-
Notifications
You must be signed in to change notification settings - Fork 8
/
Copy pathMakefile
305 lines (251 loc) · 11.2 KB
/
Makefile
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
# jawikify
SHELL := /usr/bin/zsh
#
# execute options
#
NUM_OF_FOLD = 5
PARAM_TRAIN =
#DRY = --dry-run
#
# misc
#
DIR_WORK = work20170118
DIR_LOG = log
DIR_DATA = data
DIR_MODEL = model
BAR = --bar
NUM_OF_PARALLEL = -j 12
PARALLEL_OPTIONS = $(NUM_OF_PARALLEL) $(DRY) $(BAR)
#FILE_ABSTRACTION = $(DIR_DATA)/list.txt
FILE_ABSTRACTION = $(DIR_DATA)/list-Name.txt
FILELIST_TRAIN = GSK_filelist.train
FILELIST_DEV = GSK_filelist.dev
GSK_filelist:
ls /home/work/data/GSK/GSK2014-A/gsk-ene-1.1/bccwj/xml/*/*.xml | shuf > $@
GSK_filelist2:
# not working
ls ./data/gsk-ene-1.1/bccwj/xml/{OC,OW,OY,PB,PM}/*.xml | shuf > $@
GSK_filelist_with_PN200:
ls ./data/gsk-ene-1.1/bccwj/xml/{OC,OW,OY,PB,PM}/*.xml | shuf > $@
ls ./data/gsk-ene-1.1/bccwj/xml/PN/*.xml | head -n 200| shuf >> $@
# 候補生成のためのデータベース作成
data/master06_candidates.json: data/master06_content.json
cat $< | ruby src/create_cg_data.rb $@
# 書庫
# few minutes, in maitai
data/master06_candidates.kct: data/master06_candidates.json
cat $< | ruby src/compile_kb.rb -k mention -t $@
# 3067.94s at maitai
data/master06_content.kch: data/master06_content.json
cat $< | ruby src/compile_kb.rb -k entry -t $@
# 形態素アノテート 180sec
data/master06_content_mecab_annotated.json: data/master06_content.json
ruby src/apply_mecab_kb.rb < $< > $@
data/master06_body_markup.txt:
cp /home/m-suzuki/wikipedia/data/20161101/body_markup.txt $@
data/charanda04.300.kch: data/charanda04.300.gz
zcat $< | ruby src/compile_vec.rb -t $@
data/master06_content_mecab_annotated.kch: data/master06_content_mecab_annotated.json
cat $< | ruby src/compile_kb.rb -k entry -t $@
# 知識ベースから作った IDF データベース
# about: 219.72s
data/master06_content_mecab_annotated.idf.json: data/master06_content_mecab_annotated.json
cat $< | ruby src/calc_idf.rb > $@
# ↑の kch
# 100万エントリ、10秒足らず
data/master06_content_mecab_annotated.idf.kch: data/master06_content_mecab_annotated.idf.json
cat $< | ruby src/compile_kb.rb -k k -t $@
# BoWだけなら 404s
work/kb.json: data/master06_content_mecab_annotated.json
ruby src/feature_extraction_from_kb.rb -t word_ids.tsv < $< > $@
# 9490.56s
work/kb.kch: work/kb.json
cat $< | ruby src/compile_kb.rb -k entry -t $@
# 1982 files => 1500 250 232
#GSK_filelist.train: GSK_filelist
# head -n 1500 $< > $@
#GSK_filelist.dev: GSK_filelist
# head -n 1750 $< | tail -n 250 > $@
#GSK_filelist.test: GSK_filelist
# head -n 1982 $< | tail -n 232 > $@
md_to_json: GSK_filelist
mkdir -p $(DIR_WORK)/json/
touch $(DIR_WORK)/json/a.json
rm -f $(DIR_WORK)/json/*.json
cat $< | /home/matsuda/bin/parallel $(PARALLEL_OPTIONS) "ruby src/md_to_json.rb {} |\
