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| author | Christoph Helma <helma@in-silico.ch> | 2019-08-24 15:06:53 +0200 |
|---|---|---|
| committer | Christoph Helma <helma@in-silico.ch> | 2019-08-24 15:06:53 +0200 |
| commit | 8e1e8b94539dbdd74bd4ac28295cbfd1b84036ab (patch) | |
| tree | 28528e19dc6ed4cca7ed824e939dedd6c4acc94c /ext/lazar | |
| parent | 1ee7de09c969e16fd11522d22179224e694b0161 (diff) | |
| parent | 488ce9fe6d4b715680675861105b8c52a7535140 (diff) | |
Merge remote-tracking branch 'origin/development'
Diffstat (limited to 'ext/lazar')
| -rw-r--r-- | ext/lazar/extconf.rb | 4 | ||||
| -rw-r--r-- | ext/lazar/rinstall.R | 22 |
2 files changed, 14 insertions, 12 deletions
diff --git a/ext/lazar/extconf.rb b/ext/lazar/extconf.rb index 9997106..aa031e5 100644 --- a/ext/lazar/extconf.rb +++ b/ext/lazar/extconf.rb @@ -5,12 +5,12 @@ require 'mkmf' main_dir = File.expand_path(File.join(File.dirname(__FILE__),"..","..")) # check for required programs -programs = ["R","Rscript","mongod","java","getconf"] +programs = ["R","Rscript","mongod","java","getconf","wget","unzip","xls2csv","xlsx2csv"] programs.each do |program| abort "Please install #{program} on your system." unless find_executable program end -abort "Please install Rserve on your system. Execute 'install.packages('Rserve')' in a R console running as root ('sudo R')." unless `R CMD Rserve --version`.match(/^Rserve/) +abort "Please install the latest Rserve version on your system (the CRAN version is outdated). Execute 'install.packages('Rserve',,'http://www.rforge.net/')' in a R console running as root ('sudo R')." unless `R CMD Rserve --version`.match(/^Rserve v1.8/) # install R packages r_dir = File.join main_dir, "R" diff --git a/ext/lazar/rinstall.R b/ext/lazar/rinstall.R index 98e612d..17c2e61 100644 --- a/ext/lazar/rinstall.R +++ b/ext/lazar/rinstall.R @@ -1,12 +1,14 @@ libdir = commandArgs(trailingOnly=TRUE)[1] repo = "https://stat.ethz.ch/CRAN/" -#install.packages("Rserve",lib=libdir,repos=repo,dependencies=TRUE) -install.packages("stringi",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("iterators",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("foreach",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("gridExtra",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("ggplot2",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("pls",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("randomForest",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("caret",lib=libdir,repos=repo,dependencies=TRUE); -install.packages("doMC",lib=libdir,repos=repo,dependencies=TRUE); +#install.packages("Rserve",lib=libdir,repos=) +# dependencies=TRUE installs unnecessary Suggests packages. The default, NA, means c("Depends", "Imports", "LinkingTo"). +install.packages("caret",lib=libdir,repos=repo); +install.packages("stringi",lib=libdir,repos=repo); +install.packages("iterators",lib=libdir,repos=repo); +install.packages("labeling",lib=libdir,repos=repo); +install.packages("foreach",lib=libdir,repos=repo); +install.packages("gridExtra",lib=libdir,repos=repo); +install.packages("ggplot2",lib=libdir,repos=repo); +install.packages("pls",lib=libdir,repos=repo); +install.packages("randomForest",lib=libdir,repos=repo); +install.packages("doMC",lib=libdir,repos=repo); |