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#!/usr/bin/env ruby
require 'trollop'
def usage
STDERR.write "Usage: "
STDERR.write "ruby parallelize.rb -c <dtrain.ini> [-e <epochs=10>] [--randomize/-z] [--reshard/-y] -s <#shards|0> [-p <at once=9999>] -i <input> -r <refs> [--qsub/-q] [--dtrain_binary <path to dtrain binary>] [-l \"l2 select_k 100000\"] [--extra_qsub \"-l virtual_free=24G\"]\n"
exit 1
end
opts = Trollop::options do
opt :config, "dtrain config file", :type => :string
opt :epochs, "number of epochs", :type => :int, :default => 10
opt :lplp_args, "arguments for lplp.rb", :type => :string, :default => "l2 select_k 100000"
opt :randomize, "randomize shards before each epoch", :type => :bool, :short => '-z', :default => false
opt :reshard, "reshard after each epoch", :type => :bool, :short => '-y', :default => false
opt :shards, "number of shards", :type => :int
opt :processes_at_once, "have this number (max) running at the same time", :type => :int, :default => 9999
opt :input, "input", :type => :string
opt :references, "references", :type => :string
opt :qsub, "use qsub", :type => :bool, :default => false
opt :dtrain_binary, "path to dtrain binary", :type => :string
opt :extra_qsub, "extra qsub args", :type => :string, :default => ""
end
usage if not opts[:config]&&opts[:shards]&&opts[:input]&&opts[:references]
dtrain_dir = File.expand_path File.dirname(__FILE__)
if not opts[:dtrain_binary]
dtrain_bin = "#{dtrain_dir}/dtrain"
else
dtrain_bin = opts[:dtrain_binary]
end
ruby = '/usr/bin/ruby'
lplp_rb = "#{dtrain_dir}/lplp.rb"
lplp_args = opts[:lplp_args]
cat = '/bin/cat'
ini = opts[:config]
epochs = opts[:epochs]
rand = opts[:randomize]
reshard = opts[:reshard]
predefined_shards = false
if opts[:shards] == 0
predefined_shards = true
num_shards = 0
else
num_shards = opts[:shards]
end
input = opts[:input]
refs = opts[:references]
use_qsub = opts[:qsub]
shards_at_once = opts[:processes_at_once]
`mkdir work`
def make_shards(input, refs, num_shards, epoch, rand)
lc = `wc -l #{input}`.split.first.to_i
index = (0..lc-1).to_a
index.reverse!
index.shuffle! if rand
shard_sz = lc / num_shards
leftover = lc % num_shards
in_f = File.new input, 'r'
in_lines = in_f.readlines
refs_f = File.new refs, 'r'
refs_lines = refs_f.readlines
shard_in_files = []
shard_refs_files = []
in_fns = []
refs_fns = []
0.upto(num_shards-1) { |shard|
in_fn = "work/shard.#{shard}.#{epoch}.in"
shard_in = File.new in_fn, 'w+'
in_fns << in_fn
refs_fn = "work/shard.#{shard}.#{epoch}.refs"
shard_refs = File.new refs_fn, 'w+'
refs_fns << refs_fn
0.upto(shard_sz-1) { |i|
j = index.pop
shard_in.write in_lines[j]
shard_refs.write refs_lines[j]
}
shard_in_files << shard_in
shard_refs_files << shard_refs
}
while leftover > 0
j = index.pop
shard_in_files[-1].write in_lines[j]
shard_refs_files[-1].write refs_lines[j]
leftover -= 1
end
(shard_in_files + shard_refs_files).each do |f| f.close end
in_f.close
refs_f.close
return [in_fns, refs_fns]
end
input_files = []
refs_files = []
if predefined_shards
input_files = File.new(input).readlines.map {|i| i.strip }
refs_files = File.new(refs).readlines.map {|i| i.strip }
num_shards = input_files.size
else
input_files, refs_files = make_shards input, refs, num_shards, 0, rand
end
0.upto(epochs-1) { |epoch|
puts "epoch #{epoch+1}"
pids = []
input_weights = ''
if epoch > 0 then input_weights = "--input_weights work/weights.#{epoch-1}" end
weights_files = []
shard = 0
remaining_shards = num_shards
while remaining_shards > 0
shards_at_once.times {
break if remaining_shards==0
qsub_str_start = qsub_str_end = ''
local_end = ''
if use_qsub
qsub_str_start = "qsub #{opts[:extra_qsub]} -cwd -sync y -b y -j y -o work/out.#{shard}.#{epoch} -N dtrain.#{shard}.#{epoch} \""
qsub_str_end = "\""
local_end = ''
else
local_end = "2>work/out.#{shard}.#{epoch}"
end
pids << Kernel.fork {
`#{qsub_str_start}#{dtrain_bin} -c #{ini}\
--input #{input_files[shard]}\
--refs #{refs_files[shard]} #{input_weights}\
--output work/weights.#{shard}.#{epoch}#{qsub_str_end} #{local_end}`
}
weights_files << "work/weights.#{shard}.#{epoch}"
shard += 1
remaining_shards -= 1
}
pids.each { |pid| Process.wait(pid) }
pids.clear
end
`#{cat} work/weights.*.#{epoch} > work/weights_cat`
`#{ruby} #{lplp_rb} #{lplp_args} #{num_shards} < work/weights_cat > work/weights.#{epoch}`
if rand and reshard and epoch+1!=epochs
input_files, refs_files = make_shards input, refs, num_shards, epoch+1, rand
end
}
`rm work/weights_cat`
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