[Bioc-devel] Fixing autonomics - ssh: connect to host git.bioconductor.org port 22: Connection timed out

[Kern, Lori]

It would help to show some of the commands and output in the FAQ for git help and working through some of the trouleshooting there.

http://contributions.bioconductor.org/git-version-control.html#faq

Particularly showing your
git remote  -v

and trying


 ssh -T -v git using git.bioconductor.org




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 Aditya Bhagwat via Bioc-devel <bioc-devel using r-project.org>
Sent: Wednesday, April 5, 2023 7:33 AM
To: Sarvesh Nikumbh <sarvesh.nikumbh using gmail.com>
Cc: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: Re: [Bioc-devel] Fixing autonomics - ssh: connect to host git.bioconductor.org port 22: Connection timed out

Thank you very much Sarvesh, lovely also to hear from you - how are you? .

I had indeed failed to do these branch renamings which I now have.
Unfortunately, my ssh issue remains:

git push upstream devel
ssh: connect to host git.bioconductor.org port 22: Connection timed out
fatal: Could not read from remote repository.

Dear BioC team, could you help out, am a bit at loss here ?

Thank you very much,

Aditya



> Hi Aditya,
>
> Can you check if this is due to the recent branch name changes: default
> branch name changed from 'main' to 'devel'
> This was announced on the mailing-list, and also on this blogpost:
> https://secure-web.cisco.com/1n72fvF59dD6BZtBdt6wi9Th7fr3G7_rRtSP9FgXzBRpHnSq-VrSgmyZlsAZ4KjMK-pSsxbs9F2zruBwHjVrdFmi4KD7vdnC-vhDy3qDgan2xX9UGFvUBU0MvtXSbXn-0RJfroqoyy3xj4ETCHFaoJ6cPKaoO-tqdefMvlf5zDYW5d4V0RKW61PLY4Qy0F_vqKxqQ2aTb_0DxWbnYs-I84vMG_6QA2TWTUGyFqE9D9gbvVQMu5GMxw6G7t7xZF_BUpdUBrgPEQKJEkundypNCsh3Of95OHse3VzpxIPUn-8j8QCV8ZgC8aZ-tVcnokUlF/https%3A%2F%2Fbioconductor.github.io%2Fbiocblog%2Fposts%2F2023-03-01-transition-to-devel%2F
>
> Sarvesh
>
> On Tue, 4 Apr 2023 at 19:38, Aditya Bhagwat via Bioc-devel <
> bioc-devel using r-project.org> wrote:
>
>> Dear BioC team,
>>
>> I am having the same error as many others (the missing BiocStyle
>> issue) and I wanted to fix it. But I somehow am not getting into
>> git.bioconductor.org anymore :
>>
>> $ git fetch --all
>> Fetching origin
>> Fetching upstream
>> ssh: connect to host git.bioconductor.org port 22: Connection timed out
>> fatal: Could not read from remote repository.
>> Please make sure you have the correct access rights
>> and the repository exists.
>> error: could not fetch upstream
>>
>> I checked BiocCredentials and my public key is visible there.
>>
>> What else could this be ? I changed institutes since my last push, in
>> my current setup things go through a proxyserver, could that be the
>> reason?
>>
>> Thank you for feedback.
>>
>> Aditya
>>
>>
>> --
>> Aditya Bhagwat
>> Statistics � Bioinformatics � Data Science
>> Translational Proteomics � Philipps-University Marburg
>> Karl-von-Frisch-Str 2 � 35043 Marburg � Germany
>> Tel.: +49 6421 28 27403
>>
>> _______________________________________________
>> Bioc-devel using r-project.org mailing list
>> https://secure-web.cisco.com/1WSmgk-KPuAvx2yiy7_CfLoJSFFXcVGygfQznt_qB7SQzYIOTZOS1jnbIlMfheyKx9-wSPjP2sVqdPJJNmmvga9wi8cTqmeUh9t1N_wRtyS0YXMH081klK8t7HHOsECW405BsZJMDrRD9Xae5g0NPzAyPh5a48WuH2iXg5nt8JtuUYOU4F2XbFwGqtaIdpGPU-i4DCuMaSTuyiOpGBc5SQaAnixj9Ghn0ybCbegKZobuyDSZ2cOw0iRcWcgLYgYYZHm07c0yilexca5YctM5QZp-Ex-opMf-2lqTxelW3hks2aPaGG-GOCGpv9K9gwQTL/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel
>>
>
>
> --
>
> thanks!
> -Sarvesh
>
> --------------------------------------------
> Q: Why is this email five sentences or less?
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--
Aditya Bhagwat
Statistics � Bioinformatics � Data Science
Translational Proteomics � Philipps-University Marburg
Karl-von-Frisch-Str 2 � 35043 Marburg � Germany
Tel.: +49 6421 28 27403

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