# experiment.meta: now with comments.

[CORPUS] multiple
get-corpus
	in: get-corpus-script
	out: raw-stem
	default-name: corpus/txt
	rerun-on-change: input-extension output-extension
	template: IN OUT $input-extension $output-extension
tokenize
	in: raw-stem
	out: tokenized-stem
	default-name: corpus/tok
	pass-unless: input-tokenizer output-tokenizer
	template-if: input-tokenizer IN.$input-extension OUT.$input-extension
	template-if: output-tokenizer IN.$output-extension OUT.$output-extension 
	parallelizable: yes
clean
	in: tokenized-stem
	out: clean-stem
	default-name: corpus/clean
	rerun-on-change: max-sentence-length $moses-script-dir/training/clean-corpus-n.perl
	template: $moses-script-dir/training/clean-corpus-n.perl IN $input-extension $output-extension OUT 1 $max-sentence-length $working-dir/corpus/clean.lines-retained.VERSION
	error: there is a blank factor
parse
	in: clean-stem
	out: parsed-stem
	default-name: corpus/parsed
	pass-unless: input-parser output-parser
	template-if: input-parser IN.$input-extension OUT.$input-extension
	template-if: output-parser IN.$output-extension OUT.$output-extension
	parallelizable: yes
post-parse-clean
	in: parsed-stem 
	out: clean-parsed-stem
	default-name: corpus/parsed-clean
	pass-unless: input-parser output-parser
	template: $moses-script-dir/training/clean-corpus-n.perl IN $input-extension $output-extension OUT 1 10000 $working-dir/corpus/parsed-clean.lines-retained.VERSION --ignore-xml
	error: there is a blank factor
factorize
	in: clean-parsed-stem
	out: factorized-stem
	rerun-on-change: TRAINING:input-factors TRAINING:output-factors
	default-name: corpus/factored
	pass-unless: TRAINING:input-factors
	parallelizable: yes
	error: can't open
	error: incompatible number of words in factor
truecase
	in: factorized-stem TRUECASER:truecase-model
	out: truecased-stem
	rerun-on-change: input-truecaser output-truecaser
	default-name: corpus/truecased
	pass-unless: input-truecaser output-truecaser
	template-if: input-truecaser IN.$input-extension OUT.$input-extension -model IN1.$input-extension
	template-if: output-truecaser IN.$output-extension OUT.$output-extension -model IN1.$output-extension
	parallelizable: yes
lowercase
	in: truecased-stem
	out: lowercased-stem
	default-name: corpus/lowercased
	pass-unless: input-lowercaser output-lowercaser
	template-if: input-lowercaser IN.$input-extension OUT.$input-extension
	template-if: output-lowercaser IN.$output-extension OUT.$output-extension
split
	in: lowercased-stem SPLITTER:splitter-model
	out: split-stem
	default-name: corpus/split
	pass-unless: input-splitter output-splitter
	template-if: input-splitter IN.$input-extension OUT.$input-extension -model IN1.$input-extension
	template-if: output-splitter IN.$output-extension OUT.$output-extension -model IN1.$output-extension
post-split-clean
	in: split-stem 
	out: clean-split-stem
	default-name: corpus/split-clean
	ignore-if: input-parser output-parser
	pass-unless: input-splitter output-splitter
	template: $moses-script-dir/training/clean-corpus-n.perl IN $input-extension $output-extension OUT 1 $max-sentence-length $working-dir/corpus/split-clean.lines-retained.VERSION
	error: there is a blank factor
post-split-clean-syntax
	in: split-stem 
	out: clean-split-stem
	default-name: corpus/split-clean
	ignore-unless: input-parser output-parser
	pass-unless: input-splitter output-splitter
	template: $moses-script-dir/training/clean-corpus-n.perl IN $input-extension $output-extension OUT 1 10000 $working-dir/corpus/parsed-clean.lines-retained.VERSION --ignore-xml
	error: there is a blank factor

[RECASING] single
tokenize
	in: raw
	out: tokenized
	default-name: recasing/cased
	pass-unless: output-tokenizer
	template: $output-tokenizer < IN > OUT
train
	in: tokenized
	out: recase-config
	template: $moses-script-dir/recaser/train-recaser.perl -train-script $TRAINING:script -dir $working-dir/recasing/model.VERSION -corpus IN -scripts-root-dir $moses-script-dir -config OUT -ngram-count $lm-training
	default-name: recasing/moses.ini
	ignore-unless: EVALUATION:recaser
	error: cannot execute binary file

[TRUECASER] single
consolidate
	in: CORPUS:clean-parsed-stem
	out: tokenized-stem
	default-name: truecaser/corpus
	template: $moses-script-dir/ems/support/consolidate-training-data.perl $input-extension $output-extension OUT IN
train
  in: tokenized-stem
	out: truecase-model
	rerun-on-change: trainer
	default-name: truecaser/truecase-model
	template: $trainer -model OUT.$input-extension -corpus IN.$input-extension ; $trainer -model OUT.$output-extension -corpus IN.$output-extension

[SPLITTER] single
consolidate
	in: CORPUS:lowercased-stem
	out: truecased-stem
	default-name: splitter/corpus
	ignore-unless: input-splitter output-splitter
	template: $moses-script-dir/ems/support/consolidate-training-data.perl $input-extension $output-extension OUT IN
train
        in: truecased-stem
	out: splitter-model
	default-name: splitter/split-model
	ignore-unless: input-splitter output-splitter

[LM] multiple
get-corpus
	in: get-corpus-script
	out: raw-corpus
	pass-unless: get-corpus-script
	default-name: lm/txt
	template: $get-corpus-script > OUT
tokenize
	in: raw-corpus
	out: tokenized-corpus
	default-name: lm/tok
