�ve never activated your account. You should try to
activate it before you do anything else.
Best,
Nitesh
From: mauro castro
Date: Tuesday, May 4, 2021 at 1:31 PM
To: Nitesh Turaga
Cc: Bioc-devel
Subject: Re: [Bioc-devel] Log in to the BiocCredentials app
Hi
ain? I checked our end, and everything seems to be in place.
Best,
Nitesh
From: Bioc-devel on behalf of mauro castro
Date: Tuesday, May 4, 2021 at 8:48 AM
To: Bioc-devel
Subject: [Bioc-devel] Log in to the BiocCredentials app
Hi All,
I�m a Bioconductor package maintainer, but I could n
with the RELEASE_3_12 branch freeze and discussion on this thread
will lead to confusion.
Best,
Nitesh
From: Waldir Leoncio Netto
Date: Tuesday, May 4, 2021 at 1:20 AM
To: bioc-devel@r-project.org , nturaga.b...@gmail.com
Subject: Re: [Bioc-devel] Bioconductor Release Announcement: RELEASE_3_12
Dear Maintainers,
The RELEASE_3_12 branch is now frozen.
Best,
Nitesh
From: Nitesh Turaga
Date: Monday, May 3, 2021 at 1:08 PM
To: bioc-devel@r-project.org
Subject: Re: Bioconductor Release Announcement: RELEASE_3_12 branch freeze
Today - May 3, 2021.
My apologies.
Nitesh
From: Nitesh
Today - May 3, 2021.
My apologies.
Nitesh
From: Nitesh Turaga
Date: Monday, May 3, 2021 at 1:04 PM
To: bioc-devel@r-project.org
Subject: Bioconductor Release Announcement: RELEASE_3_12 branch freeze
Dear Maintainers,
Please keep in mind that we are on schedule for our release as given
-experiment and workflow).
After 2pm today, you will not be able to push to the RELEASE_3_12 branch.
Best regards,
Nitesh Turaga
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo
Hi Leonard,
I�ve changed your email now, you should be able to activate your account.
The email listed was to a gene.com email address.
Add new SSH keys if you don�t have the old key pairs.
Best,
Nitesh
From: Bioc-devel on behalf of Leonard
Goldstein
Date: Sunday, May 2, 2021 at 10:06 PM
.
This is a fail safe, we don�t want package maintainers to disappear and give us
emails that aren�t valid.
Best,
Nitesh
From: Martin, Tiphaine
Date: Monday, May 3, 2021 at 9:39 AM
To: Nitesh Turaga , bioc-devel@r-project.org
Subject: RE: issue with ssh public key
Hi,
This was my previous email
The email registered is
tiphaine.mar...@kcl.ac.uk<mailto:tiphaine.mar...@kcl.ac.uk> .
If this is not correct, I will have to change it on my end.
Best,
Nitesh
From: Bioc-devel on behalf of Martin,
Tiphaine
Date: Saturday, May 1, 2021 at 11:47 PM
To: bioc-devel@r-project.org
Subject:
Hi,
Have you followed http://bioconductor.org/developers/how-to/git/faq/ points
14,15 ,16 ?
It�s more likely your keys aren�t set up properly on your end. If it persists,
just add a new SSH key.
Best,
Nitesh
From: Bioc-devel on behalf of Lieven Clement
Date: Wednesday, April 28, 2021
Hi Pedro,
There is no �main� branch on the Bioconductor repository. There is only the
master branch.
Try
git push upstream master
From: Bioc-devel on behalf of Pedro Baldoni
Date: Wednesday, April 28, 2021 at 7:27 AM
To: bioc-devel@r-project.org
Subject: [Bioc-devel] Error pushing
Hi,
If you think the warnings are transient, I suggest you issue a new build by
bumping the version number on your package.
Try that and then go ahead with further debugging. Make sure you are using the
correct version of R and Bioconductor.
