Re: [Bioc-devel] Version numbers incremented?

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

Re: [Bioc-devel] Version numbers incremented?

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

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 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,

Re: [Bioc-devel] Version numbers incremented?

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.

Re: [Bioc-devel] \donttest and the "80% of man pages documenting exported objects must have runnable examples" rule

On 17 May 2016 at 13:43, Martin Maechler wrote: > I also wonder *why* you use \donttest{} so extensively. > It's clearly better than \dontrun{} (which really distresses > me, if used more than occasionally). I totally agree with you that \dontrun is overused and

Re: [Bioc-devel] Version numbers incremented?

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

Re: [Bioc-devel] \donttest and the "80% of man pages documenting exported objects must have runnable examples" rule

> Martin Morgan > on Sun, 15 May 2016 14:25:01 -0400 writes: > On 05/15/2016 02:20 PM, Dan Tenenbaum wrote: >> >> >> - Original Message - >>> From: "Richard Cotton" To: >>> "bioc-devel"

[Bioc-devel] Version numbers incremented?

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