	pass-unless: output-tokenizer
	template: $output-tokenizer < IN > OUT
	parallelizable: yes
factorize
	in: tokenized-corpus
	out: factorized-corpus
	rerun-on-change: TRAINING:output-factors
	default-name: lm/factored
	pass-unless: factors	
	parallelizable: yes
	error: can't open
	error: incompatible number of words in factor
lowercase
	in: factorized-corpus
	out: lowercased-corpus
	default-name: lm/lowercased
	pass-unless: output-lowercaser
	ignore-if: output-truecaser
	only-factor-0: yes
	template: $output-lowercaser < IN > OUT
	parallelizable: yes
truecase
	in: factorized-corpus TRUECASER:truecase-model
	out: lowercased-corpus
	rerun-on-change: output-truecaser
	default-name: lm/truecased
	ignore-unless: output-truecaser
	only-factor-0: yes
	template: $output-truecaser -model IN1.$output-extension < IN > OUT
	parallelizable: yes
split
	in: lowercased-corpus SPLITTER:splitter-model
	out: split-corpus
	rerun-on-change: output-splitter
	default-name: lm/split
	pass-unless: output-splitter
	template: $output-splitter -model IN1.$output-extension < IN > OUT
train
	in: split-corpus
	out: lm
	default-name: lm/lm
	ignore-if: rlm-training
	rerun-on-change: lm-training order settings
	template: $lm-training -order $order $settings -text IN -lm OUT
	error: cannot execute binary file
randomize
	in: lm
	out: rlm
	default-name: lm/rlm
	pass-unless: lm-randomizer
	ignore-if: rlm-training
train-randomized
	in: split-corpus
	out: rlm
	default-name: lm/rlm
	ignore-unless: rlm-training
	rerun-on-change: rlm-training order
quantize
	in: rlm
	out: qlm
	pass-unless: lm-quantizer
	default-name: lm/qlm
	template: $lm-quantizer IN OUT
binarize
	in: qlm
	out: binlm
	pass-unless: lm-binarizer
	rerun-on-change: lm
	default-name: lm/binlm
	template: $lm-binarizer IN OUT
	error: set KENLM_MAX_ORDER to at least this value

[INTERPOLATED-LM] single
tuning-from-sgm
	in: tuning-sgm
	out: raw-tuning
	default-name: lm/interpolate-tuning.txt
	template: $moses-script-dir/ems/support/input-from-sgm.perl < IN > OUT
tokenize-tuning
	in: raw-tuning
	out: tokenized-tuning
	default-name: lm/interpolate-tuning.tok
	pass-unless: output-tokenizer
	template: $output-tokenizer < IN > OUT
	parallelizable: yes
factorize-tuning
	in: tokenized-tuning
	out: factorized-tuning
	rerun-on-change: TRAINING:output-factors
	default-name: lm/interpolate-tuning.factored
	pass-unless: factors	
	parallelizable: yes
	error: can't open
	error: incompatible number of words in factor
lowercase-tuning
	in: factorized-tuning
	out: lowercased-tuning
	default-name: lm/interpolate-tuning.lowercased
	pass-unless: output-lowercaser
	ignore-if: output-truecaser
	template: $output-lowercaser < IN > OUT
truecase-tuning
	in: factorized-tuning TRUECASER:truecase-model
	out: lowercased-tuning
	rerun-on-change: output-truecaser
	default-name: lm/interpolate-tuning.truecased
	ignore-unless: output-truecaser
        template: $output-truecaser -model IN1.$output-extension < IN > OUT
split-tuning
	in: lowercased-tuning SPLITTER:splitter-model
	out: split-tuning
	rerun-on-change: output-splitter
	default-name: lm/interpolate-tuning.split
	pass-unless: output-splitter
	template: $output-splitter -model IN1.$output-extension < IN > OUT
interpolate
	in: script split-tuning LM:lm
	rerun-on-change: srilm-dir group
	out: lm
	default-name: lm/interpolated-lm
randomize
	in: lm
	out: rlm
	pass-unless: lm-randomizer
	default-name: lm/interpolated-rlm
quantize
	in: rlm
	out: qlm
	pass-unless: lm-quantizer
	default-name: lm/interpolated-qlm
binarize
	in: qlm
	out: binlm
	pass-unless: lm-binarizer
	ignore-unless: script
	rerun-on-change: lm
	default-name: lm/interpolated-binlm
	error: set kMaxOrder to at least this value
[MML] single
tokenize-indomain-source
	in: raw-indomain-source
	out: tokenized-indomain-source
	default-name: mml/indomain-source.tok
	pass-unless: input-tokenizer
	template: $input-tokenizer < IN > OUT
	parallelizable: yes
factorize-indomain-source
	in: tokenized-indomain-source
	out: factorized-indomain-source
	rerun-on-change: TRAINING:input-factors
	default-name: mml/indomain-source.factored
	pass-unless: factors	
	parallelizable: yes
	error: can't open
	error: incompatible number of words in factor
lowercase-indomain-source
	in: factorized-indomain-source
	out: lowercased-indomain-source
	default-name: mml/indomain-source.lowercased
	pass-unless: input-lowercaser
	ignore-if: input-truecaser
	only-factor-0: yes
	template: $input-lowercaser < IN > OUT
	parallelizable: yes
truecase-indomain-source
	in: factorized-indomain-source TRUECASER:truecase-model
	out: lowercased-indomain-source
	rerun-on-change: input-truecaser
	default-name: mml/indomain-source.truecased
	ignore-unless: input-truecaser
	only-factor-0: yes
	template: $input-truecaser -model IN1.$input-extension < IN > OUT
	parallelizable: yes
split-indomain-source
	in: lowercased-indomain-source SPLITTER:splitter-model
	out: indomain-source
	rerun-on-change: input-splitter
	default-name: mml/indomain-source.split
	pass-unless: input-splitter
	template: $input-splitter -model IN1.$input-extension < IN > OUT
tokenize-indomain-target
	in: raw-indomain-target
	out: tokenized-indomain-target
	default-name: mml/indomain-target.tok
	pass-unless: output-tokenizer
