major restructure of the training code

1 files changed, 0 insertions, 555 deletions

diff --git a/pro/pro.pl b/pro/pro.pl
deleted file mode 100755
index 891b7e4c..00000000
--- a/pro/pro.pl
+++ /dev/null
@@ -1,555 +0,0 @@
-#!/usr/bin/env perl
-use strict;
-use File::Basename qw(basename);
-my @ORIG_ARGV=@ARGV;
-use Cwd qw(getcwd);
-my $SCRIPT_DIR; BEGIN { use Cwd qw/ abs_path /; use File::Basename; $SCRIPT_DIR = dirname(abs_path($0)); push @INC, $SCRIPT_DIR, "$SCRIPT_DIR/../environment"; }
-
-# Skip local config (used for distributing jobs) if we're running in local-only mode
-use LocalConfig;
-use Getopt::Long;
-use IPC::Open2;
-use POSIX ":sys_wait_h";
-my $QSUB_CMD = qsub_args(mert_memory());
-my $default_jobs = env_default_jobs();
-
-my $VEST_DIR="$SCRIPT_DIR/../dpmert";
-require "$VEST_DIR/libcall.pl";
-
-# Default settings
-my $srcFile;
-my $refFiles;
-my $bin_dir = $SCRIPT_DIR;
-die "Bin directory $bin_dir missing/inaccessible" unless -d $bin_dir;
-my $FAST_SCORE="$bin_dir/../mteval/fast_score";
-die "Can't execute $FAST_SCORE" unless -x $FAST_SCORE;
-my $MAPINPUT = "$bin_dir/mr_pro_generate_mapper_input.pl";
-my $MAPPER = "$bin_dir/mr_pro_map";
-my $REDUCER = "$bin_dir/mr_pro_reduce";
-my $parallelize = "$VEST_DIR/parallelize.pl";
-my $libcall = "$VEST_DIR/libcall.pl";
-my $sentserver = "$VEST_DIR/sentserver";
-my $sentclient = "$VEST_DIR/sentclient";
-my $LocalConfig = "$SCRIPT_DIR/../environment/LocalConfig.pm";
-
-my $SCORER = $FAST_SCORE;
-die "Can't find $MAPPER" unless -x $MAPPER;
-my $cdec = "$bin_dir/../decoder/cdec";
-die "Can't find decoder in $cdec" unless -x $cdec;
-die "Can't find $parallelize" unless -x $parallelize;
-die "Can't find $libcall" unless -e $libcall;
-my $decoder = $cdec;
-my $lines_per_mapper = 30;
-my $iteration = 1;
-my $best_weights;
-my $psi = 1;
-my $default_max_iter = 30;
-my $max_iterations = $default_max_iter;
-my $jobs = $default_jobs;   # number of decode nodes
-my $pmem = "4g";
-my $disable_clean = 0;
-my %seen_weights;
-my $help = 0;
-my $epsilon = 0.0001;
-my $dryrun = 0;
-my $last_score = -10000000;
-my $metric = "ibm_bleu";
-my $dir;
-my $iniFile;
-my $weights;
-my $use_make = 1;  # use make to parallelize
-my $useqsub = 0;
-my $initial_weights;
-my $pass_suffix = '';
-my $devset;
-
-# regularization strength
-my $reg = 500;
-my $reg_previous = 5000;
-
-# Process command-line options
-if (GetOptions(
-	"config=s" => \$iniFile,
-	"weights=s" => \$initial_weights,
-        "devset=s" => \$devset,
-	"jobs=i" => \$jobs,
-	"metric=s" => \$metric,
-	"pass-suffix=s" => \$pass_suffix,
-        "qsub" => \$useqsub,
-	"help" => \$help,
-	"reg=f" => \$reg,
-	"reg-previous=f" => \$reg_previous,
-	"output-dir=s" => \$dir,
-) == 0 || @ARGV!=0 || $help) {
-	print_help();
-	exit;
-}
-
-if ($useqsub) {
-  $use_make = 0;
-  die "LocalEnvironment.pm does not have qsub configuration for this host. Cannot run with --qsub!\n" unless has_qsub();
-}
-
-my @missing_args = ();
-if (!defined $iniFile) { push @missing_args, "--config"; }
-if (!defined $devset) { push @missing_args, "--devset"; }
-if (!defined $initial_weights) { push @missing_args, "--weights"; }
-die "Please specify missing arguments: " . join (', ', @missing_args) . "\n" if (@missing_args);
-
-if ($metric =~ /^(combi|ter)$/i) {
-  $lines_per_mapper = 5;
