#!/usr/bin/env Rscript
tryCatch({if (!requireNamespace("pacman")) install.packages("pacman")}, warning = function(w) {
  if (!requireNamespace("devtools"))
    install.packages("devtools")
  devtools::install_url("https://cran.r-project.org/src/contrib/Archive/pacman/pacman_0.4.6.tar.gz")
})

pkgs <- c("futile.logger")
suppressMessages(pacman::p_load(pkgs, character.only = TRUE))

if (!dir.exists('~/.bioshiny/download/tools/annovar'))
  BioInstaller::install.bioinfo('annovar', '~/.bioshiny/download/tools/annovar')

if (!dir.exists('~/.bioshiny/download/tools/vcfanno'))
  BioInstaller::install.bioinfo('vcfanno', '~/.bioshiny/download/tools/vcfanno')

flog.info("All bioshiny 3rd dependences were resolved.")