[Bioc-devel] failing update Bioconductor package psygenet2r

Tue Mar 6 16:46:39 CET 2018

Dear Valerie,

Sorry again, I still have problems.
I updated it yesterday, I was able to do all the steps without problems but
today I was checking the Bioconductor devel and no update has been
registered.

Last Changed Date: 2017-10-30 12:54:19 -0500 (Mon, 30 Oct 2017)
How should I proceed?
What I did was following all these steps, and run without problems.

http://bioconductor.org/developers/how-to/git/push-to-github-bioc/

Thanks a sorry again,

Best,

Alba

2018-03-05 16:08 GMT-05:00 alba gutierrez <alba.gutierrez at upf.edu>:

> Dear Valerie,
>
> Thank you so much for all your help.
> I have configured my config file to point the key, there was a
> misspelling problem.
> I think I have updated correctly to Bioconductor know.
>
> Thanks for all your help,
>
> Best,
>
> Alba
>
> 2018-03-05 8:47 GMT-05:00 Obenchain, Valerie <Valerie.Obenchain@
> roswellpark.org>:
>
>> Please remember to cc bioc-devel to keep the conversation on the list.
>>
>> This is the key we have on file:
>> ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQCrqcl4CgcR0SfE1Q7Jg+xuxkNlyi4J
>> gTz6dtgDHH4uFStB34puUKSTBwlEmVR269XTB1uNVAmBWQIxZQtFybGFMdS6
>> fyA7A9mLeEvgJFIJP7wgXYh4ekzF72Ya/1cOLw4GJyPM6ImNfYC7GRJ8fVkd
>> 4JtoiRSRaxJAkd0HY7JUAjexiBq2XAvUq+lY52E8H9ShZae8lvxUK2zFWZHp
>> PEjHgXm5QZlzbUVYXlUUe09OaeKLAJz6cDMI4HLhKrtKdsRTyo05keU2P9Hu
>> rsw9jSOp4ODAbuTN+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
>> <https://github.com/aGutierrezSacristan/psygenet2r> (fetch) *
>>
>> *origin https://github.com/aGutierrezSacristan/psygenet2r
>> <https://github.com/aGutierrezSacristan/psygenet2r> (push)*
>>
>> *upstream git at git.bioconductor.org:packages/psygenet2r.git
>> <git at git.bioconductor.org:packages/psygenet2r.git> (fetch)*
>>
>> *upstream git at git.bioconductor.org:packages/psygenet2r.git
>> <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 <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>:
>>
>>> 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>:
>>>
>>>> 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>:
>>>>
>>>>> 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
>>>>> <https://github.com/aGutierrezSacristan/psygenet2r.git> (fetch)*
>>>>>
>>>>> *origin https://github.com/aGutierrezSacristan/psygenet2r.git
>>>>> <https://github.com/aGutierrezSacristan/psygenet2r.git> (push)*
>>>>>
>>>>> *upstream git at git.bioconductor.org:packages/BiocGenerics.git
>>>>> <git at git.bioconductor.org:packages/BiocGenerics.git> (fetch)*
>>>>>
>>>>> *upstream git at git.bioconductor.org:packages/BiocGenerics.git
>>>>> <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>:
>>>>>
>>>>>> Hi Alba,
>>>>>>
>>>>>> We have one key for a.gutierrez-sacristan:
>>>>>>
>>>>>> ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQCrqcl4CgcR0SfE1Q7J...VeLDzeJ4m
>>>>>> lpPIzkBEH5gSyosZqAN5OtPuaZk6geSywTl6KM/
>>>>>>
>>>>>> 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 herehttp://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
>>>>>> : Permission denied (publickey).
>>>>>>
>>>>>> fatal: Could not read from remote repository.
>>>>>>
>>>>>> "
>>>>>>
>>>>>>
>>>>>> Could anyone help me with that?
>>>>>>
>>>>>>
>>>>>> Thanks a lot,
>>>>>>
>>>>>>
>>>>>> Best,
>>>>>>
>>>>>>
>>>>>> Alba
>>>>>>
>>>>>> 	[[alternative HTML version deleted]]
>>>>>>
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