-}
-
-my $host =check_output("hostname"); chomp $host;
-my $bleu;
-my $interval_count = 0;
-my $logfile;
-my $projected_score;
-
-# used in sorting scores
-my $DIR_FLAG = '-r';
-if ($metric =~ /^ter$|^aer$/i) {
-  $DIR_FLAG = '';
-}
-
-unless ($dir){
-	$dir = 'pro';
-}
-unless ($dir =~ /^\//){  # convert relative path to absolute path
-	my $basedir = check_output("pwd");
-	chomp $basedir;
-	$dir = "$basedir/$dir";
-}
-
-# Initializations and helper functions
-srand;
-
-my @childpids = ();
-my @cleanupcmds = ();
-
-sub cleanup {
-	print STDERR "Cleanup...\n";
-	for my $pid (@childpids){ unchecked_call("kill $pid"); }
-	for my $cmd (@cleanupcmds){ unchecked_call("$cmd"); }
-	exit 1;
-};
-# Always call cleanup, no matter how we exit
-*CORE::GLOBAL::exit = 
-    sub{ cleanup(); }; 
-$SIG{INT} = "cleanup";
-$SIG{TERM} = "cleanup";
-$SIG{HUP} = "cleanup";
-
-my $decoderBase = check_output("basename $decoder"); chomp $decoderBase;
-my $newIniFile = "$dir/$decoderBase.ini";
-my $inputFileName = "$dir/input";
-my $user = $ENV{"USER"};
-
-
-# process ini file
--e $iniFile || die "Error: could not open $iniFile for reading\n";
-open(INI, $iniFile);
-
-if (-e $dir) {
-	die "ERROR: working dir $dir already exists\n\n";
-} else {
-	mkdir "$dir" or die "Can't mkdir $dir: $!";
-	mkdir "$dir/hgs" or die;
-	mkdir "$dir/scripts" or die;
-	print STDERR <<EOT;
-	DECODER:          $decoder
-	INI FILE:         $iniFile
-	WORKING DIR:      $dir
-	DEVSET:           $devset
-	EVAL METRIC:      $metric
-	MAX ITERATIONS:   $max_iterations
-	PARALLEL JOBS:    $jobs
-	HEAD NODE:        $host
-	PMEM (DECODING):  $pmem
-	INITIAL WEIGHTS:  $initial_weights
-EOT
-}
-
-# Generate initial files and values
-check_call("cp $iniFile $newIniFile");
-check_call("cp $initial_weights $dir/weights.0");
-$iniFile = $newIniFile;
-
-my $refs = "$dir/dev.refs";
-split_devset($devset, "$dir/dev.input.raw", $refs);
-my $newsrc = "$dir/dev.input";
-enseg("$dir/dev.input.raw", $newsrc);
-$srcFile = $newsrc;
-my $devSize = 0;
-open F, "<$srcFile" or die "Can't read $srcFile: $!";
-while(<F>) { $devSize++; }
-close F;
-
-unless($best_weights){ $best_weights = $weights; }
-unless($projected_score){ $projected_score = 0.0; }
-$seen_weights{$weights} = 1;
-
-my $random_seed = int(time / 1000);
-my $lastWeightsFile;
-my $lastPScore = 0;
-# main optimization loop
-my @allweights;
-while (1){
-	print STDERR "\n\nITERATION $iteration\n==========\n";
-
-	if ($iteration > $max_iterations){
-		print STDERR "\nREACHED STOPPING CRITERION: Maximum iterations\n";
-		last;
-	}
-	# iteration-specific files
-	my $runFile="$dir/run.raw.$iteration";
-	my $onebestFile="$dir/1best.$iteration";
-	my $logdir="$dir/logs.$iteration";
-	my $decoderLog="$logdir/decoder.sentserver.log.$iteration";
-	my $scorerLog="$logdir/scorer.log.$iteration";
-	check_call("mkdir -p $logdir");
-
-
-	#decode
-	print STDERR "RUNNING DECODER AT ";
-	print STDERR unchecked_output("date");
-	my $im1 = $iteration - 1;
-	my $weightsFile="$dir/weights.$im1";
-        push @allweights, "-w $dir/weights.$im1";
-        `rm -f $dir/hgs/*.gz`;
-	my $decoder_cmd = "$decoder -c $iniFile --weights$pass_suffix $weightsFile -O $dir/hgs";
-	my $pcmd;
-	if ($use_make) {
-		$pcmd = "cat $srcFile | $parallelize --use-fork -p $pmem -e $logdir -j $jobs --";
