[Bioc-devel] Version numbers incremented?

Dan Tenenbaum dtenenba at fredhutch.org
Tue May 17 17:09:35 CEST 2016

For the record, here is the log message:

Version bump to trigger package rebuilding now that purl()'ing issue
has been correctly identified. knitr does not create purl()'ed
(Stangle equivalent) .R files if _R_CHECK_TIMINGS_ is set, which
the build system was setting. Now it's not set, so these .R files are
now created. See https://github.com/yihui/knitr/issues/1212 for more.


----- Original Message -----
> From: "Kasper Daniel Hansen" <kasperdanielhansen at gmail.com>
> To: "Ulrich Bodenhofer" <bodenhofer at bioinf.jku.at>
> Cc: "bioc-devel" <bioc-devel at r-project.org>, "msa" <msa at bioinf.jku.at>, kebabs at bioinf.jku.at
> Sent: Tuesday, May 17, 2016 7:15:35 AM
> Subject: Re: [Bioc-devel] Version numbers incremented?

> Ulrich, "svn log" does not help you here?
> On Tue, May 17, 2016 at 9:12 AM, Ulrich Bodenhofer <bodenhofer at bioinf.jku.at
>> wrote:
>> Thanks, Leonardo! Yes, all my four packages use knitr, while the other
>> eight packages I mentioned use Sweave. So my question is answered and the
>> issue is closed, thanks again! I just wanted to know what happened, since I
>> could not find an explaination why the version numbers have been bumped.
>> Best regards,
>> Ulrich
>> On 05/17/2016 02:17 PM, Leonardo Collado Torres wrote:
>>> Hi,
>>> Does your package use knitr for creating the vignettes? If so, it must
>>> be because of
>>> https://github.com/lcolladotor/derfinder/commit/c70ede92fb14e83a0fe0032353f7f897ff55b5d5
>>> (the equivalent commit for your package).
>>> Best,
>>> Leonardo
>>> On Tue, May 17, 2016 at 4:18 AM, Ulrich Bodenhofer
>>> <bodenhofer at bioinf.jku.at> wrote:
>>>> Hi all,
>>>> I just noticed that the version numbers of many (yet not all) packages
>>>> have
>>>> recently been incremented from x.y.0 to x.y.2 both in the devel and in
>>>> the
>>>> release branch. Actually, this affected all four packages I am
>>>> maintaining,
>>>> but strangely none of the other eight packages that are maintained by
>>>> other
>>>> members of my group. As it seems to me, the only change was the version
>>>> number in the DESCRIPTION file itself. What is the reason for that? I'm
>>>> sorry if this subject has been covered already and if I should know
>>>> that. At
>>>> least I could not find any information on the bioc-devel list.
>>>> Thanks in advance and best regards,
>>>> Ulrich
>> _______________________________________________
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