# define modules runtime quarantine configuration Sys.setenv('MODULES_RUN_QUARANTINE'='LD_LIBRARY_PATH LD_PRELOAD') # setup quarantine if defined mlre <- '' if (!is.na(Sys.getenv('MODULES_RUN_QUARANTINE', unset=NA))) { for (mlv in strsplit(Sys.getenv('MODULES_RUN_QUARANTINE'), ' ')[[1]]) { if (grepl('^[A-Za-z_][A-Za-z0-9_]*$', mlv)) { if (!is.na(Sys.getenv(mlv, unset=NA))) { mlre <- paste0(mlre, "__MODULES_QUAR_", mlv, "='", Sys.getenv(mlv), "' ") } mlrv <- paste0('MODULES_RUNENV_', mlv) mlre <- paste0(mlre, mlv, "='", Sys.getenv(mlrv), "' ") } } if (mlre != '') { mlre <- paste0('env ', mlre, '__MODULES_QUARANTINE_SET=1 ') } } # define module command and surrounding initial environment (default value # for MODULESHOME, MODULEPATH, LOADEDMODULES and parse of init config files) cmdpipe <- pipe(paste0(mlre, '/usr/bin/tclsh "/usr/share/Modules/libexec/modulecmd.tcl" r autoinit')) eval(parse(cmdpipe)) close(cmdpipe)