[Bioc-devel] R: Errors updating DaMiRseq package

Mattia Chiesa mattia.chiesa at hotmail.it
Sat Sep 23 14:44:15 CEST 2017

Dear Nitesh,
thank you! Now it seems to work perfectly. I will check the effect tomorrow after the nighty build.
Just another little question, related with my issue: I solve it using

git merge --allow-unrelated-histories upstream/master

And then resolving conflicts:

git commit -m "Fixed conflicts in version change"

However, I didn’t delete any lines in DESCRIPTION. (between ===== and >>>>>>). Do you think it would be OK?
Thanks again,

Da: Turaga, Nitesh<mailto:Nitesh.Turaga at RoswellPark.org>
Inviato: venerdì 22 settembre 2017 17:10
A: Mattia Chiesa<mailto:mattia.chiesa at hotmail.it>
Cc: bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>
Oggetto: Re: [Bioc-devel] Errors updating DaMiRseq package


This should help you with the issue you are having. Please follow those steps.



> On Sep 22, 2017, at 11:02 AM, Mattia Chiesa <mattia.chiesa at hotmail.it> wrote:
> Dear all,
> I am the mantainer of the DaMiRseq package. I have some problems with GIT:
> I filled the form for ssh key some weeks ago and I guess everthinks is ok.
> $ git remote -v
> origin  https://github.com/BioinfoMonzino/DaMiRseq.git (fetch)
> origin  https://github.com/BioinfoMonzino/DaMiRseq.git (push)
> upstream        git at git.bioconductor.org:packages/DaMiRseq.git (fetch)
> upstream        git at git.bioconductor.org:packages/DaMiRseq.git (push)
> Now, I want to fix some minor bugs in the package (e.g. some words in the vignette) for the next release.
> Therefore, I performed changes and bumped the version of DESCRIPTION FILE to 1.1.2 (it is 1.1.1 in devel https://www.bioconductor.org/packages/devel/bioc/html/DaMiRseq.html ) and try to update both the Bioconductor and the exixting GitHub repository ( https://github.com/BioinfoMonzino/DaMiRseq )<https://github.com/BioinfoMonzino/DaMiRseq>. So, following the "Scenario 2" for the git transition ( https://github.com/Bioconductor/bioc_git_transition/blob/master/doc/scenario-2-push-to-github-gitbioc.md) I have just run:
> $ git add .
> $ git commit -m  "message for commit"
> $ git push origin master
> Counting objects: 3, done.
> Delta compression using up to 12 threads.
> Compressing objects: 100% (3/3), done.
> Writing objects: 100% (3/3), 327 bytes | 0 bytes/s, done.
> Total 3 (delta 2), reused 0 (delta 0)
> remote: Resolving deltas: 100% (2/2), completed with 2 local objects.
> To https://github.com/BioinfoMonzino/DaMiRseq.git
>   21d32c2..1890325  master -> master
> Everythink seems ok, but finally I ran:
> $ git push upstream master
> Enter passphrase for key '/c/Users/mchiesa/.ssh/id_rsa':
> To git.bioconductor.org:packages/DaMiRseq.git
> ! [rejected]        master -> master (non-fast-forward)
> error: failed to push some refs to 'git at git.bioconductor.org:packages/DaMiRseq.git'
> hint: Updates were rejected because the tip of your current branch is behind
> hint: its remote counterpart. Integrate the remote changes (e.g.
> hint: 'git pull ...') before pushing again.
> hint: See the 'Note about fast-forwards' in 'git push --help' for details.
> I have also thought to "merge conflicts", but I got again an error message
> $ git merge upstream/master
> fatal: refusing to merge unrelated histories
> What should I do?
> Thank in advance,
> Mattia
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