Re: [Bioc-devel] BiocStyle issue

I found the issue was filed by yihui half month ago on github, https://github.com/Bioconductor/BiocStyle/issues/18, and the solution is quite intuitive by removing those un-supported paramters (self_contained, lib_dir, output_dir). Hope it will be fixed soon. On Wed, Nov 23, 2016 at 2:25 PM,

[Bioc-devel] Rgraphviz on ppc64le needs updated config.{sub, guess}

Hi, I haven't been able to find a way to report a bug on a package directly, so I'm hoping this is the best way to report a bug, and my apologies in advance if it isn't. Rgraphviz fails to install on little-endian, 64-bit PowerPC (ppc64le). Attempting to install leads to this error message:

Re: [Bioc-devel] BiocStyle issue

Guangchuang, you can see at https://github.com/Bioconductor/BiocStyle/issues/19 (the main github repo for this package) that this issue is already been reported and will be addressed asap by BiocStyle's maintainer. On Tue, Nov 22, 2016 at 9:46 PM, Yu, Guangchuang wrote: > >

[Bioc-devel] BiocStyle issue

Dear all, I recompile my package and it throw the following error when building vignettes: unused arguments (self_contained, lib_dir, output_dir) I search ?opts_knit, and couldn't find these parameters. In ?opts_knit, I find *self.contained* instead of *self_contained*. I remove the

Re: [Rd] shared libraries: missing soname

Dirk Eddelbuettel writes: > On 22 November 2016 at 00:02, Joseph Mingrone wrote: > | These are also not fatal errors on FreeBSD, where everything, for now, also > just > | works. ...until a library's interface changes. You seem to be arguing that > | sonmaes are pointless.

Re: [Bioc-devel] still issues with ggplot2/ggproto in Mac OS X, stable

Hi Ramon, All packages (including ggrepel) were re-installed from scratch after we updated R on the release build machines one week ago. However it seems that re-installing ggrepel on Mac doesn't help. On morelia: > install.packages("ggrepel") --- Please select a CRAN mirror for use in this

Re: [Bioc-devel] Coverage test badge not updating

Thanks Leo. This should be fixed now - the url format needed to be updated. Valerie On 11/18/2016 08:17 AM, Leonardo Collado Torres wrote: > Hi Valerie, > > Thanks! I do see the badges now but the percent reported seems off. > Particularly: > > *

[Bioc-devel] still issues with ggplot2/ggproto in Mac OS X, stable

Dear All, Sorry to return to this issue, but on Morelia (Mac OS X, stable), we are still seeing packages break during build with this message "GeomTextRepel was built with an incompatible version of ggproto. Please reinstall the package that provides this extension. Execution halted" that

Re: [Rd] ifelse() woes ... can we agree on a ifelse2() ?

Martin et al., On Tue, Nov 22, 2016 at 2:12 AM, Martin Maechler wrote: > > Note that my premise was really to get *away* from inheriting > too much from 'test'. > Hence, I have *not* been talking about replacing ifelse() but > rather of providing a new ifelse2()

Re: [Rd] ifelse() woes ... can we agree on a ifelse2() ?

> Gabriel Becker > on Tue, 15 Nov 2016 11:56:04 -0800 writes: > All, > Martin: Thanks for this and all the other things you are doing to both > drive R forward and engage more with the community about things like this. > Apologies for missing