[R-pkg-devel] CRAN and packages bundling third party C/C++ code

2018-01-18 Thread Kevin Ushey
Hi, This is mostly a question for the CRAN team, but I figured posting here would be best since other package maintainers could see the responses as well. I'm currently in the process of preparing a submission of RcppParallel to CRAN. RcppParallel bundles Intel's Threading Building Blocks

Re: [Rd] Coping with non-standard evaluation in R program analysis

2018-01-18 Thread Gabriel Becker
Evan, You can look at what CodeDepends (on cran/ github.com/duncantl/CodeDepends ) does for nonstandard evaluation. It is a static code analyzer which allows for custom handler functions for calls to specific functions. The default handlers provided are "NSE-aware" (many of) the common contexts

[Bioc-devel] CINdex package build error in Linux

2018-01-18 Thread Krithika Bhuvaneshwar
Hello Bioconductor team, We are the creator and maintainers of the CINdex Bioconductor package. Last few days, we are seeing build errors in our package (See below). The package builds fine in Mac OS, but is giving the following error on Ubuntu OS.

Re: [Bioc-devel] unable to push to bioconductor git

2018-01-18 Thread Turaga, Nitesh
Hi Davy, omicsPrint has only m.iterson registered on our git server. I guess you are pulling and cloning using the “HTTPS” protocol instead of the SSH. It should reject you if you ask to clone using “git clone g...@git.bioconductor.org:packages/omicsPrint”. Please use the correct protocol,

[Rd] wrong matrix dimension in sparseQR

2018-01-18 Thread Serguei Sokol
Hi, I came across a case when the dimensions of matrices returned by qr() operated on a sparse matrix does not coincide with the initial matrix. Here is a spinet code that should produce an example (one of many that I could provide):  m=205  n=199  set.seed(7);  a=matrix(rnorm(m*n), m, n)  

[Bioc-devel] unable to push to bioconductor git

2018-01-18 Thread Davy Cats
Dear bioconductor admins, I am the maintainer of the omicsPrint package. Up until now the original creator of the package has been pushing all changes to the bioconductor git. When I try to push changes to the bioconductor git, however, I get the following message: FATAL: W any