commit 7259c83384540b9d9031e8fe0e01e8152844b060
Author: Garrett Mills <g582m300@ku.edu>
Date:   Tue Apr 2 12:35:37 2019 -0500

    big bang

diff --git a/rmd2html.R b/rmd2html.R
new file mode 100755
index 0000000..f0c647e
--- /dev/null
+++ b/rmd2html.R
@@ -0,0 +1,115 @@
+#!/usr/bin/env Rscript
+# CLI Wrapper for stationery r*2pdf functions
+# Garrett Mills <garrett@glmdev.tech>
+# Modified: 2019 April 2
+
+library(stationery)
+
+options <- commandArgs(trailingOnly = TRUE)
+supported_extensions <- c(".Rmd")
+files <- c()
+base_command <- "rmd2html"
+
+# default arguments here -- e.g. "--engine=Sweave"
+arguments <- c()
+
+# A simple function for level-based debug messages
+debug_level = 0
+debug <- function(output, level=1) {
+	if ( debug_level >= level ){
+		cat("DEBUG: ")
+		print(output)
+	}
+}
+
+# Iterate over the input arguments and sort them
+# arguments that don't begin with a '--' are considered file names
+# arguments that DO are considered arguments to be passed to base_command
+for ( option in options ){
+	if ( startsWith(option, "--") ){
+		arguments <- c(arguments, option)
+	} else {
+		files <- c(files, option)
+	}
+}
+
+debug("Input files: ")
+debug(files)
+
+debug("Input arguments: ")
+debug(arguments)
+
+# display the usage information if requested
+if ( "--help" %in% arguments ){
+	print(help(base_command, help_type="html"))
+	cat("Usage information requested. No files were modified.")
+	
+	# This is required to give the browser time to load the page before we exit. I know, I know.
+	Sys.sleep(10)
+} else {
+
+	# if no input files are specified, prompt the user
+	if ( is.null(files) ){
+		cat("No input files specified. Enter the supported files to compile (all): ")
+		in_files <- readLines("stdin", n=1)
+		in_files <- strsplit(in_files, " ")
+
+		debug("Files entered:")
+		debug(in_files)
+
+		if ( in_files[[1]][1] == "all" ){
+			for ( extension in supported_extensions ){
+				files <- c( files, Sys.glob( paste(sep="", "*", extension) ) )
+			}
+		} else {
+			files <- c(in_files)
+		}
+	}
+
+	# compile specified files
+	for ( file in files ){
+		
+		# warn and break if the file doesn't end in the proper extension
+		if ( !any( endsWith(file, supported_extensions) ) ){
+			cat(paste("WARN: Skipping compilation of file with unsupported extension:", file, "\n"))
+		} else {
+
+			arg_string <- ""
+			arg_names <- c()
+
+			# convert the arguments to a parameter string
+			for ( argument in arguments ){
+				argument <- strsplit(argument, "=")
+				if ( !( argument[[1]][1] %in% arg_names ) ){
+					arg_names <- c(arg_names, argument[[1]][1])
+					arg_string <- paste(arg_string, substring(argument[[1]][1], 3), "=\"", argument[[1]][2], "\"", ",", sep="")
+				}
+			}
+
+			# remove the trailing comma
+			arg_string <- substring(arg_string, 1, nchar(arg_string)-1)
+
+			debug("Argument string:")
+			debug(arg_string)
+
+			# form the function call itself
+			function_call <- paste(sep="", base_command, '("', file, '"')
+
+			# if there are arguments to pass, add them
+			if ( arg_string != "" ){
+				function_call <- paste(sep="", function_call, ", ", arg_string)
+			}
+
+			# add the closing parenthesis
+			function_call <- paste(sep="", function_call, ")")
+
+			debug("Function call:")
+			debug(function_call)
+
+			# execute the function call as R code
+			eval(parse(text=function_call))
+		}
+
+	}
+
+}
diff --git a/rmd2pdf.R b/rmd2pdf.R
new file mode 100755
index 0000000..b386269
--- /dev/null
+++ b/rmd2pdf.R
@@ -0,0 +1,115 @@
+#!/usr/bin/env Rscript
+# CLI Wrapper for stationery r*2pdf functions
+# Garrett Mills <garrett@glmdev.tech>
+# Modified: 2019 April 2
+
+library(stationery)
+
+options <- commandArgs(trailingOnly = TRUE)
+supported_extensions <- c(".Rmd")
+files <- c()
+base_command <- "rmd2pdf"
+
+# default arguments here -- e.g. "--engine=Sweave"
+arguments <- c()
+
+# A simple function for level-based debug messages
+debug_level = 0
+debug <- function(output, level=1) {
+	if ( debug_level >= level ){
+		cat("DEBUG: ")
+		print(output)
+	}
+}
+
+# Iterate over the input arguments and sort them
+# arguments that don't begin with a '--' are considered file names
+# arguments that DO are considered arguments to be passed to base_command
+for ( option in options ){
+	if ( startsWith(option, "--") ){
+		arguments <- c(arguments, option)
+	} else {
+		files <- c(files, option)
+	}
+}
+
+debug("Input files: ")
+debug(files)
+
+debug("Input arguments: ")
+debug(arguments)
+
+# display the usage information if requested
+if ( "--help" %in% arguments ){
+	print(help(base_command, help_type="html"))
+	cat("Usage information requested. No files were modified.")