	template: $output-tokenizer < IN > OUT
	parallelizable: yes
factorize-indomain-target
	in: tokenized-indomain-target
	out: factorized-indomain-target
	rerun-on-change: TRAINING:output-factors
	default-name: mml/indomain-target.factored
	pass-unless: factors	
	parallelizable: yes
	error: can't open
	error: incompatible number of words in factor
lowercase-indomain-target
	in: factorized-indomain-target
	out: lowercased-indomain-target
	default-name: mml/indomain-target.lowercased
	pass-unless: output-lowercaser
	ignore-if: output-truecaser
	only-factor-0: yes
	template: $output-lowercaser < IN > OUT
	parallelizable: yes
truecase-indomain-target
	in: factorized-indomain-target TRUECASER:truecase-model
	out: lowercased-indomain-target
	rerun-on-change: output-truecaser
	default-name: mml/indomain-target.truecased
	ignore-unless: output-truecaser
	only-factor-0: yes
	template: $output-truecaser -model IN1.$output-extension < IN > OUT
	parallelizable: yes
split-indomain-target
	in: lowercased-indomain-target SPLITTER:splitter-model
	out: indomain-target
	rerun-on-change: output-splitter
	default-name: mml/indomain-target.split
	pass-unless: output-splitter
	template: $output-splitter -model IN1.$output-extension < IN > OUT
train
	in: indomain-stem outdomain-stem
	out: model
	rerun-on-change: settings
	ignore-unless: indomain-stem
	default-name: mml/model
	template: $moses-script-dir/ems/support/mml-train.perl -in-source IN.$input-extension -in-target IN.$output-extension -out-source IN1.$input-extension -out-target IN1.$output-extension -model OUT -lm-training "$lm-training" -order $order -lm-settings "$lm-settings" -lm-binarizer $lm-binarizer $settings
train-in-mono
	in: indomain-source indomain-target outdomain-stem
	out: model
	rerun-on-change: settings
	ignore-if: indomain-stem
	default-name: mml/model
	template: $moses-script-dir/ems/support/mml-train.perl -in-source IN -in-target IN1 -out-source IN2.$input-extension -out-target IN2.$output-extension -model OUT -lm-training "$lm-training" -order $order -lm-settings "$lm-settings" -lm-binarizer $lm-binarizer $settings

[TRAINING] single
consolidate
	in: CORPUS:clean-split-stem
	out: corpus
	default-name: corpus
	template: $moses-script-dir/ems/support/consolidate-training-data.perl $input-extension $output-extension OUT IN
build-domains
	in: CORPUS:clean-split-stem
	out: domains
	default-name: model/domains
	ignore-unless: domain-features mml-filter-corpora
	template: $moses-script-dir/ems/support/build-domain-file-from-subcorpora.perl $input-extension IN > OUT
mml-score
	in: MML:model corpus domains
	out: mml-scores
	ignore-unless: mml-before-wa mml-after-wa
	rerun-on-change: mml-filter-corpora
	default-name: training/corpus-mml-score
	template: $moses-script-dir/ems/support/mml-score.perl -model IN -corpus IN1 -domains IN2 -input-extension $input-extension -output-extension $output-extension -query $MML:lm-query -filter-domains "$mml-filter-corpora" > OUT
mml-filter-before-wa
	in: corpus mml-scores domains
	out: corpus-mml-prefilter
	ignore-unless: mml-before-wa
	rerun-on-change: mml-filter-corpora mml-before-wa
	default-name: training/corpus-mml
	template: $moses-script-dir/ems/support/mml-filter.perl -in IN -out OUT -score IN1 -domain IN2 -input-extension $input-extension -output-extension $output-extension $mml-before-wa
prepare-data-fast-align
	in: corpus-mml-prefilter=OR=corpus
	out: prepared-data-fast-align
	default-name: prepared
fast-align
	in: prepared-data-fast-align
	out: fast-alignment
	rerun-on-change: fast-align-settings
	template: $external-bin-dir/fast_align -i IN $fast-align-settings > OUT
	default-name: fast-align
fast-align-inverse
	in: prepared-data-fast-align
	out: fast-alignment-inverse
	rerun-on-change: fast-align-settings
	template: $external-bin-dir/fast_align -i IN -r $fast-align-settings > OUT
	default-name: fast-align-inverse
symmetrize-fast-align
	in: fast-alignment fast-alignment-inverse corpus-mml-prefilter=OR=corpus
	out: word-alignment
	ignore-unless: fast-align-settings
	template: $moses-script-dir/ems/support/symmetrize-fast-align.perl IN IN1 IN2.$input-extension IN2.$output-extension OUT $alignment-symmetrization-method $moses-src-dir/bin/symal
        default-name: model/aligned
prepare-data
	in: corpus-mml-prefilter=OR=corpus
	out: prepared-data
	rerun-on-change: alignment-factors training-options script baseline-alignment-model external-bin-dr
	ignore-if: use-berkeley
	default-name: prepared
run-giza
	in: prepared-data
	out: giza-alignment
	ignore-if: use-berkeley
	rerun-on-change: giza-settings training-options script baseline-alignment-model external-bin-dir
	default-name: giza
	error: not found
	not-error: 0 not found
run-giza-inverse
	in: prepared-data
	out: giza-alignment-inverse
	rerun-on-change: giza-settings training-options script baseline-alignment-model external-bin-dir
	ignore-if: use-berkeley
	default-name: giza-inverse
	error: not found	
	not-error: 0 not found
run-berkeley
	in: corpus-mml-prefilter
	out: berkeley-alignment
	ignore-unless: use-berkeley
	rerun-on-change: berkeley-train berkeley-jar berkeley-training-options
	default-name: berkeley
	template: $berkeley-train " $berkeley-java-options " $berkeley-jar IN OUT $input-extension $output-extension $berkeley-training-options