-	} else {
-		$pcmd = "cat $srcFile | $parallelize -p $pmem -e $logdir -j $jobs --";
-	}
-	my $cmd = "$pcmd $decoder_cmd 2> $decoderLog 1> $runFile";
-	print STDERR "COMMAND:\n$cmd\n";
-	check_bash_call($cmd);
-        my $num_hgs;
-        my $num_topbest;
-        my $retries = 0;
-	while($retries < 5) {
-	    $num_hgs = check_output("ls $dir/hgs/*.gz | wc -l");
-	    $num_topbest = check_output("wc -l < $runFile");
-	    print STDERR "NUMBER OF HGs: $num_hgs\n";
-	    print STDERR "NUMBER OF TOP-BEST HYPs: $num_topbest\n";
-	    if($devSize == $num_hgs && $devSize == $num_topbest) {
-		last;
-	    } else {
-		print STDERR "Incorrect number of hypergraphs or topbest. Waiting for distributed filesystem and retrying...\n";
-		sleep(3);
-	    }
-	    $retries++;
-	}
-	die "Dev set contains $devSize sentences, but we don't have topbest and hypergraphs for all these! Decoder failure? Check $decoderLog\n" if ($devSize != $num_hgs || $devSize != $num_topbest);
-	my $dec_score = check_output("cat $runFile | $SCORER -r $refs -m $metric");
-	chomp $dec_score;
-	print STDERR "DECODER SCORE: $dec_score\n";
-
-	# save space
-	check_call("gzip -f $runFile");
-	check_call("gzip -f $decoderLog");
-
-	# run optimizer
-	print STDERR "RUNNING OPTIMIZER AT ";
-	print STDERR unchecked_output("date");
-	print STDERR " - GENERATE TRAINING EXEMPLARS\n";
-	my $mergeLog="$logdir/prune-merge.log.$iteration";
-
-	my $score = 0;
-	my $icc = 0;
-	my $inweights="$dir/weights.$im1";
-	$cmd="$MAPINPUT $dir/hgs > $dir/agenda.$im1";
-	print STDERR "COMMAND:\n$cmd\n";
-	check_call($cmd);
-	check_call("mkdir -p $dir/splag.$im1");
-	$cmd="split -a 3 -l $lines_per_mapper $dir/agenda.$im1 $dir/splag.$im1/mapinput.";
-	print STDERR "COMMAND:\n$cmd\n";
-	check_call($cmd);
-	opendir(DIR, "$dir/splag.$im1") or die "Can't open directory: $!";
-	my @shards = grep { /^mapinput\./ } readdir(DIR);
-	closedir DIR;
-	die "No shards!" unless scalar @shards > 0;
-	my $joblist = "";
-	my $nmappers = 0;
-	@cleanupcmds = ();
-	my %o2i = ();
-	my $first_shard = 1;
-	my $mkfile; # only used with makefiles
-	my $mkfilename;
-	if ($use_make) {
-		$mkfilename = "$dir/splag.$im1/domap.mk";
-		open $mkfile, ">$mkfilename" or die "Couldn't write $mkfilename: $!";
-		print $mkfile "all: $dir/splag.$im1/map.done\n\n";
-	}
-	my @mkouts = ();  # only used with makefiles
-	my @mapoutputs = ();
-	for my $shard (@shards) {
-		my $mapoutput = $shard;
-		my $client_name = $shard;
-		$client_name =~ s/mapinput.//;
-		$client_name = "pro.$client_name";
-		$mapoutput =~ s/mapinput/mapoutput/;
-		push @mapoutputs, "$dir/splag.$im1/$mapoutput";
-		$o2i{"$dir/splag.$im1/$mapoutput"} = "$dir/splag.$im1/$shard";
-		my $script = "$MAPPER -s $srcFile -m $metric -r $refs -w $inweights -K $dir/kbest < $dir/splag.$im1/$shard > $dir/splag.$im1/$mapoutput";
-		if ($use_make) {
-			my $script_file = "$dir/scripts/map.$shard";
-			open F, ">$script_file" or die "Can't write $script_file: $!";
-			print F "#!/bin/bash\n";
-			print F "$script\n";
-			close F;
-			my $output = "$dir/splag.$im1/$mapoutput";
-			push @mkouts, $output;
-			chmod(0755, $script_file) or die "Can't chmod $script_file: $!";
-			if ($first_shard) { print STDERR "$script\n"; $first_shard=0; }
-			print $mkfile "$output: $dir/splag.$im1/$shard\n\t$script_file\n\n";
