Created
December 23, 2015 14:45
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R function to read variable definition from a bash script
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readSetting <- function(setting_name, file){ | |
# Settings appear in the file in the form of | |
# SETTING_NAME="SETTING_VALUE" | |
# with no leading whitespace characters. | |
setting_begin <- paste0("^", setting_name, "=\"") | |
setting_end <- "\" *$" | |
setting_line <- grep(setting_begin, readLines(file), value=TRUE) | |
setting_value <- gsub(setting_end, "", gsub(setting_begin, "", setting_line, fixed=FALSE), fixed=FALSE) | |
return(setting_value) | |
} | |
settings_file <- "hpc_experiment_conf" | |
FUDGE_WORK_DIR <- readSetting("FUDGE_WORK_DIR",settings_file) | |
FUDGE_DATA_DIR <- readSetting("FUDGE_DATA_DIR",settings_file) | |
WALLTIME_COMBINE <- readSetting("WALLTIME_COMBINE",settings_file) | |
QUEUE_COMBINE <- readSetting("QUEUE_COMBINE",settings_file) | |
EMAIL_NOTIFY_COMBINE <- readSetting("EMAIL_NOTIFY_COMBINE",settings_file) | |
cat("FUDGE_WORK_DIR: ",FUDGE_WORK_DIR,"\n",sep="") | |
cat("FUDGE_DATA_DIR: ",FUDGE_DATA_DIR,"\n",sep="") | |
cat("WALLTIME_COMBINE: ",WALLTIME_COMBINE,"\n",sep="") | |
cat("QUEUE_COMBINE: ",QUEUE_COMBINE,"\n",sep="") | |
cat("EMAIL_NOTIFY_COMBINE: ",EMAIL_NOTIFY_COMBINE,"\n",sep="") |
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