ruby src/apply_mecab.rb | ruby src/annotate_offset.rb > $(DIR_WORK)/json/{/}.json"
# 12並列で 90秒
md_to_json2: GSK_filelist2
mkdir -p $(DIR_WORK)/json/
touch $(DIR_WORK)/json/a.json
rm -f $(DIR_WORK)/json/*.json
cat $< | /home/matsuda/bin/parallel $(PARALLEL_OPTIONS) "ruby src/md_to_json.rb {} |\
ruby src/apply_mecab.rb | ruby src/annotate_offset.rb > $(DIR_WORK)/json/{/}.json"
# 12並列で 90秒
md_to_json_with_PN200: GSK_filelist_with_PN200
mkdir -p $(DIR_WORK)/json/
touch $(DIR_WORK)/json/a.json
rm -f $(DIR_WORK)/json/*.json
cat $< | /home/matsuda/bin/parallel $(PARALLEL_OPTIONS) "ruby src/md_to_json.rb {} |\
ruby src/apply_mecab.rb | ruby src/annotate_offset.rb > $(DIR_WORK)/json/{/}.json"
# 12並列で 90秒
md_feature_extraction:
mkdir -p $(DIR_WORK)/crfsuite/
touch $(DIR_WORK)/crfsuite/a.f
rm -f $(DIR_WORK)/crfsuite/*.f
rm -f $(DIR_LOG)/*.fe.log
ls $(DIR_WORK)/json/*.json | parallel $(PARALLEL_OPTIONS) "cat {} |\
ruby src/md_feature_extraction.rb > $(DIR_WORK)/crfsuite/{/}.f 2> $(DIR_LOG)/{/}.fe.log"
#work/all.ff:
# cat $(DIR_WORK)/crfsuite/*.f | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > $@
# obsolute
work20170113/all.ff:
cat $(DIR_WORK)/crfsuite/*.f | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > $@
# 42s
work20170117/all.ff:
cat $(DIR_WORK)/crfsuite/*.f | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > $@
$(DIR_WORK)/all.ff:
cat $(DIR_WORK)/crfsuite/*.f | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > $@
$(DIR_WORK)/train.ff:
ls $(DIR_WORK)/crfsuite/*.f | shuf > list # 1642
cat list | head -n 1313 | xargs cat > $(DIR_WORK)/train.f
cat $(DIR_WORK)/train.f | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > $@
# cat list | head -n 1642 | parallel "cat {} | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > {.}.ff"
$(DIR_WORK)/test.ff: list
cat list | tail -n 328 | xargs cat > $(DIR_WORK)/test.f
cat $(DIR_WORK)/test.f | ruby src/label_abstraction.rb -h data/list-Name20161220.txt > $@
$(DIR_WORK)/md.model.train: $(DIR_WORK)/train.ff
crfsuite learn -m $@ $< > $(DIR_WORK)/crfsuite.log.train
$(DIR_WORK)/result.conll: $(DIR_WORK)/test.ff
crfsuite tag -r -m $(DIR_WORK)/md.model.train $< > $@
cat $@ | tr '\t' ' ' | perl src/conlleval_detail.pl 2> /dev/null
#[charanda01:~/workspace/jawikify] make models/md.model.e
#crfsuite learn -m models/md.model.e work20170117/all.ff > models/md.log
#-------------------------------------------------------------
# Job Name. :make models/md.model.e
# Elapsed Time. :7457.88s
# (User: 7435.30s, Kernel: 17.70s, CPU Usage: 99%)
#-------------------------------------------------------------
$(DIR_WORK)/md.model: $(DIR_WORK)/all.ff
crfsuite learn -m $@ $< > models/md.log
$(DIR_WORK)/md.model.10: $(DIR_WORK)/all.ff
crfsuite learn -p max_iterations=10 -m $@ $< > models/md.log
models/md.model: $(DIR_WORK)/all.ff
crfsuite learn -m $@ $< > models/md.log
