[Bioc-devel] Build OK in devel, Mac OS error in release (CausalR)

Hi All, We currently have the same version of our package CausalR up in devel and release, but while devel is showing build OK for all 3 platforms, release is showing an build error for Mac OS. The error is related to the vignette building: * creating vignettes ... ERROR Error in texi2dvi(file

Re: [Bioc-devel] Issues uploading our updated package (CausalR)

importantly, would the build:warnings in devel affect the release of the package in v3.3? Thanks, Glyn From: Glyn Bradley Sent: 16 March 2016 13:22 To: 'Kasper Daniel Hansen' Cc: bioc-devel@r-project.org Subject: RE: [Bioc-devel] Issues uploading our updated package (CausalR) Thanks, we’

Re: [Bioc-devel] Issues uploading our updated package (CausalR)

Thanks, we’ve already read that. I was more hoping for a response from the Bioconductor team Glyn From: Kasper Daniel Hansen [mailto:kasperdanielhan...@gmail.com] Sent: 16 March 2016 13:20 To: Glyn Bradley Cc: bioc-devel@r-project.org Subject: Re: [Bioc-devel] Issues uploading our updated package

[Bioc-devel] Issues uploading our updated package (CausalR)

Hi All, Our package, CausalR, broke when igraph was updated last year. We have now fixed this, but are having problems uploading the new version. The package had become depreciated in devel, but there's still a landing page in release. We checked out the existing Bioconductor version (via SVN)

[Bioc-devel] Updating CausalR package after igraph fix

Hi All, Our package CausalR depends on igraph and so broke when igraph was updated last year. We have now fixed CausalR to work with the latest igraph, but we're not sure how we need to go about updating it on Bioconductor, - can we just submit our fixed package as an update, or do we need to d

[Bioc-devel] Package deprecation and reacceptance

Hi All, Our package CausalR is currently broke due to the igraph updates. We're working on fixing it, but other commitments mean I'm really not sure when we'll get it done, and we've been told it will be depreciated before the upcoming release. Should that happen, will it be possible for us to

Re: [Bioc-devel] changes to igraph break many Bioconductor packages (in release and devel)

Hi All Is it acceptable to specify a particular version of igraph for our package to use, even as a temporary fix? Failing that, does anyone know of any way I can get R to tell me which functions in our package (CausalR) call which igraph functions? Thanks Glyn -Original Message- From

[Bioc-devel] New package : CausalR

Hi All, We're pleased to announce the release of our package 'CausalR', which provides functions for causal reasoning (causal network analysis). The idea is to explain sets of observed endpoints by reasoning through causal interaction networks, so for example this type of analysis can be used t

[Bioc-devel] Rtools warning on tracker page

Hi After uploading our package to the tracker, it built successfully on all systems with no errors. But we have the following Rtools related WARNING: WARNING: Rtools is required to build R packages, but no version of Rtools compatible with R 3.2.0 was found. (Only the following incompatible vers

Re: [Bioc-devel] BiocCheck examples error when using imported package functions

Hi Please disregard this thread, I've realised it's an error with our code Thanks Glyn From: Glyn Bradley Sent: 16 January 2015 15:32 To: 'bioc-devel@r-project.org' Subject: BiocCheck examples error when using imported package functions Hi, Our package uses igraph. We

[Bioc-devel] BiocCheck examples error when using imported package functions

Hi, Our package uses igraph. We have imports: igraph in the DESCRIPTION file and import(igraph)in the NAMESPACE But when we try to write examples for our functions that use igraph functions to create then use igraph objects from our input, BiocCheck fails on them. How can we use igraph in our exa