	not-error: 0 errors,
process-berkeley
	in: corpus-mml-prefilter berkeley-alignment
	out: word-alignment
	default-name: model/aligned
	rerun-on-change: berkeley-process berkeley-jar berkeley-posterior berkeley-process-options
	ignore-unless: use-berkeley
	template: $berkeley-process " $berkeley-java-options " $berkeley-jar IN IN1 OUT $input-extension $output-extension $alignment-symmetrization-method $berkeley-posterior $berkeley-process-options
	not-error: 0 errors,
symmetrize-giza
	in: giza-alignment giza-alignment-inverse
	out: word-alignment
	ignore-if: use-berkeley fast-align-settings
	rerun-on-change: alignment-symmetrization-method training-options script
	default-name: model/aligned
	error: skip=<[1-9]
mml-filter-after-wa
	in: corpus-mml-prefilter=OR=corpus word-alignment mml-scores corpus-mml-prefilter=OR=domains
	out: corpus-mml-postfilter
	ignore-unless: mml-after-wa
	rerun-on-change: mml-filter-corpora mml-after-wa
	default-name: model/corpus-mml
	template: $moses-script-dir/ems/support/mml-filter.perl -in IN -out OUT -alignment IN1 -score IN2 -domain IN3 -input-extension $input-extension -output-extension $output-extension $mml-after-wa
build-biconcor
	in: corpus-mml-postfilter=OR=word-alignment corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: biconcor-model
	default-name: model/biconcor
	ignore-unless: biconcor
	error: usage
build-suffix-array
	in: corpus-mml-postfilter=OR=word-alignment corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: phrase-translation-table
	default-name: model/suffix-array
	ignore-unless: suffix-array
	error: usage
build-lex-trans
	in: corpus-mml-postfilter=OR=word-alignment corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: lexical-translation-table
	rerun-on-change: translation-factors training-options script
	default-name: model/lex
parse-relax
	in: corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: parse-relaxed-corpus
	default-name: model/parsed-relaxed
	pass-unless: input-parse-relaxer output-parse-relaxer
	template-if: input-parse-relaxer IN.$input-extension OUT.$input-extension
	template-if: output-parse-relaxer IN.$output-extension OUT.$output-extension
pcfg-extract
	in: parse-relaxed-corpus
	out: pcfg
	default-name: model/pcfg
	ignore-unless: use-pcfg-feature
	rerun-on-change: use-pcfg-feature
	template: $moses-bin-dir/pcfg-extract < IN.$output-extension > OUT.$output-extension
pcfg-score
	in: parse-relaxed-corpus pcfg
	out: scored-corpus
	default-name: model/scored-corpus
	pass-unless: use-pcfg-feature
	template: ln -s IN.$input-extension OUT.$input-extension ; $moses-bin-dir/pcfg-score IN1.$output-extension < IN.$output-extension > OUT.$output-extension
extract-phrases
	in: corpus-mml-postfilter=OR=word-alignment scored-corpus
	out: extracted-phrases
	rerun-on-change: max-phrase-length translation-factors reordering-factors hierarchical-rule-set extract-settings training-options script use-ghkm domain-features baseline-extract
        only-existence-matters: domain-features
	default-name: model/extract
	ignore-if: suffix-array
build-reordering
	in: extracted-phrases
	out: reordering-table
	ignore-unless: lexicalized-reordering
	rerun-on-change: lexicalized-reordering reordering-factors
	default-name: model/reordering-table
build-ttable
	in: extracted-phrases lexical-translation-table corpus-mml-prefilter=OR=corpus-mml-postfilter=OR=domains
	out: phrase-translation-table
	rerun-on-change: translation-factors hierarchical-rule-set score-settings training-options script EVALUATION:report-precision-by-coverage include-word-alignment-in-rules domain-features
	default-name: model/phrase-table
	ignore-if: suffix-array
sigtest-filter-suffix-array
	in: corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: sigtest-filter-suffix-array
	default-name: training/corpus
	template: $salm-index IN.$input-extension ; \
		mv IN.${input-extension}.id_voc OUT.${input-extension}.id_voc ; \
		mv IN.${input-extension}.sa_corpus OUT.${input-extension}.sa_corpus ; \
		mv IN.${input-extension}.sa_offset OUT.${input-extension}.sa_offset ; \
		mv IN.${input-extension}.sa_suffix OUT.${input-extension}.sa_suffix ; \
		$salm-index IN.$output-extension ; \
		mv IN.${output-extension}.id_voc OUT.${output-extension}.id_voc ; \
		mv IN.${output-extension}.sa_corpus OUT.${output-extension}.sa_corpus ; \
		mv IN.${output-extension}.sa_offset OUT.${output-extension}.sa_offset ; \
		mv IN.${output-extension}.sa_suffix OUT.${output-extension}.sa_suffix
	ignore-unless: sigtest-filter
sigtest-filter-ttable
	in: phrase-translation-table sigtest-filter-suffix-array
	out: sigtest-filter-phrase-translation-table
	default-name: model/phrase-table-sigtest-filter
	pass-unless: sigtest-filter
  ignore-if: TRAINING:config
sigtest-filter-reordering
	in: reordering-table sigtest-filter-suffix-array
	out: sigtest-filter-reordering-table
	default-name: model/reordering-table-sigtest-filter
	pass-unless: sigtest-filter
  ignore-if: TRAINING:config
	ignore-unless: lexicalized-reordering
build-generation
	in: corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: generation-table
	rerun-on-change: generation-factors generation-type training-options script