models/cross.log: $(DIR_WORK)/all.ff
crfsuite learn -x -g 5 $< > $@
models/md.model.1000: $(DIR_WORK)/all.ff
crfsuite learn -m $@.1000 -p max_iterations=1000 $< > models/md.log.1000
models/md.model.500: $(DIR_WORK)/all.ff
crfsuite learn -m $@.500 -p max_iterations=500 $< > models/md.log.500
models/md.model.200: $(DIR_WORK)/all.ff
crfsuite learn -m $@.200 -p max_iterations=200 $< > models/md.log.200
MODEL=$(DIR_WORK)/md.model
mention_detection_evaluate:
rm -f results/*.conll
mkdir -p $(DIR_WORK)/result_json/
ls data/jawikify_20160310_release/*wikified.xml | tail -n 139 > md_evaluate_filelist.txt
cat md_evaluate_filelist.txt | parallel $(PARALLEL_OPTIONS) "cat {} |\
ruby src/md_to_json.rb | ruby src/apply_mecab.rb | ruby src/annotate_offset.rb |\
ruby src/md_feature_extraction.rb -t features |\
ruby src/chunker.rb -m $(MODEL) -f features -t chunk |\
ruby src/annotate_gold_chunk.rb -t gold |\
tee $(DIR_WORK)/result_json/{/.}.chunk_annotated.json |\
ruby src/extractor.rb -f gold -t gold_extracted |\
ruby src/extractor.rb -f chunk -t extracted |\
tee $(DIR_WORK)/result_json/{/.}.mention_annotated.json |\
ruby src/evaluate/dump_chunk_result.rb -g gold -p chunk > results/{/.}.conll"
cat results/*.conll | perl src/conlleval_detail.pl
# 87.51s
mention_detection:
mkdir -p $(DIR_WORK)/result_json
ls data/jawikify_20160310_release/*wikified.xml |\
parallel $(PARALLEL_OPTIONS) "cat {} |\
ruby src/md_to_json.rb | ruby src/apply_mecab.rb | ruby src/annotate_offset.rb |\
ruby src/md_feature_extraction.rb -t features |\
ruby src/chunker.rb -m $(MODEL) -f features -t chunk |\
ruby src/annotate_gold_chunk.rb -t gold |\
tee $(DIR_WORK)/result_json/{/.}.chunk_annotated.json |\
ruby src/extractor.rb -f gold -t gold_extracted |\
ruby src/extractor.rb -f chunk -t extracted |\
tee $(DIR_WORK)/result_json/{/.}.mention_annotated.json |\
ruby src/evaluate/dump_chunk_result.rb -g gold -p chunk > results/{/.}.conll"
cat results/*.conll | perl src/conlleval_detail.pl
linker_feature_extraction_preprocess:
ruby rename_files.rb
mkdir -p $(DIR_WORK)/jawikify_aux/
seq 339 |\
parallel $(PARALLEL_OPTIONS) "\
cat data/jawikify_work/{}.xml | ruby src/md_to_json.rb |\
ruby src/apply_mecab.rb | ruby src/annotate_offset.rb |\
ruby src/md_feature_extraction.rb -t features |\
ruby src/chunker.rb -m $(MODEL) -f features -t chunk |\
ruby src/extractor.rb |\
ruby src/annotate_gold_chunk.rb -t gold > $(DIR_WORK)/jawikify_aux/{}.json "
linker_feature_extraction:
mkdir -p $(DIR_WORK)/svm_rank/
seq 339 | head -n |\
parallel $(PARALLEL_OPTIONS) "\
cat $(DIR_WORK)/jawikify_aux/{}.json | ruby src/feature_extraction_for_ranking.rb -q {}000 \
> $(DIR_WORK)/svm_rank/{}.svm"
cat $(DIR_WORK)/svm_rank/<1-200>.svm > train.svm
cat $(DIR_WORK)/svm_rank/<201-339>.svm > test.svm
C=20.0
linker_train:
