README.md

In rmsharp/animalr: Provides Useful Functions for the SNPRC Animal Database

animalr

Installation

Installation from Source

rmsutilityr is a local source packages that must be installed prior to installing animalr.

For example, a very manual approach is to use the following code, which assumes you have all of the dependencies already installed:

install_path <- "c:/R Library"
source_path <- "d:Labkey data"
source <- "rmsutilityr.1.0.56.tar.gz"
install.packages(paste0(source_path, "/", source), type = "source", repos = NULL,
                     lib = install_path)
source <- "animalr.0.1.86.tar.gz"
install.packages(paste0(source_path, "/", source), type = "source", repos = NULL,
                     lib = install_path)

One or more of these will fail if you do not have the dependencies already installed, but the error message will provide the name(s) of the packages needed. However, as soon as one of the source packages is updated that code no longer work because the filename is wrong.

Assuming you have a version of rmsutilityr installed you can simply use the following code, which will find all of the dependencies, install them, locate the most recent source versions of the packages rmsutilityr, animalr, and animalr, and install them.

library(rmsutilityr)
source_names <- c("rmsutilityr", "animalr")
source_path <- "d:Labkey data/"
## dependencies becomes the collection of packages needed to support our
## custom packages
dependencies <- make_package_dependency_list(source_names, source_path)
## We are installing binary packages first and then our local source
dependencies <- remove_these_str(dependencies, expunge = source_names)
install.packages(dependencies, type = "binary",
                 repos = "https://cran.revolutionanalytics.com",
                 lib = lib_path)
update.packages(lib.loc = lib_path,
                repos = "https://cran.revolutionanalytics.com", ask = FALSE)

install_from_source(source_names, source_path, install_path)

Github.com Installation

It is much easier to install directly from github.com/rmsharp/animalr as all of the dependencies are automatically installed as well.

You can install animalr from github with:

install.packages("devtools")
devtools::install_github("rmsharp/animalr")

All missing dependencies should be automatically installed.

rmsharp/animalr documentation built on March 10, 2021, 1:12 p.m.