	ignore-unless: generation-factors
	ignore-if: generation-corpus
	default-name: model/generation-table
build-generation-custom
	in: generation-corpus
	out: generation-table
	rerun-on-change: generation-factors generation-type training-options script generation-corpus
	ignore-unless: AND generation-factors generation-corpus
	default-name: model/generation-table
build-sparse
	in: corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
        out: sparse
        ignore-unless: sparse-features
	rerun-on-change: sparse-features
        default-name: model/sparse-features
	template: $moses-script-dir/ems/support/build-sparse-features.perl IN $input-extension $output-extension OUT "$sparse-features"
create-config
	in: sigtest-filter-reordering-table sigtest-filter-phrase-translation-table generation-table sparse corpus-mml-prefilter=OR=corpus-mml-postfilter=OR=domains INTERPOLATED-LM:binlm LM:binlm 
	out: config
	ignore-if: use-hiero
	rerun-on-change: decoding-steps alignment-factors translation-factors reordering-factors generation-factors lexicalized-reordering training-options script decoding-graph-backoff score-settings additional-ini
	default-name: model/moses.ini
	error: Unknown option
binarize-config
	in: config
	out: bin-config
	pass-unless: binarize-all
	rerun-on-change: config
	default-name: model/moses.bin.ini
	template: $binarize-all $ttable-binarizer $rtable-binarizer OUT IN
hiero-compile-source-suffix-array
	in: corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: hiero-source-suffix-array
	ignore-unless: use-hiero
	default-name: hiero-model/f.sa.bin
	template: $hiero-decode-dir/compile_bin.py -s IN.$input-extension OUT
hiero-compile-target
	in: corpus-mml-postfilter=OR=corpus-mml-prefilter=OR=corpus
	out: hiero-target-array
	ignore-unless: use-hiero
	default-name: hiero-model/e.bin
	template: $hiero-decode-dir/compile_bin.py IN.$output-extension OUT
hiero-compile-alignment
	in: corpus-mml-postfilter=OR=word-alignment
	out: hiero-alignment-array
	ignore-unless: use-hiero
	default-name: hiero-model/a.bin
	template: $hiero-decode-dir/compile_bin.py -a IN.$alignment-symmetrization-method OUT
hiero-compile-lex
	in: hiero-alignment-array hiero-source-suffix-array hiero-target-array
	out: hiero-lex-array
	ignore-unless: use-hiero
	default-name: hiero-model/lex.bin
	template: $hiero-decode-dir/compile_bin.py -x IN1 IN2 IN OUT
hiero-find-frequencies
	in: hiero-source-suffix-array
	out: hiero-topN
	ignore-unless: use-hiero
	default-name: hiero-model/f.topN
	template: $hiero-decode-dir/lcp_ops.py -t 4 IN | sort -nr | head -100 > OUT
hiero-compile-precomputations
	in: hiero-topN hiero-source-suffix-array
	out: hiero-precomputation-array
	ignore-unless: use-hiero
	default-name: hiero-model/f.precomputations.bin
	rerun-on-change: hiero-max-phrase-length hiero-max-nonterminals hiero-max-phrase-span hiero-min-gap-length hiero-freq-rank1 hiero-freq-rank2
	template: $hiero-decode-dir/compile_bin.py -r max-len=$hiero-max-phrase-length max-nt=$hiero-max-nonterminals max-size=$hiero-max-phrase-span min-gap=$hiero-min-gap-length rank1=$hiero-freq-rank1 rank2=$hiero-freq-rank2 sa=IN1 IN OUT
hiero-create-config
	in: hiero-source-suffix-array hiero-target-array hiero-alignment-array hiero-lex-array hiero-precomputation-array LM:lm
	out: hiero-config
	ignore-unless: use-hiero
	rerun-on-change: decoding-steps alignment-factors translation-factors reordering-factors generation-factors
	default-name: hiero-model/hiero.ini
	template: $hiero-util-dir/generate-ini.pl IN IN1 IN2 IN3 IN4 IN5 $hiero-max-phrase-length $hiero-max-nonterminals $hiero-max-phrase-span $hiero-min-gap-length $hiero-freq-rank1 $hiero-freq-rank2 < $GENERAL:hiero-template-ini > OUT

[TUNING] single
input-from-sgm
	in: input-sgm
	out: raw-input
	default-name: tuning/input.txt
	template: $moses-script-dir/ems/support/input-from-sgm.perl < IN > OUT
input-devtest-from-sgm
        in: input-devtest-sgm
        out: raw-input-devtest
        default-name: tuning/input.devtest.txt
	ignore-unless: use-mira
        template: $moses-script-dir/ems/support/input-from-sgm.perl < IN > OUT
tokenize-input
	in: raw-input
	out: tokenized-input
	default-name: tuning/input.tok
	pass-unless: input-tokenizer
	template: $input-tokenizer < IN > OUT
tokenize-input-devtest
	in: raw-input-devtest
	out: tokenized-input-devtest
	default-name: tuning/input.devtest.tok
	pass-unless: input-tokenizer
	ignore-unless: use-mira
	template: $input-tokenizer < IN > OUT
parse-input
	in: tokenized-input
	out: parsed-input
	default-name: tuning/input.parsed
	pass-unless: input-parser
	template: $input-parser < IN > OUT
parse-input-devtest
	in: tokenized-input-devtest
	out: parsed-input-devtest
	default-name: tuning/input.devtest.parsed
	pass-unless: input-parser
	ignore-unless: use-mira	
	template: $input-parser < IN > OUT
parse-relax-input
	in: parsed-input
	out: parse-relaxed-input
	default-name: tuning/input.parse-relaxed
	pass-unless: input-parse-relaxer
        template: $input-parse-relaxer < IN.$input-extension > OUT.$input-extension
parse-relax-input-devtest
	in: parsed-input-devtest
	out: parse-relaxed-input-devtest
	default-name: tuning/input.devtest.parse-relaxed
	pass-unless: input-parse-relaxer
	ignore-unless: use-mira
