Re: [Bioc-devel] Vignette building fails

Also be sure you are using a recent version of R-devel. Dan - Original Message - > From: "Paul Grosu" > To: "Fan, Jean" > Cc: "bioc-devel" > Sent: Thursday, January 28, 2016 7:49:09 AM > Subject: Re: [Bioc-devel]

Re: [Bioc-devel] Vignette building fails

Hi Jean, I think you might need to update the required packages, so that they install if you don't have them installed. The test I usually run is by keeping clean R installations and testing packages fresh as if I am a user who just downloaded R. You seem to need org.Hs.eg.db and GO.db for the

Re: [Bioc-devel] fail to build a package after updating Bioconductor packages

Thanks Jean! You solved my problem :) Yu On Wed, Jan 27, 2016 at 3:35 PM, Fan, Jean wrote: > Hi Yu, > > It looks like you’re using R Markdown v2 instead of R Markdown v1 so you > will have to change your vignette engine. > Your vignette likely contains

Re: [Bioc-devel] Vignette building fails

Hi Martin, Ah, I didn’t realize the problems were connected. Yes, the vignettes do take quite a while to run. I’ll see what I can do. Thanks for the help. Best, Jean > On Jan 28, 2016, at 9:28 AM, Morgan, Martin > wrote: > > I tried to build your vignettes on

[Bioc-devel] Vignette building fails

Hello, I recently updated my bioconductor package via svn. The package was built successfully on my computer via R CMD build scde and passed R CMD check scde and R CMD BiocCheck scde. But the build report on Bioconductor ran into the following errors when building the vignettes: * checking

Re: [Bioc-devel] Vignette building fails

I tried to build your vignettes on my own computer, but they are taking too long. From http://bioconductor.org/developers/package-guidelines/#correctness the time limit for checking a package (which includes running the vignette code, though not building the vignette) is 5 minutes. Do your