+	
+	# This is required to give the browser time to load the page before we exit. I know, I know.
+	Sys.sleep(10)
+} else {
+
+	# if no input files are specified, prompt the user
+	if ( is.null(files) ){
+		cat("No input files specified. Enter the supported files to compile (all): ")
+		in_files <- readLines("stdin", n=1)
+		in_files <- strsplit(in_files, " ")
+
+		debug("Files entered:")
+		debug(in_files)
+
+		if ( in_files[[1]][1] == "all" ){
+			for ( extension in supported_extensions ){
+				files <- c( files, Sys.glob( paste(sep="", "*", extension) ) )
+			}
+		} else {
+			files <- c(in_files)
+		}
+	}
+
+	# compile specified files
+	for ( file in files ){
+		
+		# warn and break if the file doesn't end in the proper extension
+		if ( !any( endsWith(file, supported_extensions) ) ){
+			cat(paste("WARN: Skipping compilation of file with unsupported extension:", file, "\n"))
+		} else {
+
+			arg_string <- ""
+			arg_names <- c()
+
+			# convert the arguments to a parameter string
+			for ( argument in arguments ){
+				argument <- strsplit(argument, "=")
+				if ( !( argument[[1]][1] %in% arg_names ) ){
+					arg_names <- c(arg_names, argument[[1]][1])
+					arg_string <- paste(arg_string, substring(argument[[1]][1], 3), "=\"", argument[[1]][2], "\"", ",", sep="")
+				}
+			}
+
+			# remove the trailing comma
+			arg_string <- substring(arg_string, 1, nchar(arg_string)-1)
+
+			debug("Argument string:")
+			debug(arg_string)
+
+			# form the function call itself
+			function_call <- paste(sep="", base_command, '("', file, '"')
+
+			# if there are arguments to pass, add them
+			if ( arg_string != "" ){
+				function_call <- paste(sep="", function_call, ", ", arg_string)
+			}
+
+			# add the closing parenthesis
+			function_call <- paste(sep="", function_call, ")")
+
+			debug("Function call:")
+			debug(function_call)
+
+			# execute the function call as R code
+			eval(parse(text=function_call))
+		}
+
+	}
+
+}
\ No newline at end of file
diff --git a/rnw2pdf-knitr.R b/rnw2pdf-knitr.R
new file mode 100755
index 0000000..0428d76
--- /dev/null
+++ b/rnw2pdf-knitr.R
@@ -0,0 +1,115 @@
+#!/usr/bin/env Rscript
+# CLI Wrapper for stationery r*2pdf functions
+# Garrett Mills <garrett@glmdev.tech>
+# Modified: 2019 April 2
+
+library(stationery)
+
+options <- commandArgs(trailingOnly = TRUE)
+supported_extensions <- c(".Rnw", ".lyx")
+files <- c()
+base_command <- "rnw2pdf"
+
+# default arguments here -- e.g. "--engine=Sweave"
+arguments <- c("--engine=knitr")
+
+# A simple function for level-based debug messages
+debug_level = 0
+debug <- function(output, level=1) {
+	if ( debug_level >= level ){
+		cat("DEBUG: ")
+		print(output)
+	}
+}
+
+# Iterate over the input arguments and sort them
+# arguments that don't begin with a '--' are considered file names
+# arguments that DO are considered arguments to be passed to base_command
+for ( option in options ){
+	if ( startsWith(option, "--") ){
+		arguments <- c(arguments, option)
+	} else {
+		files <- c(files, option)
+	}
+}
+
+debug("Input files: ")
+debug(files)
+
+debug("Input arguments: ")
+debug(arguments)
+
+# display the usage information if requested
+if ( "--help" %in% arguments ){
+	print(help(base_command, help_type="html"))
+	cat("Usage information requested. No files were modified.")
+	
+	# This is required to give the browser time to load the page before we exit. I know, I know.
