[Bioc-devel] DNAcopy git push issue

Wed Jun 28 21:53:43 CEST 2023

I noticed that my prior message was mangled by outlook and so resending
from gmail. Thanks.

I cloned the repo afresh and set up the remote.

seshanv using omega0:~/GitRepos/Bioc/DNAcopy$ git remote -v
origin     git using github.com:veseshan/DNAcopy.git (fetch)
origin     git using github.com:veseshan/DNAcopy.git (push)
upstream            git using git.bioconductor.org:packages/DNAcopy.git (fetch)
upstream            git using git.bioconductor.org:packages/DNAcopy.git (push)

I can run git diff and with upstream and it shows the differences as it
should be

seshanv using omega0:~/GitRepos/Bioc/DNAcopy$ git diff devel upstream/devel |
head -12

diff --git a/DESCRIPTION b/DESCRIPTION
index a0219f9..c7c59a3 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,6 +1,6 @@
Package: DNAcopy
-Title: DNA Copy Number Data Analysis
-Version: 1.75.2
+Title: DNA copy number data analysis
+Version: 1.75.1
Author: Venkatraman E. Seshan, Adam Olshen
Description: Implements the circular binary segmentation (CBS)

I have ensured Github has both my RSA and ED25519 keys and I can push to my
repo and it uses SSH key appropriately.

seshanv using omega0:~/GitRepos/Bioc/DNAcopy$ git push
Warning: Permanently added the ECDSA host key for IP address '140.82.112.3'
to the list of known hosts.
Enumerating objects: 5, done.
Counting objects: 100% (5/5), done.
Delta compression using up to 16 threads
Compressing objects: 100% (3/3), done.
Writing objects: 100% (3/3), 331 bytes | 331.00 KiB/s, done.
Total 3 (delta 2), reused 0 (delta 0), pack-reused 0
remote: Resolving deltas: 100% (2/2), completed with 2 local objects.
To github.com:veseshan/DNAcopy.git
   cdd8cfd..f953003  devel -> devel

I confirmed that BiocCredentials has the SSH keys . However I am getting
the same error when I try to push upstream

seshanv using omega0:~/GitRepos/Bioc/DNAcopy$ git push upstream devel
FATAL: W any packages/DNAcopy venkatre using mskcc.org DENIED by fallthru
(or you mis-spelled the reponame)
fatal: Could not read from remote repository.

Please make sure you have the correct access rights
and the repository exists.

I can’t figure out what the issue is.

Thanks

On Wed, Jun 28, 2023 at 7:29 AM Kern, Lori <Lori.Shepherd using roswellpark.org>
wrote:

> I'm not sure why the upstream has a mailto: at the start but perhaps try
> resetting upstream to  `git using git.bioconductor.org:
> packages/DNAcopy.git<mailto:git using git.bioconductor.org
> :packages/DNAcopy.git>`
>
> The credentials are set up correctly. Perhaps also adding a new ssh key to
> the BiocCredentials account might be necessary?
>
> Cheers,
>
>
>
> 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 Seshan,
> Venkatraman <SeshanV using mskcc.org>
> Sent: Tuesday, June 27, 2023 5:53 PM
> To: bioc-devel using r-project.org <bioc-devel using r-project.org>
> Subject: [Bioc-devel] DNAcopy git push issue
>
> After a long time of not needing any change to the package I tried to push
> changes upstream and got the following error:
>
> seshanv using omega0:~/GitRepos/DNAcopy$ git push upstream devel
> FATAL: W any packages/DNAcopy mailto:venkatre using mskcc.org DENIED by fallthru
> (or you mis-spelled the reponame)
> fatal: Could not read from remote repository.
>
> Please make sure you have the correct access rights
> and the repository exists.
> ---------------------------------------------------------
>
> I haven't had the email address venkatre using mskcc.org since 2007. The git
> remotes are correct
>
> seshanv using omega0:~/GitRepos/DNAcopy$ git remote -v
> origin
> https://secure-web.cisco.com/13GYvlJCqh6qE2EmB3eN4Edje-48SQ9VP9RDQxi8R6smN7YMfzSwExzwR71KtQC68TU3j87nJWZaQHYO9a3rbbPdF3BlW9ZcLSQEc4_xNtXCvcr7t55RYnLObQ0HqTdQeMME0pMgsINGhJUwFd3jTZvZM84FXKyIRiWpKDCqrzROjERuTjqrpnbWjvIDPM0ms5nZrKow2sZx3HZ3zjOnHGdhl5TU872hM5LOtQ4H_Yl8iTkNDoyNPYceSt_8I9yReZ50DjFAdK6Rx2sGoQW_gFl70SS1OrIYpUzbBuO4sN-IM84-6pPEB4JlF1clbBzm-/https%3A%2F%2Fgithub.com%2Fveseshan%2FDNAcopy.git
> (fetch)
> origin
> https://secure-web.cisco.com/13GYvlJCqh6qE2EmB3eN4Edje-48SQ9VP9RDQxi8R6smN7YMfzSwExzwR71KtQC68TU3j87nJWZaQHYO9a3rbbPdF3BlW9ZcLSQEc4_xNtXCvcr7t55RYnLObQ0HqTdQeMME0pMgsINGhJUwFd3jTZvZM84FXKyIRiWpKDCqrzROjERuTjqrpnbWjvIDPM0ms5nZrKow2sZx3HZ3zjOnHGdhl5TU872hM5LOtQ4H_Yl8iTkNDoyNPYceSt_8I9yReZ50DjFAdK6Rx2sGoQW_gFl70SS1OrIYpUzbBuO4sN-IM84-6pPEB4JlF1clbBzm-/https%3A%2F%2Fgithub.com%2Fveseshan%2FDNAcopy.git
> (push)
> upstream        mailto:git using git.bioconductor.org:packages/DNAcopy.git
> (fetch)
> upstream        mailto:git using git.bioconductor.org:packages/DNAcopy.git
> (push)
> ---------------------------------------------------------
>
> And Bioconductor Git Credentials app shows my correct email address
> seshanv using mskcc.org
>
> I don't understand what the issue is. Any help in fixing this will be
> greatly appreciated.
>
> Thanks,
> Venkat Seshan
>
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