[Bioc-devel] Pushing to Bioconductor repo gives errors

On Sep 7, 2020, at 8:44 AM, Nitesh Turaga <nturaga.bioc at gmail.com> wrote:

Your push went through. This is a different issue. I?ll look into it tomorrow.

Thanks,

Nitesh

On Sep 6, 2020, at 12:44 PM, Alina Selega <alina.selega at gmail.com <mailto:alina.selega at gmail.com>> wrote:

Sorry, looks like the error got mangled. I pasted it in this gist:
https://gist.github.com/alinaselega/f5c4f724309211cc4a5bedd2a05bfd1e <https://gist.github.com/alinaselega/f5c4f724309211cc4a5bedd2a05bfd1e>

Thanks,
Alina

On Sun, 6 Sep 2020 at 12:36, Alina Selega <alina.selega at gmail.com> wrote:

Hi,

I wanted to re-add a license file to my repository which got misplaced (no
changes to code). I followed the instructions in this link (
https://bioconductor.org/developers/how-to/git/pull-upstream-changes/) to
pull upstream changes.

I then followed these instructions (
https://bioconductor.org/developers/how-to/git/push-to-github-bioc/). I
successfully pushed the file to my Github repo, but when I reached step 6
to push the changes to Bioconductor, I got the following errors:

```
Counting objects: 3, done.
                                     Delta compression using up to 8
threads.
Compressing objects: 100% (3/3), done.
                       Writing objects: 100% (3/3), 12.11 KiB | 6.05
MiB/s, done.                                  Total 3 (delta 1), reused 1
(delta 0)
   remote: fatal: this operation must be run in a work tree
                       remote: ERROR:root:Exception: Command '['git',
'rev-parse', '--show-toplevel']' returned non-zero exit status 128
remote: ERROR:root:local variable 'package_name' referenced before
assignment
remote: Note: failed to update RSS feed;git repository updated
successfully.        To git.bioconductor.org:packages/BUMHMM.git
                                         bbafa73..160b7a7  master -> master
```

It appears that the upstream updated successfully but can you advise about
the errors?

Thank you,
Alina

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