+	Sys.sleep(10)
+} else {
+
+	# if no input files are specified, prompt the user
+	if ( is.null(files) ){
+		cat("No input files specified. Enter the supported files to compile (all): ")
+		in_files <- readLines("stdin", n=1)
+		in_files <- strsplit(in_files, " ")
+
+		debug("Files entered:")
+		debug(in_files)
+
+		if ( in_files[[1]][1] == "all" ){
+			for ( extension in supported_extensions ){
+				files <- c( files, Sys.glob( paste(sep="", "*", extension) ) )
+			}
+		} else {
+			files <- c(in_files)
+		}
+	}
+
+	# compile specified files
+	for ( file in files ){
+		
+		# warn and break if the file doesn't end in the proper extension
+		if ( !any( endsWith(file, supported_extensions) ) ){
+			cat(paste("WARN: Skipping compilation of file with unsupported extension:", file, "\n"))
+		} else {
+
+			arg_string <- ""
+			arg_names <- c()
+
+			# convert the arguments to a parameter string
+			for ( argument in arguments ){
+				argument <- strsplit(argument, "=")
+				if ( !( argument[[1]][1] %in% arg_names ) ){
+					arg_names <- c(arg_names, argument[[1]][1])
+					arg_string <- paste(arg_string, substring(argument[[1]][1], 3), "=\"", argument[[1]][2], "\"", ",", sep="")
+				}
+			}
+
+			# remove the trailing comma
+			arg_string <- substring(arg_string, 1, nchar(arg_string)-1)
+
+			debug("Argument string:")
+			debug(arg_string)
+
+			# form the function call itself
+			function_call <- paste(sep="", base_command, '("', file, '"')
+
+			# if there are arguments to pass, add them
+			if ( arg_string != "" ){
+				function_call <- paste(sep="", function_call, ", ", arg_string)
+			}
+
+			# add the closing parenthesis
+			function_call <- paste(sep="", function_call, ")")
+
+			debug("Function call:")
+			debug(function_call)
+
+			# execute the function call as R code
+			eval(parse(text=function_call))
+		}
+
+	}
+
+}
diff --git a/rnw2pdf-sweave.R b/rnw2pdf-sweave.R
new file mode 100755
index 0000000..f9c65ea
--- /dev/null
+++ b/rnw2pdf-sweave.R
@@ -0,0 +1,115 @@
+#!/usr/bin/env Rscript
+# CLI Wrapper for stationery r*2pdf functions
+# Garrett Mills <garrett@glmdev.tech>
+# Modified: 2019 April 2
+
+library(stationery)
+
+options <- commandArgs(trailingOnly = TRUE)
+supported_extensions <- c(".Rnw", ".lyx")
+files <- c()
+base_command <- "rnw2pdf"
+
+# default arguments here -- e.g. "--engine=Sweave"
+arguments <- c("--engine=Sweave")
+
+# A simple function for level-based debug messages
+debug_level = 0
+debug <- function(output, level=1) {
+	if ( debug_level >= level ){
+		cat("DEBUG: ")
+		print(output)
+	}
+}
+
+# Iterate over the input arguments and sort them
+# arguments that don't begin with a '--' are considered file names
+# arguments that DO are considered arguments to be passed to base_command
+for ( option in options ){
+	if ( startsWith(option, "--") ){
+		arguments <- c(arguments, option)
+	} else {
+		files <- c(files, option)
+	}
+}
+
+debug("Input files: ")
+debug(files)
+
+debug("Input arguments: ")
+debug(arguments)
+
+# display the usage information if requested
+if ( "--help" %in% arguments ){
+	print(help(base_command, help_type="html"))
+	cat("Usage information requested. No files were modified.")
+	
+	# This is required to give the browser time to load the page before we exit. I know, I know.
+	Sys.sleep(10)
+} else {
+
+	# if no input files are specified, prompt the user
+	if ( is.null(files) ){
+		cat("No input files specified. Enter the supported files to compile (all): ")
+		in_files <- readLines("stdin", n=1)
+		in_files <- strsplit(in_files, " ")
+
+		debug("Files entered:")
+		debug(in_files)
+
+		if ( in_files[[1]][1] == "all" ){
+			for ( extension in supported_extensions ){
+				files <- c( files, Sys.glob( paste(sep="", "*", extension) ) )
+			}
+		} else {
+			files <- c(in_files)
+		}
+	}
+
+	# compile specified files
+	for ( file in files ){
+		
+		# warn and break if the file doesn't end in the proper extension
+		if ( !any( endsWith(file, supported_extensions) ) ){
+			cat(paste("WARN: Skipping compilation of file with unsupported extension:", file, "\n"))
+		} else {
+
+			arg_string <- ""
+			arg_names <- c()
+
+			# convert the arguments to a parameter string
+			for ( argument in arguments ){
+				argument <- strsplit(argument, "=")
+				if ( !( argument[[1]][1] %in% arg_names ) ){
+					arg_names <- c(arg_names, argument[[1]][1])
+					arg_string <- paste(arg_string, substring(argument[[1]][1], 3), "=\"", argument[[1]][2], "\"", ",", sep="")
+				}
+			}
+
+			# remove the trailing comma
+			arg_string <- substring(arg_string, 1, nchar(arg_string)-1)
+
+			debug("Argument string:")
+			debug(arg_string)
+
+			# form the function call itself
+			function_call <- paste(sep="", base_command, '("', file, '"')
+
+			# if there are arguments to pass, add them
+			if ( arg_string != "" ){
+				function_call <- paste(sep="", function_call, ", ", arg_string)
+			}
+
+			# add the closing parenthesis
+			function_call <- paste(sep="", function_call, ")")
+
+			debug("Function call:")
+			debug(function_call)
+
+			# execute the function call as R code
+			eval(parse(text=function_call))
+		}
+
+	}
+
+}
\ No newline at end of file