Re: [Bioc-devel] problem installing 'Affycoretools' in linux ubuntu

2017-03-02 Thread James W. MacDonald
The devel list is intended for developers to discuss issues with package development, not general user problems. In future please use support.bioconductor.org for this sort of question. That said, the errors come early on in your output: Configuration failed because libcurl was not found. Try

[Bioc-devel] problem installing 'Affycoretools' in linux ubuntu

2017-03-02 Thread deepti anand
Hi All, I am using new version of R studio (Version 1.0.136 � � 2009-2016 RStudio, Inc.) on my linux ubuntu system. I am having problems with installing 'affycoretools' package. below are the warning messages: > biocLite("affycoretools") BioC_mirror: https://bioconductor.org Using

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-02 Thread Aaron Lun
I'll give two examples from the scran package. In both cases, the count matrix is such that rows are genes and columns are cells. The first example involves cell cycle phase assignment (from the cyclone() function, FYI). Briefly, upon entry to C++, the function: 1. Loops through the cells, one

Re: [Bioc-devel] any interest in a BiocMatrix core package?

2017-03-02 Thread Wolfgang Huber
Aaron Can you describe use cases, i.e. intended computations on these matrices, esp. those for which C++ access is needed for? I'm asking b/c the goals of efficient code and abstraction from how the data are stored may be conflicting - in which case critical algorithms may end up

Re: [Bioc-devel] covr

2017-03-02 Thread Estefania Mancini
Thanks Stephanie! I'm working on this. Sorry if it was a naif question but I want to do the modifications in the best way without making problems. Estefi De: Stephanie M. Gogarten [sdmor...@u.washington.edu] Enviado: lunes, 27 de febrero de 2017 01:56