-		} else {
-			my $script_file = "$dir/scripts/map.$shard";
-			open F, ">$script_file" or die "Can't write $script_file: $!";
-			print F "$script\n";
-			close F;
-			if ($first_shard) { print STDERR "$script\n"; $first_shard=0; }
-
-			$nmappers++;
-			my $qcmd = "$QSUB_CMD -N $client_name -o /dev/null -e $logdir/$client_name.ER $script_file";
-			my $jobid = check_output("$qcmd");
-			chomp $jobid;
-			$jobid =~ s/^(\d+)(.*?)$/\1/g;
-			$jobid =~ s/^Your job (\d+) .*$/\1/;
-		 	push(@cleanupcmds, "qdel $jobid 2> /dev/null");
-			print STDERR " $jobid";
-			if ($joblist == "") { $joblist = $jobid; }
-			else {$joblist = $joblist . "\|" . $jobid; }
-		}
-	}
-	my @dev_outs = ();
-	my @devtest_outs = ();
-	@dev_outs = @mapoutputs;
-	if ($use_make) {
-		print $mkfile "$dir/splag.$im1/map.done: @mkouts\n\ttouch $dir/splag.$im1/map.done\n\n";
-		close $mkfile;
-		my $mcmd = "make -j $jobs -f $mkfilename";
-		print STDERR "\nExecuting: $mcmd\n";
-		check_call($mcmd);
-	} else {
-		print STDERR "\nLaunched $nmappers mappers.\n";
-      		sleep 8;
-		print STDERR "Waiting for mappers to complete...\n";
-		while ($nmappers > 0) {
-		  sleep 5;
-		  my @livejobs = grep(/$joblist/, split(/\n/, unchecked_output("qstat | grep -v ' C '")));
-		  $nmappers = scalar @livejobs;
-		}
-		print STDERR "All mappers complete.\n";
-	}
-	my $tol = 0;
-	my $til = 0;
-	my $dev_test_file = "$dir/splag.$im1/devtest.gz";
-	print STDERR "\nRUNNING CLASSIFIER (REDUCER)\n";
-	print STDERR unchecked_output("date");
-	$cmd="cat @dev_outs | $REDUCER -w $dir/weights.$im1 -C $reg -y $reg_previous --interpolate_with_weights $psi";
-        $cmd .= " > $dir/weights.$iteration";
-	print STDERR "COMMAND:\n$cmd\n";
-	check_bash_call($cmd);
-	$lastWeightsFile = "$dir/weights.$iteration";
-	$lastPScore = $score;
-	$iteration++;
-	print STDERR "\n==========\n";
-}
-
-
-check_call("cp $lastWeightsFile $dir/weights.final");
-print STDERR "\nFINAL WEIGHTS: $dir/weights.final\n(Use -w <this file> with the decoder)\n\n";
-print STDOUT "$dir/weights.final\n";
-
-exit 0;
-
-sub read_weights_file {
-  my ($file) = @_;
-  open F, "<$file" or die "Couldn't read $file: $!";
-  my @r = ();
-  my $pm = -1;
-  while(<F>) {
-    next if /^#/;
-    next if /^\s*$/;
-    chomp;
-    if (/^(.+)\s+(.+)$/) {
-      my $m = $1;
-      my $w = $2;
-      die "Weights out of order: $m <= $pm" unless $m > $pm;
-      push @r, $w;
-    } else {
-      warn "Unexpected feature name in weight file: $_";
-    }
-  }
-  close F;
-  return join ' ', @r;
-}
-
-sub enseg {
-	my $src = shift;
-	my $newsrc = shift;
-	open(SRC, $src);
-	open(NEWSRC, ">$newsrc");
-	my $i=0;
-	while (my $line=<SRC>){
-		chomp $line;
-		if ($line =~ /^\s*<seg/i) {
-		    if($line =~ /id="[0-9]+"/) {
-			print NEWSRC "$line\n";
-		    } else {
-			die "When using segments with pre-generated <seg> tags, you must include a zero-based id attribute";
-		    }
-		} else {
-			print NEWSRC "<seg id=\"$i\">$line</seg>\n";
-		}
-		$i++;
-	}
-	close SRC;
-	close NEWSRC;
-	die "Empty dev set!" if ($i == 0);
-}
-
-sub print_help {
-
-	my $executable = basename($0); chomp $executable;
-	print << "Help";
-
-Usage: $executable [options]
-
-	$executable [options]
-		Runs a complete PRO optimization using the ini file specified.
