[Bioc-devel] Version numbers incremented?

Ulrich Bodenhofer bodenhofer at bioinf.jku.at
Tue May 17 17:11:25 CEST 2016

Thanks, Kasper and Dan, I already found it. Next time something like 
that happens, I will first check out the logs.

Best regards,

On 05/17/2016 05:09 PM, Dan Tenenbaum wrote:
> 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.
> Dan
> ----- 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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