fixed conflicts

1 files changed, 149 insertions, 0 deletions

diff --git a/training/dtrain/parallelize.rb b/training/dtrain/parallelize.rb
new file mode 100755
index 00000000..e661416e
--- /dev/null
+++ b/training/dtrain/parallelize.rb
@@ -0,0 +1,149 @@
+#!/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\"]\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
+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 -cwd -sync y -b y -j y -o work/out.#{shard}.#{epoch} -N dtrain.#{shard}.#{epoch} \""
+        qsub_str_end = "\""
+        local_end = ''
+      else
+        local_end = "&>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`
+