[Bioc-devel] Encountering Issues with Github sync

The Bioconductor remote should not include 'ICBI,

    git remote remove upstream
    git remote add upstream git at git.bioconductor.org:packages/CINdex.git

?On 2/25/21, 11:40 AM, "Bioc-devel on behalf of Krithika Bhuvaneshwar" <
bioc-devel-bounces at r-project.org on behalf of kb472 at georgetown.edu> wrote:

    Hello,

    We are the package maintaines for the CINdex package.  We have made
changes
    in our package to address the build errors for the upcoming release.
The
    latest code is here in our Gtithub account *
https://github.com/ICBI/CINdex
    <https://github.com/ICBI/CINdex>  . *I'm trying to sync it with the
BioC
    Github repo, but encountering errors. Would appreciate some help

    These are the steps I did:

    1) Updated code so that there are no build errors. Updated version
    information in DESCRIPTION File (changed from 1.19.0 to 1.19.1). The
latest
    code is here in our Gtithub account *https://github.com/ICBI/CINdex
    <https://github.com/ICBI/CINdex> *

    2)  I generated new ssh keys , and then added the ssh information from
my
    *id_rsa.pub* file in this link.
    https://git.bioconductor.org/BiocCredentials/account_activation/

    3) I'm currently following the steps mentioned here:
    bioconductor.org/developers/how-to/git/sync-existing-repositories/.
*I have
    an error when I try git fetch*

    #Configure the ?remotes? of the GitHub clone. --- completed step
    git remote add upstream git at git.bioconductor.org:
packages/ICBI/CINdex.git

    $ git remote -v
    origin https://github.com/ICBI/CINdex (fetch)
    origin https://github.com/ICBI/CINdex (push)
    upstream git at git.bioconductor.org:packages/ICBI/CINdex.git (fetch)
    upstream git at git.bioconductor.org:packages/ICBI/CINdex.git (push)

    $ git fetch --all
    Fetching origin
    Fetching upstream
    FATAL: R any packages/ICBI/CINdex k.bhuvaneshwar 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.
    error: Could not fetch upstream

    Thanks,
    Krithika
    kb472 at georgetown.edu

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Thank you for catching that !  That was very helpful

I have now completed Steps# 1 - 7 and Step # 9 from here:
*http://bioconductor.org/developers/how-to/git/sync-existing-repositories/
<http://bioconductor.org/developers/how-to/git/sync-existing-repositories/>
*(I think Step # 8 does not apply to me)

I don't exactly understand what Step # 10 is. Is this what I should do , or
can I skip this ? Please advise.


*10. Repeat for the release branch, replacing master with the name of the
release branch, e.g., RELEASE_3_6. It may be necessary to create the
release branch in the local repository.*

git checkout RELEASE_13_3
  git merge upstream/RELEASE_13_3
  git merge origin/RELEASE_13_3
  git push upstream RELEASE_13_3
  git push origin RELEASE_13_3


Thanks,
Krithika



On Thu, Feb 25, 2021 at 12:33 PM Martin Morgan <mtmorgan.bioc at gmail.com>
wrote:

The Bioconductor remote should not include 'ICBI,

     git remote remove upstream
     git remote add upstream git at git.bioconductor.org:packages/CINdex.git

?On 2/25/21, 11:40 AM, "Bioc-devel on behalf of Krithika Bhuvaneshwar" <
bioc-devel-bounces at r-project.org on behalf of kb472 at georgetown.edu> wrote:

     Hello,

     We are the package maintaines for the CINdex package.  We have made
changes
     in our package to address the build errors for the upcoming release.
The
     latest code is here in our Gtithub account *
https://github.com/ICBI/CINdex
     <https://github.com/ICBI/CINdex>  . *I'm trying to sync it with the
BioC
     Github repo, but encountering errors. Would appreciate some help

     These are the steps I did:

     1) Updated code so that there are no build errors. Updated version
     information in DESCRIPTION File (changed from 1.19.0 to 1.19.1). The
latest
     code is here in our Gtithub account *https://github.com/ICBI/CINdex
     <https://github.com/ICBI/CINdex> *

     2)  I generated new ssh keys , and then added the ssh information from
my
     *id_rsa.pub* file in this link.
     https://git.bioconductor.org/BiocCredentials/account_activation/

     3) I'm currently following the steps mentioned here:
     bioconductor.org/developers/how-to/git/sync-existing-repositories/.
*I have
     an error when I try git fetch*

     #Configure the ?remotes? of the GitHub clone. --- completed step
     git remote add upstream git at git.bioconductor.org:
packages/ICBI/CINdex.git

     $ git remote -v
     origin https://github.com/ICBI/CINdex (fetch)
     origin https://github.com/ICBI/CINdex (push)
     upstream git at git.bioconductor.org:packages/ICBI/CINdex.git (fetch)
     upstream git at git.bioconductor.org:packages/ICBI/CINdex.git (push)

     $ git fetch --all
     Fetching origin
     Fetching upstream
     FATAL: R any packages/ICBI/CINdex k.bhuvaneshwar 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.
     error: Could not fetch upstream

     Thanks,
     Krithika
     kb472 at georgetown.edu

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