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#!/usr/bin/env ruby
require 'ostruct'
require 'optparse'
require "scripts/evalseedhash.rb"
def usage()
STDERR.puts "Usage: #{$0} <indexname> <seedlength> <minlength> [gencall|read|run]"
exit 1
end
def resultfile_gen(tag,seedlength,minlength,minidentity,extra)
return "RESULTS/result-" +
[tag,seedlength,minlength,minidentity,extra].join("-") + ".matches"
end
def cmpdifference(d1,d2)
if d1.perc_both < d2.perc_both
return 1
end
if d1.perc_both > d2.perc_both
return -1
end
if d1.perc_only_greedy < d2.perc_only_greedy
return 1
end
if d1.perc_only_greedy > d2.perc_only_greedy
return -1
end
return 0
end
if ARGV.length != 4
usage()
end
indexname = ARGV[0]
seedlength = ARGV[1].to_i
minlength = ARGV[2].to_i
gencall = false
runrepfind = false
if ARGV[3] == "gencall"
gencall = true
elsif ARGV[3] == "run"
runrepfind = true
elsif not ARGV[3] == "read"
usage()
end
indexname = preprocess_index(indexname)
maxalilendiff = 30
history = 60
silent = false
taglist = ["greedy","xdrop"]
Inputparams = Struct.new("Inputparams",:minidentity,:permathistory,:xdropbelow)
if gencall
puts "\#!/bin/sh"
end
seedhash1 = Hash.new()
seedhash2 = Hash.new()
readnum = 0
maxerrperc = 15
maxxdropbelow = 8
1.upto(maxerrperc).each do |errperc|
minidentity = 100 - errperc
commonoptions = ["-minid #{minidentity}","-l #{minlength}"]
[50,55].each do |permathistory|
resultfile = resultfile_gen(taglist[0],seedlength,minlength,minidentity,
permathistory)
if gencall or runrepfind
h1 = makeseedhash(indexname,seedlength,"extend#{taglist[0]}",
commonoptions +
["-maxalilendiff #{maxalilendiff}",
"-history #{history}",
"-percmathistory #{permathistory}"],gencall)
else
puts "#{readnum}: read file #{resultfile}"
readnum += 1
h1 = readmatchesfromfile(resultfile)
end
if gencall
puts "#{h1} > #{resultfile}"
else
key = Inputparams.new(minidentity,permathistory,nil)
STDERR.puts "# seedhash1: size = #{h2.length}"
seedhash1[key] = h1
end
end
1.upto(maxxdropbelow).each do |xdropbelow|
resultfile = resultfile_gen(taglist[1],seedlength,minlength,minidentity,
xdropbelow)
if gencall or runrepfind
h2 = makeseedhash(indexname,seedlength,"extend#{taglist[1]}",
commonoptions + ["-xdropbelow #{xdropbelow}"],gencall)
else
puts "#{readnum}: read file #{resultfile}"
readnum += 1
h2 = readmatchesfromfile(resultfile)
end
if gencall
puts "#{h2} > #{resultfile}"
else
key = Inputparams.new(minidentity,nil,xdropbelow)
STDERR.puts "# seedhash2: size = #{h2.length}"
seedhash2[key] = h2
end
end
end
if gencall
exit(0)
end
Differenceresult = Struct.new("Differenceresult",:inputparam,:sum_size,
:perc_both,:perc_only_greedy,:perc_only_xdrop)
differencelist = Array.new()
seedhash1.each_pair do |k1,h1|
seqnumpair_set1 = seedhash2seqnum_pairs(h1)
seedhash2.each_pair do |k2,h2|
if k1.minidentity == k2.minidentity
seqnumpair_set2 = seedhash2seqnum_pairs(h2)
result = calcdifference(seqnumpair_set1,seqnumpair_set2)
ip = Inputparams.new(k1.minidentity,k1.permathistory,k2.xdropbelow)
differencelist.push(Differenceresult.new(ip,result[0],result[1],result[2],
result[3]))
end
end
end
differencelist.sort {|x,y| cmpdifference(x,y)}.each do |df|
puts [df.inputparam.minidentity,df.inputparam.permathistory,
df.inputparam.xdropbelow,df.sum_size,
df.perc_both,df.perc_only_greedy,df.perc_only_xdrop].join("\t")
end
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