安装 leafcutter和rstan这两个R包

• 安装网址：http://davidaknowles.github.io/leafcutter/articles/Installation.html

安装rstan的R包

> install.packages("rstan")
###报错
downloaded 888 KB

* installing *source* package ‘rstan’ ...
** package ‘rstan’ successfully unpacked and MD5 sums checked
** libs
Error in .shlib_internal(args) : 
  C++14 standard requested but CXX14 is not defined
* removing ‘/Share2/home/jiangmn/R/x86_64-redhat-linux-gnu-library/3.5/rstan’

The downloaded source packages are in
    ‘/tmp/RtmpZurhdv/downloaded_packages’
Warning message:
In install.packages("rstan") :
  installation of package ‘rstan’ had non-zero exit status

• 报错网址https://github.com/facebook/prophet/issues/760
• 原因是未在C ++工具链（https://github.com/stan-dev/rstan/wiki/Installing-RStan-on-Linux）中设置C ++ 14 。这可能也需要在先知Makevars中进行更新
• 修复报错

$ mkdir ~/.R
$ vim ~/.R/Makevars
CXX14FLAGS=-O3 -march=native -mtune=native -fPIC
CXX14=g++
###指定gcc编译器版本7
$ export PATH=/gcc/7.3.0/bin/:$PATH
$ export LD_LIBRARY_PATH=/gcc/7.3.0/lib64/:$LD_LIBRARY_PATH

• 重新安装rstan

> install.packages("rstan")
ted as a topic
    stanfit-method-pairs                    html  
    stanfit-method-plot                     html  
    stanfit-method-summary                  html  
    stanfit-method-traceplot                html  
    stanfit2array-method                    html  
    stanmodel-class                         html  
    stanmodel-method-gqs                    html  
    stanmodel-method-optimizing             html  
    stanmodel-method-sampling               html  
    stanmodel-method-vb                     html  
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (rstan)

The downloaded source packages are in
    ‘/tmp/RtmpodTNoo/downloaded_packages’

• 安装rstan的R包成功

安装需要rstantools

> if (!require("devtools")) install.packages("devtools", repos='http://cran.us.rLoading required package: devtools
> devtools::install_github("stan-dev/rstantools")
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (rstantools)
> 
    map_clusters_to_genes                   html  
    multiqq                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (leafcutter)
> library(leafcutter)
Loading required package: Rcpp