-
-Required:
-
-	--config <cdec.ini>
-		Decoder configuration file.
-
-	--devset <files>
-		Dev set source and reference data.
-
-	--weights <file>
-		Initial weights file (use empty file to start from 0)
-
-General options:
-
-	--help
-		Print this message and exit.
-
-	--max-iterations <M>
-		Maximum number of iterations to run.  If not specified, defaults
-		to $default_max_iter.
-
-	--metric <method>
-		Metric to optimize.
-		Example values: IBM_BLEU, NIST_BLEU, Koehn_BLEU, TER, Combi
-
-	--pass-suffix <S>
-		If the decoder is doing multi-pass decoding, the pass suffix "2",
-		"3", etc., is used to control what iteration of weights is set.
-
-	--workdir <dir>
-		Directory for intermediate and output files.  If not specified, the
-		name is derived from the ini filename.  Assuming that the ini
-		filename begins with the decoder name and ends with ini, the default
-		name of the working directory is inferred from the middle part of
-		the filename.  E.g. an ini file named decoder.foo.ini would have
-		a default working directory name foo.
-
-Regularization options:
-
-	--reg <F>
-		l2 regularization strength [default=500]. The greater this value,
-		the closer to zero the weights will be.
-
-	--reg-previous <F>
-		l2 penalty for moving away from the weights from the previous
-		iteration. [default=5000]. The greater this value, the closer
-		to the previous iteration's weights the next iteration's weights
-		will be.
-
-Job control options:
-
-	--jobs <I>
-		Number of decoder processes to run in parallel. [default=$default_jobs]
-
-	--qsub
-		Use qsub to run jobs in parallel (qsub must be configured in
-		environment/LocalEnvironment.pm)
-
-	--pmem <N>
-		Amount of physical memory requested for parallel decoding jobs
-		(used with qsub requests only)
-
-Deprecated options:
-
-	--interpolate-with-weights <F>
-		[deprecated] At each iteration the resulting weights are
-		interpolated with the weights from the previous iteration, with
-		this factor. [default=1.0, i.e., no effect]
-
-Help
-}
-
-sub convert {
-  my ($str) = @_;
-  my @ps = split /;/, $str;
-  my %dict = ();
-  for my $p (@ps) {
-    my ($k, $v) = split /=/, $p;
-    $dict{$k} = $v;
-  }
-  return %dict;
-}
-
-
-sub cmdline {
-    return join ' ',($0,@ORIG_ARGV);
-}
-
-#buggy: last arg gets quoted sometimes?
-my $is_shell_special=qr{[ \t\n\\><|&;"'`~*?{}$!()]};
-my $shell_escape_in_quote=qr{[\\"\$`!]};
-
-sub escape_shell {
-    my ($arg)=@_;
-    return undef unless defined $arg;
-    if ($arg =~ /$is_shell_special/) {
-        $arg =~ s/($shell_escape_in_quote)/\\$1/g;
-        return "\"$arg\"";
-    }
-    return $arg;
-}
-
-sub escaped_shell_args {
-    return map {local $_=$_;chomp;escape_shell($_)} @_;
-}
-
-sub escaped_shell_args_str {
-    return join ' ',&escaped_shell_args(@_);
-}
-
-sub escaped_cmdline {
-    return "$0 ".&escaped_shell_args_str(@ORIG_ARGV);
-}
-
-sub split_devset {
-  my ($infile, $outsrc, $outref) = @_;
-  open F, "<$infile" or die "Can't read $infile: $!";
-  open S, ">$outsrc" or die "Can't write $outsrc: $!";
-  open R, ">$outref" or die "Can't write $outref: $!";
-  while(<F>) {
-    chomp;
-    my ($src, @refs) = split /\s*\|\|\|\s*/;
-    die "Malformed devset line: $_\n" unless scalar @refs > 0;
-    print S "$src\n";
-    print R join(' ||| ', @refs) . "\n";
-  }
-  close R;
-  close S;
-  close F;
-}
-