Nitesh
From: Gross Fridolin
Date: Tuesday, April
Hi,
Please check http://bioconductor.org/developers/how-to/git/
From: Nilotpal Sanyal
Date: Friday, April 23, 2021 at 12:04 PM
To: Nitesh Turaga , Wheeler, Bill (IMS)
, maintai...@bioconductor.org
, bioc-devel@r-project.org
Cc: Summer S Han , nilan...@jhu.edu
Subject: Re: CGEN package
Hi,
I�ve created a new account for Nilotpal in the BiocCredentials platform.
Nilotpal would have to activate the account first, and then add SSH keys to
gain access to the package.
Once access is gained, please change the maintainer field in the DESCRIPTION
file of the package.
Best,
Nitesh
on the slack channel
or on the bioc-devel@r-project.org<mailto:bioc-devel@r-project.org> mailing
list.
Best,
Nitesh
From: AJ Kinstlick
Date: Thursday, April 22, 2021 at 6:37 PM
To: Nitesh Turaga
Cc: Kern, Lori
Subject: Re: [Bioc-devel] Bioconductor Package Version
Hi Nitesh and L
Credentials account (https://git.bioconductor.org/BiocCredentials/) after
activating it. Then change the Maintainer field in the description file.
Best,
Nitesh
From: Bioc-devel on behalf of Gross Fridolin
Date: Friday, April 23, 2021 at 4:14 AM
To: bioc-devel@r-project.org
Subject: [Bioc-de
it to your account after you activate it
https://git.bioconductor.org/BiocCredentials/account_activation .
I would also recommend deleting your Github SSH key, because it matches
Pierre�s. This is the wrong way to do it. Both of you should delete that key.
Best,
Nitesh
From: Nitesh Turaga
, but there can be multiple authors.
Best,
Nitesh
On 4/16/21, 6:31 AM, "Bioc-devel on behalf of VALLEJOS Catalina"
wrote:
Dear all,
Could you please update your records for BASiCS to have Alan O’Callaghan
(alan.ocallag...@outlook.com<mailto:alan.ocallag..
to the package.
You will also need to change the maintainer information on the DESCRIPTION file
of the package
Best,
Nitesh
From: Diego Gallego
Date: Friday, April 16, 2021 at 5:28 AM
To: "bioc-devel@r-project.org" ,
"maintai...@bioconductor.org" , Alba Sala
Subjec
as a simple commit.
Also, I�d like you to think if making such a drastic change is needed for a
�release� version. �Release 3.12� or any release is meant to fix high priority
bugs only, and with Release 3.13 coming in about one month, is it worth it?
Please think about this.
Best,
Nitesh
From
Hi Spencer,
I�ve fixed the issue please try now.
Best,
Nitesh
From: Nitesh Turaga
Date: Wednesday, April 7, 2021 at 1:31 PM
To: Spencer Nystrom , bioc-devel@r-project.org
Subject: Re: [Bioc-devel] BFG repo cleanup for package under review
Hi Spencer,
I�ll take a look at this today and get
Hi Spencer,
I�ll take a look at this today and get back to you
Thanks for the reminder.
Best,
Nitesh
From: Bioc-devel on behalf of Spencer
Nystrom
Date: Wednesday, April 7, 2021 at 1:24 PM
To: bioc-devel@r-project.org
Subject: [Bioc-devel] BFG repo cleanup for package under review
Sorry
Hi Tim,
This package should be fixed now. I've synced your github repo with the one on
git.bioconductor.org.
Please check to make sure everything is as expected including the size.
Best,
Nitesh
On 4/1/21, 6:22 AM, "Bioc-devel on behalf of Triche, Tim"
wrote:
Hi Ashish,
I replied to your email yesterday, let�s stick to the same thread there.
From: Ashish Jain
Date: Friday, April 2, 2021 at 1:02 PM
To: Nitesh Turaga
Cc: raman sethi , Chen Jinmiao
, "bioc-devel@r-project.org"
Subject: Re: [Bioc-devel] Bioconductor Git Credentials error
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