Re: [Bioc-devel] 3.3 branch created

- Original Message - > From: "lcollado" > To: "Dan Tenenbaum" > Cc: "bioc-devel" > Sent: Tuesday, May 3, 2016 7:52:50 PM > Subject: Re: [Bioc-devel] 3.3 branch created > Hi Dan, > > Everything looks great! Thanks for all the hard work!! > > My one question is regarding when we can r

Re: [Bioc-devel] 3.3 branch created

Hi Dan, Everything looks great! Thanks for all the hard work!! My one question is regarding when we can resume using https://github.com/Bioconductor-mirror/. Right now https://github.com/Bioconductor-mirror/derfinder and https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/derfinder/DESCRI

[Bioc-devel] 3.3 branch created

The BioC 3.3 branch is now ready. Remember, you always have access to 2 versions of your package: the "release" and the "devel" versions. Right now the "release" version of your package (which is not officially released yet but will be tomorrow if everything goes well) is in the 3.3 branch and ac

[Bioc-devel] Bioconductor 3.3 branch to be created today - do not commit during this time

Hello BioC developers, We will be creating the Bioconductor 3.3 branch today at 2:15 PM Seattle time. (21:15 UTC). This is about an hour from now. Please stop all commits to trunk before 2:15PM and do not resume until further notice. We will send another email when it is OK to resume commits. Th

Re: [Bioc-devel] Making transcriptLength function a method in GenomicFeatures?

On 05/02/2016 03:46 AM, Rainer Johannes wrote: Hi Herve, passing down additional arguments to the internal exonsBy, cdsBy, fiveUTRsByTranscript and threeUTRsByTranscript would do it! That would be great, thanks. Hi Johannes -- Lori (cc'd, a new team member) and I are working on this. The eas

Re: [Bioc-devel] check shiny app: issue with global variables: input$Vars is not found

Hi Stefan, Thanks, Yes you are right. I mean r_data$globalVar2 instead input$globalVar2. which r_data is a new env used to store global variables. The question is: Some functions run with variables returned from ui.R (input$var1) and in some case theses variables are saved as global variable to a

[Bioc-devel] check shiny app: issue with global variables: input$Vars is not found

Dear R, usually, Shiny app uses global variables saved in a session. These variables can be returned by client web page (checkbox or select). for example: FUN1 <- function(input$var1){ a <- input$car1 + input$globalVar2 return (a) } when I run check package I got error like object input$globalV

Re: [Bioc-devel] Error on genes-method,OrganismDbi

Yep, that was it. Thanks! Hector On Tue, May 3, 2016 at 6:14 AM, Vincent Carey wrote: > Try 1.13.9 of OrganismDbi -- I ran into this and Val answered yesterday. > You need to get 1.13.9 from svn source. > > On Tue, May 3, 2016 at 5:57 AM, Hector Corrada Bravo > wrote: > >> Hello all, >> >> I ju

Re: [Bioc-devel] Error on genes-method,OrganismDbi

Try 1.13.9 of OrganismDbi -- I ran into this and Val answered yesterday. You need to get 1.13.9 from svn source. On Tue, May 3, 2016 at 5:57 AM, Hector Corrada Bravo wrote: > Hello all, > > I just ran into this error. Any help appreciated: > > >library(Mus.musculus) > > gr <- genes(Mus.musculus,

[Bioc-devel] Error on genes-method,OrganismDbi

Hello all, I just ran into this error. Any help appreciated: >library(Mus.musculus) > gr <- genes(Mus.musculus, columns=c("GENEID","SYMBOL")) Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object '.testSelectArgs' not found > sessionInfo() R version 3.3.0 RC (2016-05-01 r70572