mkdir -p $(DIR_WORK)/result_rank/
sort -k 2 -n -t ':' train.svm > train.svm.sorted
./svm_rank/svm_rank_learn -c $(C) train.svm.sorted train.model
./svm_rank/svm_rank_classify test.svm train.model result_svm_rank
seq 0.0 0.1 2.0 | parallel "paste result_svm_rank test.svm | ruby src/evaluate/rank_eval.rb {} >$(DIR_WORK)/result_rank/{}.rank"
ruby src/model_preprocess.rb < train.model > models/linker.model
LINKER_MODEL=models/linker.model
linker_test:
mkdir -p $(DIR_WORK)/result/
ls $(DIR_WORK)/result_json/*-wikified.mention_annotated.json |\
parallel $(PARALLEL_OPTIONS) "cat {} |\
ruby src/supervised_linker.rb -m $(LINKER_MODEL) -f gold_extracted -t gold_linked |\
ruby src/supervised_linker.rb -m $(LINKER_MODEL) -f extracted -t linked > $(DIR_WORK)/result/{/.}.json"
linker_test2:
mkdir -p $(DIR_WORK)/result_json_numbered/
mkdir -p $(DIR_WORK)/result_numbered/
ruby rename_files_mention_detected.rb $(DIR_WORK)
seq 339 | tail -n 139 | parallel $(PARALLEL_OPTIONS) "cat $(DIR_WORK)/result_json_numbered/{}.json |\
ruby src/supervised_linker.rb -m $(LINKER_MODEL) -f gold_extracted -t gold_linked |\
ruby src/supervised_linker.rb -m $(LINKER_MODEL) -f extracted -t linked > $(DIR_WORK)/result_numbered/{}.json"
linker_evaluate:
cat $(DIR_WORK)/result/*.json |\
ruby src/evaluate/eval_linked_entities.rb -p linked > $(DIR_WORK)/result/summary
cat $(DIR_WORK)/result/*.json |\
ruby src/evaluate/eval_linked_entities.rb -p gold_linked > $(DIR_WORK)/result/summary.gold
ruby src/evaluate/make_summary.rb < $(DIR_WORK)/result/summary
ruby src/evaluate/make_summary.rb < $(DIR_WORK)/result/summary.gold
linker_evaluate2:
cat $(DIR_WORK)/result_numbered/*.json |\
ruby src/evaluate/eval_linked_entities.rb -p linked > $(DIR_WORK)/result_numbered/summary
cat $(DIR_WORK)/result_numbered/*.json |\
ruby src/evaluate/eval_linked_entities.rb -p gold_linked > $(DIR_WORK)/result_numbered/summary.gold
ruby src/evaluate/make_summary.rb < $(DIR_WORK)/result_numbered/summary
ruby src/evaluate/make_summary.rb < $(DIR_WORK)/result_numbered/summary.gold
html_visualize:
cat test3.txt | bash analyse.sh | ruby src/to_html.rb > ~/public_html/jawikify_proto/index.html
#
# evaluation
#
#
# TODO: ENEコーパスの上での train,dev
# 3 : 1 : 1
# 1642
crf_filelist:
ls $(DIR_WORK)/crfsuite/*.f | shuf > $@
head -n 1313 $@ > $@.train
head -n 328 $@ | tail -n 328 > $@.test
#crf_filelist:
# ls work/crfsuite/*.f | shuf > $@
# head -n 1500 $@ > $@.train
# head -n 1750 $@ | tail -n 250 > $@.dev
# head -n 1982 $@ | tail -n 232 > $@.test
#$(DIR_WORK)/train.ff: crf_filelist.train
# cat $< | parallel --bar "cat {} | ruby src/label_abstraction.rb -h data/list-Name20161220.txt" >> $@
#
#$(DIR_WORK)/test.ff: crf_filelist.test
cat $< | parallel --bar "cat {} | ruby src/label_abstraction.rb -h data/list-Name20161220.txt" >> $@