[Bioc-devel] failing update Bioconductor package psygenet2r

Mon Mar 5 14:47:20 CET 2018

Please remember to cc bioc-devel to keep the conversation on the list.

This is the key we have on file:
ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQCrqcl4CgcR0SfE1Q7Jg+xuxkNlyi4JgTz6dtgDHH4uFStB34puUKSTBwlEmVR269XTB1uNVAmBWQIxZQtFybGFMdS6fyA7A9mLeEvgJFIJP7wgXYh4ekzF72Ya/1cOLw4GJyPM6ImNfYC7GRJ8fVkd4JtoiRSRaxJAkd0HY7JUAjexiBq2XAvUq+lY52E8H9ShZae8lvxUK2zFWZHpPEjHgXm5QZlzbUVYXlUUe09OaeKLAJz6cDMI4HLhKrtKdsRTyo05keU2P9Hursw9jSOp4ODAbuTN+LGTvxspVeLDzeJ4mlpPIzkBEH5gSyosZqAN5OtPuaZk6geSywTl6KM/

Have you configured your .ssh/config to point to this key? See #15 here:

https://bioconductor.org/developers/how-to/git/faq/

Valerie

On 03/03/2018 02:22 PM, alba gutierrez wrote:
Dear Valerie,

Thanks for all your help.
I have solved the upstream issue, so know when I do: git remove -v I get the next:

origin https://github.com/aGutierrezSacristan/psygenet2r (fetch)

origin https://github.com/aGutierrezSacristan/psygenet2r (push)

upstream git at git.bioconductor.org:packages/psygenet2r.git<mailto:git at git.bioconductor.org:packages/psygenet2r.git> (fetch)

upstream git at git.bioconductor.org:packages/psygenet2r.git<mailto:git at git.bioconductor.org:packages/psygenet2r.git> (push)

I have done a minimal change in the vignette, updating my email account in order to try to do a push. I can do the git push origin master without problems but I still cannot do the git fetch upstream, that is what I should run to update the package in Bioconductor. I still get the same error message.

git at git.bioconductor.org<mailto:git at git.bioconductor.org>: Permission denied (publickey).

fatal: Could not read from remote repository.

Please make sure you have the correct access rights

and the repository exists.

I am doing my best but I do not know how to solve this.
Sorry again.

Best,

Alba

2018-03-03 17:03 GMT-05:00 Obenchain, Valerie <Valerie.Obenchain at roswellpark.org<mailto:Valerie.Obenchain at roswellpark.org>>:
On 03/03/2018 01:41 PM, alba gutierrez wrote:
Dear Valerie,

I have one additional question.
Although I appear as maintainer the package has two authors, and my colleague Carles Hernandez-Ferrer, the other co-author is the one that used to do all the updates.
Is there any possibility to add him as maintainer and that both of us could update the package whenever needed? It would help a lot.

Yes he can be added but you need to make a request on bioc_devel. Briefly explain why they need access. If he has not already, Carles will need to submit ssh keys via the google doc.

Valerie

Best,

Alba

2018-03-03 9:31 GMT-05:00 alba gutierrez <alba.gutierrez at upf.edu<mailto:alba.gutierrez at upf.edu>>:
Dear Valerie,

Sorry for my delay answering.
Thank you for your help.
There is any other documentation that could help me to do that? I do not know how to change the upstream pointing to my package instead of Biocgenerics.

Thank you so much for all your help!

Best,

Alba

2018-02-26 10:44 GMT-05:00 Obenchain, Valerie <Valerie.Obenchain at roswellpark.org<mailto:Valerie.Obenchain at roswellpark.org>>:
The upstream points to BiocGenerics. My guess is that you followed the example in the documentation too closely. You want to set the upstream to point to your package (psygenet2r) not to BiocGenerics.

Valerie

On 02/23/2018 01:44 PM, alba gutierrez wrote:
Hi Valerie,

Thanks for your answer.
The key is correct.
The output of git remote -V is:

origin https://github.com/aGutierrezSacristan/psygenet2r.git (fetch)

origin https://github.com/aGutierrezSacristan/psygenet2r.git (push)

upstream git at git.bioconductor.org:packages/BiocGenerics.git<mailto:git at git.bioconductor.org:packages/BiocGenerics.git> (fetch)

upstream git at git.bioconductor.org:packages/BiocGenerics.git<mailto:git at git.bioconductor.org:packages/BiocGenerics.git> (push)

I don't know why it is not working.

Thank you so much for your help,

Best,

Alba

2018-02-23 22:22 GMT+01:00 Obenchain, Valerie <Valerie.Obenchain at roswellpark.org<mailto:Valerie.Obenchain at roswellpark.org>>:
Hi Alba,

We have one key for a.gutierrez-sacristan:

ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQCrqcl4CgcR0SfE1Q7J...VeLDzeJ4mlpPIzkBEH5gSyosZqAN5OtPuaZk6geSywTl6KM/

If this is the key you're using you should have access. What is the output of

git remote -v

Valerie

On 02/23/2018 09:16 AM, alba gutierrez wrote:

Dear all,

I am writing to you because I have some problems to update my
package psygenet2r. After submitting my ssh-key and waiting to have the
confirmation email I have been following the instructions here
http://bioconductor.org/developers/how-to/git/maintain-github-bioc/

All steps work without any problem and as expected according to the web.
But in step 7 I get this error:

"

git fetch upstream

git at git.bioconductor.org<mailto:git at git.bioconductor.org>
: Permission denied (publickey).

fatal: Could not read from remote repository.

"

Could anyone help me with that?

Thanks a lot,

Best,

Alba

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