[Bioc-devel] Resetting to previous commits

Yes, the Bioconductor build system will only try to build the most recent
version in the git repository.  If it never managed to successfully build a
particular version then that version should not appear anywhere on the Bioc
site.  For example biomaRt is now on release 2.40.3, but version 2.40.2
never passed all the checks, and so is absent from the archive at
https://bioconductor.org/packages/3.9/bioc/src/contrib/Archive/biomaRt/
In
theory someone could get hold of it via git, anyone doing so it probably
experienced enough to look after themselves.

Best,
Mike

On Wed, 14 Aug 2019 at 18:12, Erik Fasterius <erik.fasterius at outlook.com>
wrote:

Thank you for the prompt response! I will just add more versions on top

of

what I have already added. Would it be correct to assume that

Bioconductor

will try to build the most recent version available, even though it

failed

builds for previous versions?

Regarding the change, it was indeed a breaking change, and I thus

believed

that it would have been counted as a bug-fix for the release branch.

All the best,
Erik

On 14 Aug 2019, at 17:15, Kasper Daniel Hansen <
kasperdanielhansen at gmail.com<mailto:kasperdanielhansen at gmail.com>>

wrote:

Also, it is not clear to me if this qualifies for a update to the release
branch. Updates to release should be restricted to critical bug fixes
(although if tidyr updates will break your package, that sounds like a
critical bug fix to me)

Note to others: this (again) emphasizes that we may need to "copy" a
snapshot of CRAN into release.

Best,
Kasper

On Wed, Aug 14, 2019 at 11:13 AM Kasper Daniel Hansen <
kasperdanielhansen at gmail.com<mailto:kasperdanielhansen at gmail.com>>

wrote:

You cannot revert. By pushing those updates, you released a version into
the wild. It is true that as long as it doesn't build on the build

servers,

it would have been hard to obtain for anyone, but it is still possible
through git. You need to update the version.

Best,
Kasper

On Wed, Aug 14, 2019 at 11:05 AM Erik Fasterius <
erik.fasterius at outlook.com<mailto:erik.fasterius at outlook.com>> wrote:
I made some changes to my seqCAT package the last few days in order to
prepare for version 1.0.0 of tidyr, which was apparently harder than I
initially thought. I was also a bit too quick with pushing to

Bioconductor

(both the release and devel branches), and now I?ve got several updates

and

versions that don?t work - very stupid of me, I know. I do seem to have a
working version now, though, and I finally learnt my lesson and have NOT
pushed this to Bioconductor yet. Now I want to reset to the previously
working versions of my package (1.6.0 for release and 1.7.2 for devel)

I did try to make (temporary) hard resets and force push these to
Bioconductor (as per the ?reset to a previous commit? in the ?abandon
changes? developer section), but these did not work: all I got was errors
say I cannot move from a higher version (e.g. 1.6.2) back to a lower one
(1.6.0). Is there a way to bypass this? If not, I assume I?ll just have

to

make a new version for each branch (1.6.3 and 1.7.5, as it were) and push
those, leaving several non-functional versions at Bioconductor? If at all
possible I?d like to avoid this.

Again, I realise these problems are because of errors on my part, and
would like to know if I can solve them somehow or if I?ll just have to

live

with them.

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