Class: Prenus::Output::Circosout

Inherits:
Baseout
  • Object
show all
Defined in:
lib/output/circosout.rb

Instance Method Summary collapse

Constructor Details

#initialize(events, hosts, options) ⇒ Object

Initialises the Circosout class into an object

Examples:

object = Prenus::Output::Circosout(events,hosts,options)

The output of this is then to be used with Circos (http://circos.ca/)
 GD was a REAL bitch to get going on OS X 10.7

 From within the circos-tools/tools/tableviewer/ folder
 i.e. cat prenus.circus | bin/parse-table -conf samples/parse-table-01.conf | bin/make-conf -dir data

 From within the same folder, but going back to the circos perl script
 i.e. ../../circos-folder/bin/circos -conf etc/circos.conf -outputfile output.png
 This should drop the file into img/ folder. 

 The above is a bit fickle, so the etc/circos.conf and the /data file should all be within the tableviewer/ folder, and just call back out to the circos perl script


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# File 'lib/output/circosout.rb', line 32

def initialize(events,hosts,options)
	super
end

Instance Method Details

#run ⇒ Object

Run the Circosout class - this will generate a simple table file, which can be used by circos’ tableviewer tool

Examples:

object.run

Returns:

  • Returns nothing



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# File 'lib/output/circosout.rb', line 45

def run
	# File.open(@options[:outputdir] + "/prenus.circos", 'w') do |f|

	included_events = []

	line = "data\t"
	@events.each_with_index do |(k,v),index|
		unless @options[:filter].nil?
			next unless @options[:filter].include?(k.to_s)
		end
		# The graphs were getting too mental, so I hard coded to ignore everything except High and Critical findings
		next if v[:severity].to_i < @options[:severity].to_i

		included_events << k
		line += k.to_s
		line += "\t" unless index == @events.count - 1
	end

	#f.puts line
	@oFile.syswrite line + "\n"

	@hosts.each_with_index do |(k,v),index|
		line = @hosts[k][:ip].to_s + "\t"
		atleastone = false

		included_events.each_with_index do |ev,index2|
			got_value = false
			@events.each do |evkey,evval|
				if evkey == ev
					evval[:ports].each do |p,hs|
						next if got_value == true
						if hs[:hosts].has_key?(k)
							line += "1"
							line += "\t" unless index2 == included_events.count - 1
							got_value = true
							atleastone = true
						else
							line += "0"
							line += "\t" unless index2 == included_events.count - 1
							got_value = true
						end
					end
				end
			end
		end

		#f.puts line unless atleastone == false
		@oFile.syswrite line + "\n" unless atleastone == false
	end

	# end

end