        template: $input-parse-relaxer < IN.$input-extension > OUT.$input-extension
factorize-input
	in: parse-relaxed-input
	out: factorized-input
	default-name: tuning/input.factorized
	rerun-on-change: TRAINING:input-factors
	pass-unless: TRAINING:input-factors
	error: can't open
	error: incompatible number of words in factor
factorize-input-devtest
	in: parse-relaxed-input-devtest
	out: factorized-input-devtest
	default-name: tuning/input.devtest.factorized
	rerun-on-change: TRAINING:input-factors
	pass-unless: TRAINING:input-factors
	ignore-unless: use-mira
	error: can't open
	error: incompatible number of words in factor
lowercase-input
	in: factorized-input
	out: truecased-input
	default-name: tuning/input.lc
	pass-unless: input-lowercaser
	ignore-if: input-truecaser
	template: $input-lowercaser < IN > OUT
lowercase-input-devtest
	in: factorized-input-devtest
	out: truecased-input-devtest
	default-name: tuning/input.devtest.lc
	pass-unless: input-lowercaser
	ignore-unless: use-mira
	ignore-if: input-truecaser
	template: $input-lowercaser < IN > OUT
truecase-input
	in: factorized-input TRUECASER:truecase-model
	out: truecased-input
	rerun-on-change: input-truecaser
	default-name: tuning/input.tc
	ignore-unless: input-truecaser
        template: $input-truecaser -model IN1.$input-extension < IN > OUT
truecase-input-devtest
	in: factorized-input-devtest TRUECASER:truecase-model
	out: truecased-input-devtest
	rerun-on-change: input-truecaser
	default-name: tuning/input.devtest.tc
	ignore-unless: AND input-truecaser use-mira
        template: $input-truecaser -model IN1.$input-extension < IN > OUT
split-input 
	in: truecased-input SPLITTER:splitter-model
	out: input
	rerun-on-change: input-splitter
	default-name: tuning/input.split
	pass-unless: input-splitter
	template: $input-splitter -model IN1.$input-extension $input-extension < IN > OUT
split-input-devtest
	in: truecased-input-devtest SPLITTER:splitter-model
	out: input-devtest
	rerun-on-change: input-splitter
	default-name: tuning/input.devtest.split
	pass-unless: input-splitter
	ignore-unless: use-mira
	template: $input-splitter -model IN1.$input-extension $input-extension < IN > OUT
reference-from-sgm
	in: reference-sgm input-sgm
	out: raw-reference
	default-name: tuning/reference.txt
	template: $moses-script-dir/ems/support/reference-from-sgm.perl IN IN1 OUT
reference-devtest-from-sgm
        in: reference-devtest-sgm input-devtest-sgm
        out: raw-reference-devtest
        default-name: tuning/reference.devtest.txt
	ignore-unless: use-mira
        template: $moses-script-dir/ems/support/reference-from-sgm.perl IN IN1 OUT
tokenize-reference
	in: raw-reference
	out: tokenized-reference
	default-name: tuning/reference.tok
	pass-unless: output-tokenizer
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-tokenizer < IN > OUT
tokenize-reference-devtest
	in: raw-reference-devtest
	out: tokenized-reference-devtest
	default-name: tuning/reference.devtest.tok
	pass-unless: output-tokenizer
	ignore-unless: use-mira
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-tokenizer < IN > OUT
lowercase-reference
	in: tokenized-reference
	out: truecased-reference
	default-name: tuning/reference.lc
	pass-unless: output-lowercaser
	ignore-if: output-truecaser
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-lowercaser < IN > OUT	
lowercase-reference-devtest
	in: tokenized-reference-devtest
	out: truecased-reference-devtest
	default-name: tuning/reference.devtest.lc
	pass-unless: output-lowercaser
	ignore-if: output-truecaser
	ignore-unless: use-mira
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-lowercaser < IN > OUT	
truecase-reference
	in: tokenized-reference TRUECASER:truecase-model
	out: truecased-reference
	rerun-on-change: output-truecaser
	default-name: tuning/reference.tc
	ignore-unless: output-truecaser
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
        template: $output-truecaser -model IN1.$output-extension < IN > OUT
truecase-reference-devtest
	in: tokenized-reference-devtest TRUECASER:truecase-model
	out: truecased-reference-devtest
	rerun-on-change: output-truecaser
	default-name: tuning/reference.devtest.tc
	ignore-unless: AND output-truecaser use-mira
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
        template: $output-truecaser -model IN1.$output-extension < IN > OUT
split-reference
	in: truecased-reference SPLITTER:splitter-model
	out: reference
	default-name: tuning/reference.split
	pass-unless: output-splitter
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-splitter -model IN1.$output-extension < IN > OUT
split-reference-devtest
	in: truecased-reference-devtest SPLITTER:splitter-model
	out: reference-devtest
	default-name: tuning/reference.devtest.split
	pass-unless: output-splitter
	ignore-unless: use-mira
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-splitter -model IN1.$output-extension < IN > OUT
filter
	in: input TRAINING:sigtest-filter-phrase-translation-table TRAINING:sigtest-filter-reordering-table TRAINING:corpus-mml-prefilter=OR=TRAINING:corpus-mml-postfilter=OR=TRAINING:domains
	out: filtered-dir
	default-name: tuning/filtered
	rerun-on-change: filter-settings
	pass-if: TRAINING:binarize-all
