#!/bin/bash
  # Copyright 2012  Brno University of Technology (Author: Karel Vesely)
  #           2013  Johns Hopkins University (Author: Daniel Povey)
  # Apache 2.0
  
  # Computes training alignments using DNN
  
  # Begin configuration section.
  nj=4
  cmd=run.pl
  # Begin configuration.
  scale_opts="--transition-scale=1.0 --acoustic-scale=0.1 --self-loop-scale=0.1"
  beam=10
  retry_beam=40
  transform_dir=
  iter=final
  use_gpu=no
  online_ivector_dir=
  feat_type=  # you can set this to force it to use delta features.
  # End configuration options.
  
  echo "$0 $@"  # Print the command line for logging
  
  [ -f path.sh ] && . ./path.sh # source the path.
  . parse_options.sh || exit 1;
  
  if [ $# != 4 ]; then
     echo "Usage: $0 [--transform-dir <transform-dir>] <data-dir> <lang-dir> <src-dir> <align-dir>"
     echo "e.g.: $0 data/train data/lang exp/nnet4 exp/nnet4_ali"
     echo "main options (for others, see top of script file)"
     echo "  --config <config-file>                           # config containing options"
     echo "  --nj <nj>                                        # number of parallel jobs"
     echo "  --cmd (utils/run.pl|utils/queue.pl <queue opts>) # how to run jobs."
     exit 1;
  fi
  
  data=$1
  lang=$2
  srcdir=$3
  dir=$4
  
  oov=`cat $lang/oov.int` || exit 1;
  mkdir -p $dir/log
  echo $nj > $dir/num_jobs
  sdata=$data/split$nj
  [[ -d $sdata && $data/feats.scp -ot $sdata ]] || split_data.sh $data $nj || exit 1;
  
  
  extra_files=
  [ ! -z "$online_ivector_dir" ] && \
    extra_files="$online_ivector_dir/ivector_online.scp $online_ivector_dir/ivector_period"
  for f in $srcdir/tree $srcdir/${iter}.mdl $data/feats.scp $lang/L.fst $extra_files; do
    [ ! -f $f ] && echo "$0: no such file $f" && exit 1;
  done
  
  utils/lang/check_phones_compatible.sh $lang/phones.txt $srcdir/phones.txt || exit 1;
  cp $lang/phones.txt $dir || exit 1;
  
  cp $srcdir/{tree,${iter}.mdl} $dir || exit 1;
  
  
  ## Set up features.  Note: these are different from the normal features
  ## because we have one rspecifier that has the features for the entire
  ## training set, not separate ones for each batch.
  if [ -z "$feat_type" ]; then
    if [ -f $srcdir/final.mat ]; then feat_type=lda; else feat_type=raw; fi
  fi
  echo "$0: feature type is $feat_type"
  
  cmvn_opts=`cat $srcdir/cmvn_opts 2>/dev/null`
  cp $srcdir/cmvn_opts $srcdir/splice_opts $dir 2>/dev/null
  
  case $feat_type in
    raw) feats="ark,s,cs:apply-cmvn $cmvn_opts --utt2spk=ark:$sdata/JOB/utt2spk scp:$sdata/JOB/cmvn.scp scp:$sdata/JOB/feats.scp ark:- |"
     ;;
    lda)
      splice_opts=`cat $srcdir/splice_opts 2>/dev/null`
      cp $srcdir/splice_opts $dir 2>/dev/null
      cp $srcdir/final.mat $dir || exit 1;
      feats="ark,s,cs:apply-cmvn $cmvn_opts --utt2spk=ark:$sdata/JOB/utt2spk scp:$sdata/JOB/cmvn.scp scp:$sdata/JOB/feats.scp ark:- | splice-feats $splice_opts ark:- ark:- | transform-feats $dir/final.mat ark:- ark:- |"
      ;;
    *) echo "$0: invalid feature type $feat_type" && exit 1;
  esac
  
  if [ ! -z "$transform_dir" ]; then
    echo "$0: using transforms from $transform_dir"
    [ ! -s $transform_dir/num_jobs ] && \
      echo "$0: expected $transform_dir/num_jobs to contain the number of jobs." && exit 1;
    nj_orig=$(cat $transform_dir/num_jobs)
  
    if [ $feat_type == "raw" ]; then trans=raw_trans;
    else trans=trans; fi
    if [ $feat_type == "lda" ] && ! cmp $transform_dir/final.mat $srcdir/final.mat; then
      echo "$0: LDA transforms differ between $srcdir and $transform_dir"
      exit 1;
    fi
    if [ ! -f $transform_dir/$trans.1 ]; then
      echo "$0: expected $transform_dir/$trans.1 to exist (--transform-dir option)"
      exit 1;
    fi
    if [ $nj -ne $nj_orig ]; then
      # Copy the transforms into an archive with an index.
      for n in $(seq $nj_orig); do cat $transform_dir/$trans.$n; done | \
         copy-feats ark:- ark,scp:$dir/$trans.ark,$dir/$trans.scp || exit 1;
      feats="$feats transform-feats --utt2spk=ark:$sdata/JOB/utt2spk scp:$dir/$trans.scp ark:- ark:- |"
    else
      # number of jobs matches with alignment dir.
      feats="$feats transform-feats --utt2spk=ark:$sdata/JOB/utt2spk ark:$transform_dir/$trans.JOB ark:- ark:- |"
    fi
  fi
  
  if [ ! -z "$online_ivector_dir" ]; then
    ivector_period=$(cat $online_ivector_dir/ivector_period) || exit 1;
    # note: subsample-feats, with negative n, will repeat each feature -n times.
    feats="$feats paste-feats --length-tolerance=$ivector_period ark:- 'ark,s,cs:utils/filter_scp.pl $sdata/JOB/utt2spk $online_ivector_dir/ivector_online.scp | subsample-feats --n=-$ivector_period scp:- ark:- |' ark:- |"
  fi
  
  echo "$0: aligning data in $data using model from $srcdir, putting alignments in $dir"
  
  tra="ark:utils/sym2int.pl --map-oov $oov -f 2- $lang/words.txt $sdata/JOB/text|";
  
  $cmd JOB=1:$nj $dir/log/align.JOB.log \
    compile-train-graphs --read-disambig-syms=$lang/phones/disambig.int $dir/tree $srcdir/${iter}.mdl  $lang/L.fst "$tra" ark:- \| \
    nnet-align-compiled $scale_opts --use-gpu=$use_gpu --beam=$beam --retry-beam=$retry_beam \
      $srcdir/${iter}.mdl ark:- "$feats" "ark:|gzip -c >$dir/ali.JOB.gz" || exit 1;
  
  steps/diagnostic/analyze_alignments.sh --cmd "$cmd" $lang $dir
  
  echo "$0: done aligning data."