[Bioc-devel] DNAcopy git push issue

Wed Jun 28 21:47:23 CEST 2023

I cloned the repo afresh set up the remote.

seshanv using omega0:~/GitRepos/Bioc/DNAcopy$ git remote -v
origin     git using github.com:veseshan/DNAcopy.git<mailto:git using github.com:veseshan/DNAcopy.git> (fetch)
origin     git using github.com:veseshan/DNAcopy.git<mailto:git using github.com:veseshan/DNAcopy.git> (push)
upstream            git using git.bioconductor.org:packages/DNAcopy.git<mailto:git using git.bioconductor.org:packages/DNAcopy.git> (fetch)
upstream            git using git.bioconductor.org:packages/DNAcopy.git<mailto: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<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 can’t figure out what the issue is.

Thanks

From: Kern, Lori <Lori.Shepherd using RoswellPark.org>
Sent: Wednesday, June 28, 2023 7:11 AM
To: Seshan, Venkatraman <SeshanV using mskcc.org>; bioc-devel using r-project.org
Subject: [EXTERNAL] Re: DNAcopy git push issue

I'm not sure why the upstream has a mailto:  at the start but perhaps try resetting upstream to `git@ git. bioconductor. org: packages/DNAcopy. git` The credentials are set up correctly. Perhaps also adding a new ssh key to the BiocCredentials account

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<mailto:bioc-devel-bounces using r-project.org>> on behalf of Seshan, Venkatraman <SeshanV using mskcc.org<mailto:SeshanV using mskcc.org>>
Sent: Tuesday, June 27, 2023 5:53 PM
To: bioc-devel using r-project.org<mailto:bioc-devel using r-project.org> <bioc-devel using r-project.org<mailto: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<mailto: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<https://urldefense.com/v3/__https:/secure-web.cisco.com/13GYvlJCqh6qE2EmB3eN4Edje-48SQ9VP9RDQxi8R6smN7YMfzSwExzwR71KtQC68TU3j87nJWZaQHYO9a3rbbPdF3BlW9ZcLSQEc4_xNtXCvcr7t55RYnLObQ0HqTdQeMME0pMgsINGhJUwFd3jTZvZM84FXKyIRiWpKDCqrzROjERuTjqrpnbWjvIDPM0ms5nZrKow2sZx3HZ3zjOnHGdhl5TU872hM5LOtQ4H_Yl8iTkNDoyNPYceSt_8I9yReZ50DjFAdK6Rx2sGoQW_gFl70SS1OrIYpUzbBuO4sN-IM84-6pPEB4JlF1clbBzm-/https*3A*2F*2Fgithub.com*2Fveseshan*2FDNAcopy.git__;JSUlJSU!!KVWo1iE!WtJw2Cs3Yni_brf1ZBOdsfe-H5XkAQiCjR4jTEsSjxFKfg4o0_IiuxgaPrtmt8YAv1UCULg4gJKot1jFa6oAHb3XNhM$> (fetch)
origin  https://secure-web.cisco.com/13GYvlJCqh6qE2EmB3eN4Edje-48SQ9VP9RDQxi8R6smN7YMfzSwExzwR71KtQC68TU3j87nJWZaQHYO9a3rbbPdF3BlW9ZcLSQEc4_xNtXCvcr7t55RYnLObQ0HqTdQeMME0pMgsINGhJUwFd3jTZvZM84FXKyIRiWpKDCqrzROjERuTjqrpnbWjvIDPM0ms5nZrKow2sZx3HZ3zjOnHGdhl5TU872hM5LOtQ4H_Yl8iTkNDoyNPYceSt_8I9yReZ50DjFAdK6Rx2sGoQW_gFl70SS1OrIYpUzbBuO4sN-IM84-6pPEB4JlF1clbBzm-/https%3A%2F%2Fgithub.com%2Fveseshan%2FDNAcopy.git<https://urldefense.com/v3/__https:/secure-web.cisco.com/13GYvlJCqh6qE2EmB3eN4Edje-48SQ9VP9RDQxi8R6smN7YMfzSwExzwR71KtQC68TU3j87nJWZaQHYO9a3rbbPdF3BlW9ZcLSQEc4_xNtXCvcr7t55RYnLObQ0HqTdQeMME0pMgsINGhJUwFd3jTZvZM84FXKyIRiWpKDCqrzROjERuTjqrpnbWjvIDPM0ms5nZrKow2sZx3HZ3zjOnHGdhl5TU872hM5LOtQ4H_Yl8iTkNDoyNPYceSt_8I9yReZ50DjFAdK6Rx2sGoQW_gFl70SS1OrIYpUzbBuO4sN-IM84-6pPEB4JlF1clbBzm-/https*3A*2F*2Fgithub.com*2Fveseshan*2FDNAcopy.git__;JSUlJSU!!KVWo1iE!WtJw2Cs3Yni_brf1ZBOdsfe-H5XkAQiCjR4jTEsSjxFKfg4o0_IiuxgaPrtmt8YAv1UCULg4gJKot1jFa6oAHb3XNhM$> (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<mailto: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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