	ignore-if: use-hiero
	error: already exists. Please delete
filter-devtest
	in: input-devtest TRAINING:sigtest-filter-phrase-translation-table TRAINING:sigtest-filter-reordering-table
	out: filtered-dir-devtest
	default-name: tuning/filtered.devtest
 	rerun-on-change: filter-settings
	pass-if: TRAINING:binarize-all
	ignore-unless: use-mira	
	error: already exists. Please delete
apply-filter
	in: TRAINING:config filtered-dir
	out: filtered-config
	default-name: tuning/moses.filtered.ini
	pass-if: TRAINING:binarize-all
	ignore-if: use-hiero
	template: $moses-script-dir/ems/support/substitute-filtered-tables.perl IN1/moses.ini < IN > OUT
apply-filter-devtest
	in: TRAINING:config filtered-dir-devtest
	out: filtered-config-devtest
	default-name: tuning/moses.filtered.devtest.ini
	pass-if: TRAINING:binarize-all
	ignore-unless: use-mira
	template: $moses-script-dir/ems/support/substitute-filtered-tables.perl IN1/moses.ini < IN > OUT
tune
	in: filtered-config input reference filtered-config-devtest input-devtest reference-devtest
	out: weight-config
	ignore-if: use-hiero
	qsub-script: yes
	default-name: tuning/moses.ini
	rerun-on-change: decoder-settings tuning-settings nbest lambda async
	not-error: trans: No such file or directory
apply-weights
	in: TRAINING:config weight-config
	out: config-with-reused-weights
	ignore-if: use-hiero
	default-name: tuning/moses.tuned.ini
	template: $moses-script-dir/ems/support/substitute-weights.perl IN IN1 OUT
	error: cannot open
hiero-tune
	in: TRAINING:hiero-config input reference
	out: hiero-weight-config
	ignore-unless: use-hiero
	qsub-script: yes
	default-name: hiero-tuning/mert
	rerun-on-change: nbest
	template: $hiero-mert --nbest $nbest --decoder $hiero-decoder --workdir OUT IN --source-file IN1 --ref-files "IN2*" --no-test
hiero-apply-weights
	in: hiero-weight-config TRAINING:hiero-config 
	out: hiero-config-with-reused-weights
	default-name: hiero-tuning/hiero.weight-reused.ini
	ignore-unless: use-hiero
	template: $hiero-util-dir/apply-weights.pl IN/best.weights < IN1 > OUT

[EVALUATION] multiple
input-from-sgm
	in: input-sgm
	out: raw-input
	ignore-unless: input-sgm
	default-name: evaluation/input.txt
	template: $moses-script-dir/ems/support/input-from-sgm.perl < IN > OUT
get-input
	in: get-corpus-script
	out: raw-input
	ignore-if: input-sgm
	default-name: evaluation/input.txt
	template: IN OUT
tokenize-input
	in: raw-input
	out: tokenized-input
	default-name: evaluation/input.tok
	pass-unless: input-tokenizer
	template: $input-tokenizer < IN > OUT
parse-input
	in: tokenized-input
	out: parsed-input
	default-name: evaluation/input.parsed
	pass-unless: input-parser
	template: $input-parser < IN > OUT
parse-relax-input
	in: parsed-input
	out: parse-relaxed-input
	default-name: tuning/input.parse-relaxed
	pass-unless: input-parse-relaxer
        template: $input-parse-relaxer < IN.$input-extension > OUT.$input-extension
factorize-input
	in: parse-relaxed-input
	out: factorized-input
	default-name: evaluation/input.factorized
	rerun-on-change: TRAINING:input-factors
	pass-unless: TRAINING:input-factors
	error: can't open
	error: incompatible number of words in factor
lowercase-input
	in: factorized-input
	out: truecased-input
	default-name: evaluation/input.lc
	pass-unless: input-lowercaser
	ignore-if: input-truecaser
	template: $input-lowercaser < IN > OUT
truecase-input
	in: factorized-input TRUECASER:truecase-model
	out: truecased-input
	default-name: evaluation/input.tc
	rerun-on-change: input-truecaser
	ignore-unless: input-truecaser
        template: $input-truecaser -model IN1.$input-extension < IN > OUT
split-input
	in: truecased-input SPLITTER:splitter-model
	out: input
	default-name: evaluation/input.split
	pass-unless: input-splitter
	template: $input-splitter -model IN1.$input-extension < IN > OUT
filter
	in: input TRAINING:sigtest-filter-phrase-translation-table TRAINING:sigtest-filter-reordering-table TRAINING:corpus-mml-prefilter=OR=TRAINING:corpus-mml-postfilter=OR=TRAINING:domains
	out: filtered-dir
	default-name: evaluation/filtered
	rerun-on-change: filter-settings report-precision-by-coverage
	pass-if: TRAINING:binarize-all
	ignore-if: use-hiero
	error: already exists. Please delete
apply-filter
	in: filtered-dir TRAINING:config TUNING:config-with-reused-weights
	out: filtered-config
	default-name: evaluation/filtered.ini
	pass-if: TRAINING:binarize-all
	ignore-if: use-hiero
	template: $moses-script-dir/ems/support/substitute-filtered-tables-and-weights.perl IN/moses.ini IN1 IN2 OUT
decode
	in: filtered-config input
	out: system-output
	default-name: evaluation/output
	qsub-script: yes
	ignore-if: use-hiero
	rerun-on-change: decoder decoder-settings nbest report-segmentation report-precision-by-coverage analyze-search-graph
	error: Translation was not performed correctly
	not-error: trans: No such file or directory
hiero-decode
	in: TUNING:hiero-config-with-reused-weights input
	out: system-output
	default-name: evaluation/output
	qsub-script: yes
	ignore-unless: use-hiero
	template: $hiero-parallelizer -e OUT.edir -r -- $hiero-decoder -c IN < IN1 > OUT
	rerun-on-change: hiero-decoder
remove-markup
	in: system-output
	out: cleaned-output
	default-name: evaluation/cleaned
