Installation

Table of Contents

sdSuSiE is implemented as an R package, which can be installed from GitHub by:

Dependencies #

  • R version >= 3.5.0.
  • R packages: R6, nloptr, cowplot, dplyr, ggplot2, ggrepel, Rcpp, RcppArmadillo, parallel, doParallel, foreach

1. Install devtools if necessary # 

install.packages('devtools')

2. Install sdSuSiE # 

devtools::install_github('yuanzhongshang/sdSuSiE')

3. Load package # 

library(sdSuSiE)

This package is supported for Windows 10, MAC and Linux. The package has been tested on the following systems:

  • Windows 10: Home (1903)
  • MAC: OSX (10.14.1)
  • Linux: Ubuntu (16.04.6) Installation should take about one minute.

4. Some possible issues when installing the package, especially on the MacOS system #

(1) Cannot find tools necessary when using R in the MacOS system.

Error: Failed to install 'sdSuSiE' from GitHub:
  Could not find tools necessary to compile a package
Call `pkgbuild::check_build_tools(debug = TRUE)` to diagnose the problem.

possible solution: in R, type the code options(buildtools.check = function(action) TRUE ), see the discussion about this error, link

(2) library not found for -lgfortran when using R in the MacOS system.

ld: library not found for -lgfortran

It seems the gfortran is not well installed on the MacOS system. Please check this link for the gfortran installation to see if it helps.