On Aug 14, 2015, at 6:57 AM, Lo <lorena.pantano at gmail.com> wrote:
Hi,
I am trying to get right my new package (http://github.com/lpantano/isomiRs). But I am having some problems with the packages I import.
The main problem is that I get warnings while loading my packages because some dplyr replaces functions in others packages like S4Vectors and others.
This is my NAMESPACE
import(BiocGenerics)
import(S4Vectors)
import(IRanges)
import(GenomicRanges)
import(SummarizedExperiment)
import(dplyr)
importFrom(plyr, join_all)
import(DESeq2)
import(methods)
import(RColorBrewer)
import(gplots)
import(ggplot2)
import(GGally)
import(DiscriMiner)
and these are the warnings:
** preparing package for lazy loading
Warning: replacing previous import by ?dplyr::slice? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::collapse? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::intersect? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::setdiff? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::union? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::rename? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::combine? when loading ?isomiRs?
Warning: replacing previous import by ?dplyr::desc? when loading ?isomiRs?
Warning: replacing previous import by ?gplots::space? when loading ?isomiRs?
** help
I need to solve this to avoid warnings. I tried something like use `importFrom` to only import some functions but don't know if importFrom is something I shouldn't use or I should.
I would also appreciate very much if some one can point me to the right way to solve the following:
* I failed to create good documentation for some functions, data of my package. Can anyone point me to a good example of a dataset documentation, so I could create a good one for my dataset example.
* I have some problems with my coding style, like sometimes I have `=` insted of `<-` and I forgot to add spaces like this ` <- `. Any one knows of a plugin for any editor to help me find that. Because I am always missing some of them by eye.
Thanks a lot in advance for any help in any point.
Lorena