#!/bin/bash
  # Copyright 2012  Johns Hopkins University (Author: Daniel Povey)
  #                 Korbinian Riedhammer
  # Apache 2.0
  
  # Computes training alignments using a model with delta or
  # LDA+MLLT features.
  
  # If you supply the "--use-graphs true" option, it will use the training
  # graphs from the source directory (where the model is).  In this
  # case the number of jobs must match with the source directory.
  
  
  # Begin configuration section.
  nj=4
  cmd=run.pl
  use_graphs=false
  # Begin configuration.
  scale_opts="--transition-scale=1.0 --acoustic-scale=0.1 --self-loop-scale=0.1"
  beam=10
  retry_beam=40
  boost_silence=1.0 # Factor by which to boost silence during alignment.
  # 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 [ $# != 5 ]; then
     echo "usage: steps/tandem/align_si.sh <data1-dir> <data2-dir> <lang-dir> <src-dir> <align-dir>"
     echo "e.g.:  steps/tandem/align_si.sh {mfcc,bottleneck}/data/train data/lang exp/tri1 exp/tri1_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 "  --use-graphs true                                # use graphs in src-dir"
     echo "  --cmd (utils/run.pl|utils/queue.pl <queue opts>) # how to run jobs."
     exit 1;
  fi
  
  data1=$1
  data2=$2
  lang=$3
  srcdir=$4
  dir=$5
  
  oov=`cat $lang/oov.int` || exit 1;
  mkdir -p $dir/log
  echo $nj > $dir/num_jobs
  
  utils/lang/check_phones_compatible.sh $lang/phones.txt $srcdir/phones.txt || exit 1;
  cp $lang/phones.txt $dir || exit 1;
  # Set up the features
  
  sdata1=$data1/split$nj
  sdata2=$data2/split$nj
  [[ -d $sdata1 && $data1/feats.scp -ot $sdata1 ]] || split_data.sh $data1 $nj || exit 1;
  [[ -d $sdata2 && $data2/feats.scp -ot $sdata2 ]] || split_data.sh $data2 $nj || exit 1;
  
  cp $srcdir/{tree,final.mdl} $dir || exit 1;
  cp $srcdir/final.occs $dir;
  
  # Get some info on the feature types
  splice_opts=`cat $srcdir/splice_opts 2>/dev/null` # frame-splicing options.
  normft2=`cat $srcdir/normft2 2>/dev/null` || exit 1;
  
  if [ -f $srcdir/final.mat ]; then feat_type=lda; else feat_type=delta; fi
  
  # for lda-type features, we need to copy both the lda (for baseft) and mllt
  # transformation (for the pasted features)
  case $feat_type in
    delta)
      echo "$0: feature type is $feat_type"
      ;;
    lda)
      echo "$0: feature type is $feat_type"
      cp $srcdir/{lda,final}.mat $dir/ || exit 1;
     ;;
    *) echo "$0: invalid feature type $feat_type" && exit 1;
  esac
  
  # set up feature stream 1;  this are usually spectral features, so we will add
  # deltas or splice them
  feats1="ark,s,cs:apply-cmvn --norm-vars=false --utt2spk=ark:$sdata1/JOB/utt2spk scp:$sdata1/JOB/cmvn.scp scp:$sdata1/JOB/feats.scp ark:- |"
  
  if [ "$feat_type" == "delta" ]; then
    feats1="$feats1 add-deltas ark:- ark:- |"
  elif [ "$feat_type" == "lda" ]; then
    feats1="$feats1 splice-feats $splice_opts ark:- ark:- | transform-feats $dir/lda.mat ark:- ark:- |"
  fi
  
  # set up feature stream 2;  this are usually bottleneck or posterior features,
  # which may be normalized if desired
  feats2="scp:$sdata2/JOB/feats.scp"
  
  if [ "$normft2" == "true" ]; then
    feats2="ark,s,cs:apply-cmvn --norm-vars=false --utt2spk=ark:$sdata2/JOB/utt2spk scp:$sdata2/JOB/cmvn.scp $feats2 ark:- |"
  fi
  
  # assemble tandem features
  feats="ark,s,cs:paste-feats '$feats1' '$feats2' ark:- |"
  
  # add transformation, if applicable
  if [ "$feat_type" == "lda" ]; then
    feats="$feats transform-feats $dir/final.mat ark:- ark:- |"
  fi
  
  # splicing/normalization options
  cp $srcdir/{tandem,splice_opts,normft2} $dir 2>/dev/null
  
  echo "$0: aligning data in $data using model from $srcdir, putting alignments in $dir"
  
  mdl="gmm-boost-silence --boost=$boost_silence `cat $lang/phones/optional_silence.csl` $dir/final.mdl - |"
  
  if $use_graphs; then
    [ $nj != "`cat $srcdir/num_jobs`" ] && echo "$0: mismatch in num-jobs" && exit 1;
    [ ! -f $srcdir/fsts.1.gz ] && echo "$0: no such file $srcdir/fsts.1.gz" && exit 1;
  
    $cmd JOB=1:$nj $dir/log/align.JOB.log \
      gmm-align-compiled $scale_opts --beam=$beam --retry-beam=$retry_beam "$mdl" \
        "ark:gunzip -c $srcdir/fsts.JOB.gz|" "$feats" "ark:|gzip -c >$dir/ali.JOB.gz" || exit 1;
  else
    tra="ark:utils/sym2int.pl --map-oov $oov -f 2- $lang/words.txt $sdata1/JOB/text|";
    # We could just use gmm-align in the next line, but it's less efficient as it compiles the
    # training graphs one by one.
    $cmd JOB=1:$nj $dir/log/align.JOB.log \
      compile-train-graphs --read-disambig-syms=$lang/phones/disambig.int $dir/tree $dir/final.mdl  $lang/L.fst "$tra" ark:- \| \
      gmm-align-compiled $scale_opts --beam=$beam --retry-beam=$retry_beam "$mdl" ark:- \
        "$feats" "ark,t:|gzip -c >$dir/ali.JOB.gz" || exit 1;
  fi
  
  echo "$0: done aligning data."