	pass-if: TRAINING:hierarchical-rule-set
	pass-unless: report-segmentation
	template: $moses-script-dir/ems/support/remove-segmentation-markup.perl < IN > OUT
recase-output
	in: cleaned-output RECASING:recase-config
	out: recased-output
	default-name: evaluation/recased
	pass-unless: recaser
	ignore-if: output-truecaser
	template: $recaser -moses $RECASING:decoder -in IN -model IN1 > OUT
detruecase-output
	in: cleaned-output
	out: recased-output
	default-name: evaluation/truecased
	ignore-unless: output-truecaser
	template: $detruecaser < IN > OUT
detokenize-output
	in: recased-output
	out: detokenized-output
	default-name: evaluation/detokenized
	pass-unless: detokenizer
	template: $detokenizer < IN > OUT
wrap
	in: detokenized-output
	out: wrapped-output
	default-name: evaluation/detokenized.sgm
	rerun-on-change: wrapping-frame use-hiero
	template: $wrapping-script $wrapping-frame < IN > OUT
	error: Use of uninitialized value in pattern match
reference-from-sgm
	in: reference-sgm input-sgm
	out: raw-reference
	default-name: evaluation/reference.txt
	template: $moses-script-dir/ems/support/reference-from-sgm.perl IN IN1 OUT
tokenize-reference
	in: raw-reference
	out: tokenized-reference
	default-name: evaluation/reference.tok
	pass-unless: output-tokenizer
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-tokenizer < IN > OUT
lowercase-reference
	in: tokenized-reference
	out: reference
	default-name: evaluation/reference
	pass-unless: output-lowercaser
  pass-if: recaser
	multiref: $moses-script-dir/ems/support/run-command-on-multiple-refsets.perl
	template: $output-lowercaser < IN > OUT	
nist-bleu
	in: wrapped-output reference-sgm
	out: nist-bleu-score
	default-name: evaluation/nist-bleu
	ignore-unless: nist-bleu
	rerun-on-change: nist-bleu
	error: Illegal division by zero
        template: $nist-bleu -s $input-sgm -r IN1 -t IN > OUT
nist-bleu-c
	in: wrapped-output reference-sgm
	out: nist-bleu-c-score
	default-name: evaluation/nist-bleu-c
	ignore-unless: nist-bleu-c
	rerun-on-change: nist-bleu-c
	error: Illegal division by zero
        template: $nist-bleu-c -c -s $input-sgm -r IN1 -t IN > OUT
ibm-bleu
        in: wrapped-output reference-sgm
        out: ibm-bleu-score
        default-name: evaluation/ibm-bleu
        ignore-unless: ibm-bleu
        rerun-on-change: ibm-bleu
        template: $ibm-bleu -ci -s $input-sgm -r IN1 -t IN > OUT
ibm-bleu-c
        in: wrapped-output reference-sgm
        out: ibm-bleu-c-score
        default-name: evaluation/ibm-bleu-c
        ignore-unless: ibm-bleu-c
        rerun-on-change: ibm-bleu-c
        template: $ibm-bleu-c -s $input-sgm -r IN1 -t IN > OUT
bolt-bleu
	in: detokenized-output
	out: bolt-bleu-score
	default-name: evaluation/bolt-bleu
	ignore-unless: bolt-bleu
	rerun-on-change: bolt-bleu
	template: $bolt-bleu IN > OUT
bolt-bleu-c
	in: detokenized-output
	out: bolt-bleu-c-score
	default-name: evaluation/bolt-bleu-c
	ignore-unless: bolt-bleu-c
	rerun-on-change: bolt-bleu-c
	template: $bolt-bleu-c IN > OUT
multi-bleu
	in: cleaned-output reference
	out: multi-bleu-score
	default-name: evaluation/multi-bleu
	ignore-unless: multi-bleu
	rerun-on-change: multi-bleu
	template: $multi-bleu IN1 < IN > OUT
multi-bleu-c
	in: recased-output tokenized-reference
	out: multi-bleu-c-score
	default-name: evaluation/multi-bleu-c
	ignore-unless: multi-bleu-c
	rerun-on-change: multi-bleu-c
	template: $multi-bleu-c IN1 < IN > OUT
ter
	in: wrapped-output reference-sgm
	out: ter-score
	default-name: evaluation/detokenized.sgm.TER
	ignore-unless: ter
	rerun-on-change: ter
wer
	in: recased-output reference
	out: wer-score
	default-name: evaluation/wer
	ignore-unless: wer
	rerun-on-change: wer
	template: $wer IN IN1 > OUT
meteor
	in: cleaned-output reference
	out: meteor-score
	default-name: evaluation/meteor
	ignore-unless: meteor
	rerun-on-change: meteor
	template: $meteor IN IN1 $meteor-params > OUT
analysis
	in: recased-output reference input
	out: analysis
	default-name: evaluation/analysis
	ignore-if: report-precision-by-coverage
	ignore-unless: analysis
  rerun-on-change: analyze-search-graph
analysis-coverage
	in: input TRAINING:corpus-mml-postfilter=OR=TRAINING:corpus-mml-prefilter=OR=TRAINING:corpus TRAINING:sigtest-filter-phrase-translation-table
	out: analysis-coverage
	default-name: evaluation/analysis
	ignore-unless: AND analysis analyze-coverage
	rerun-on-change: score-settings
analysis-precision
	in: recased-output reference input TRAINING:corpus-mml-postfilter=OR=TRAINING:corpus-mml-prefilter=OR=TRAINING:corpus TRAINING:sigtest-filter-phrase-translation-table analysis-coverage
	out: analysis
	default-name: evaluation/analysis
	ignore-unless: AND analysis analyze-coverage report-precision-by-coverage
  rerun-on-change: precision-by-coverage-base

[REPORTING] single
report
	in: EVALUATION:nist-bleu-score EVALUATION:nist-bleu-c-score EVALUATION:bolt-bleu-score EVALUATION:bolt-bleu-c-score EVALUATION:multi-bleu-score EVALUATION:multi-bleu-c-score EVALUATION:meteor-score EVALUATION:ter-score EVALUATION:wer-score EVALUATION:ibm-bleu-score EVALUATION:ibm-bleu-c-score EVALUATION:analysis EVALUATION:analysis-coverage EVALUATION:analysis-prec TRAINING:biconcor-model 
	out: report
	default-name: evaluation/report