[Bioc-devel] EXTERNAL: Re: Cannot update my development package to Bioconductor

[cstrato]

Dear Nitesh,

Thank you for pointing me to the website how to resolve the conflict.
I hope that now everything is ok.

For the records, here is what I did:

$ cd /Volumes/T3Data/CRAN/GIT/xps

$ git status
On branch master
Your branch is up-to-date with 'origin/master'.
Untracked files:
   (use "git add <file>..." to include in what will be committed)

         .DS_Store
         xps/

nothing added to commit but untracked files present (use "git add" to track)

$ git add DESCRIPTION
$ git commit -m "Fixed conflicts in version change"
[master 0d3ccd0] Fixed conflicts in version change
  1 file changed, 4 deletions(-)

$ git push origin master
Enter passphrase for key '/Users/cstrato/.ssh/id_rsa':
Counting objects: 3, done.
Delta compression using up to 8 threads.
Compressing objects: 100% (3/3), done.
Writing objects: 100% (3/3), 324 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 github.com:cstrato/xps.git
    4121457..0d3ccd0  master -> master

$ git push upstream master
Enter passphrase for key '/Users/cstrato/.ssh/id_rsa':
Counting objects: 3, done.
Delta compression using up to 8 threads.
Compressing objects: 100% (3/3), done.
Writing objects: 100% (3/3), 324 bytes | 0 bytes/s, done.
Total 3 (delta 2), reused 0 (delta 0)
To git.bioconductor.org:packages/xps
    4121457..0d3ccd0  master -> master

# check in Firefox
https://github.com/cstrato/xps


Best regards,
Christian



On 05/15/18 14:50, Turaga, Nitesh wrote:
> Hi
> 
> You have to fix the merge conflicts. Again, please take a look at the documentation on the website
> 
> The canonical documentation for git: http://bioconductor.org/developers/how-to/git/
> 
> The documentation relevant to your problem: http://bioconductor.org/developers/how-to/git/resolve-conflicts/
> 
> Best,
> 
> Nitesh
> 
>> On May 15, 2018, at 8:43 AM, cstrato <cstrato at aon.at> wrote:
>>
>> Dear Marcel,
>>
>> Thank you for the clarification, now it seems to work.
>>
>>
>> However, there is a strange problem. Here is what I did:
>>
>> $ cd /Volumes/T3Data/CRAN/GIT/xps
>>
>> $ git remote -v
>> origin  git at github.com:cstrato/xps.git (fetch)
>> origin  git at github.com:cstrato/xps.git (push)
>> upstream        git at git.bioconductor.org:packages/xps (fetch)
>> upstream        git at git.bioconductor.org:packages/xps (push)
>>
>> $ git checkout master
>> Already on 'master'
>> Your branch is up-to-date with 'origin/master'.
>>
>> $ git pull upstream master
>> Enter passphrase for key '/Users/cstrato/.ssh/id_rsa':
>> remote: Counting objects: 6, done.
>> remote: Compressing objects: 100% (6/6), done.
>> remote: Total 6 (delta 4), reused 0 (delta 0)
>> Unpacking objects: 100% (6/6), done.
>>  From git.bioconductor.org:packages/xps
>> * branch            master     -> FETCH_HEAD
>> * [new branch]      master     -> upstream/master
>> Auto-merging DESCRIPTION
>> CONFLICT (content): Merge conflict in DESCRIPTION
>> Automatic merge failed; fix conflicts and then commit the result.
>>
>> $ git add -v DESCRIPTION
>> add 'DESCRIPTION'
>>
>> $ git add -v NEWS
>>
>> $ git commit -m "update for NEWS"
>> [master 4121457] update for NEWS
>>
>> $ git push origin master
>> Enter passphrase for key '/Users/cstrato/.ssh/id_rsa':
>> Counting objects: 9, done.
>> Delta compression using up to 8 threads.
>> Compressing objects: 100% (9/9), done.
>> Writing objects: 100% (9/9), 1.01 KiB | 0 bytes/s, done.
>> Total 9 (delta 6), reused 0 (delta 0)
>> remote: Resolving deltas: 100% (6/6), completed with 3 local objects.
>> To github.com:cstrato/xps.git
>>    cf326be..4121457  master -> master
>>
>> $ git pull upstream master
>> Enter passphrase for key '/Users/cstrato/.ssh/id_rsa':
>>  From git.bioconductor.org:packages/xps
>> * branch            master     -> FETCH_HEAD
>> Already up-to-date.
>>
>> $ git push upstream master
>> Enter passphrase for key '/Users/cstrato/.ssh/id_rsa':
>> Counting objects: 11, done.
>> Delta compression using up to 8 threads.
>> Compressing objects: 100% (11/11), done.
>> Writing objects: 100% (11/11), 1.68 KiB | 0 bytes/s, done.
>> Total 11 (delta 8), reused 0 (delta 0)
>> To git.bioconductor.org:packages/xps
>>    aae14d1..4121457  master -> master
>>
>>
>> It seems that there was a conflict with DESCRIPTION,
>> so I did again 'git add DESCRIPTION'
>>
>> Now everything seems to be ok, but when looking at the
>> DESCRIPTION file in e.g. https://github.com/cstrato/xps
>> the first lines of DESCRIPTION looks as follows:
>>
>> Package: xps
>> <<<<<<< HEAD
>> Version: 1.41.2
>> =======
>> Version: 1.41.0
>>>>>>>>> aae14d1351c754876880f9b50af9da70f80034ce
>>
>>
>> Should I keep this DESCRIPTION file or delete the additional lines or update the DESCRIPTION file again?
>>
>> Best regards,
>> Christian
>>
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> 
> 
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