* download BERT model

$ ls cased_L-12_H-768_A-12 uncased_L-12_H-768_A-12
cased_L-12_H-768_A-12:
bert_config.json  bert_model.ckpt.data-00000-of-00001  bert_model.ckpt.index  bert_model.ckpt.meta  vocab.txt

uncased_L-12_H-768_A-12:
bert_config.json  bert_model.ckpt.data-00000-of-00001  bert_model.ckpt.index  bert_model.ckpt.meta  vocab.txt

* edit 'bert_model_dir'
* edit 'lowercase=False' for cased BERT model, 'lowercase=True' for uncased.
$ ./train.sh -v -v
$ tensorboard --logdir output/result_dir/ --port 6008

* select the best model among output/result_dir and edit 'output/result_dir/checkpoint' file.
$ ./predict.sh -v -v

$ cat output/result_dir/predicted_results.txt

$ more output/result_dir/pred.txt
...
Nadim NNP B-NP B-PER B-PER
Ladki NNP I-NP I-PER I-PER

AL-AIN NNP B-NP B-LOC B-LOC
, , O O O
United NNP B-NP B-LOC B-LOC
Arab NNP I-NP I-LOC I-LOC
Emirates NNPS I-NP I-LOC I-LOC
1996-12-06 CD I-NP O O
...

$ perl conlleval.pl < output/result_dir/pred.txt
* base, cased
processed 46435 tokens with 5648 phrases; found: 5637 phrases; correct: 5163.
accuracy:  98.30%; precision:  91.59%; recall:  91.41%; FB1:  91.50
              LOC: precision:  93.27%; recall:  92.27%; FB1:  92.77  1650
             MISC: precision:  81.01%; recall:  82.62%; FB1:  81.81  716
              ORG: precision:  89.85%; recall:  90.61%; FB1:  90.23  1675
              PER: precision:  96.43%; recall:  95.18%; FB1:  95.80  1596
processed 46435 tokens with 5648 phrases; found: 5675 phrases; correct: 5183.
accuracy:  98.32%; precision:  91.33%; recall:  91.77%; FB1:  91.55
              LOC: precision:  92.95%; recall:  92.45%; FB1:  92.70  1659
             MISC: precision:  82.50%; recall:  82.62%; FB1:  82.56  703
              ORG: precision:  88.37%; recall:  91.45%; FB1:  89.88  1719
              PER: precision:  96.74%; recall:  95.36%; FB1:  96.04  1594

* large, cased
processed 46435 tokens with 5648 phrases; found: 5663 phrases; correct: 5212.
accuracy:  98.47%; precision:  92.04%; recall:  92.28%; FB1:  92.16
              LOC: precision:  93.18%; recall:  93.35%; FB1:  93.26  1671
             MISC: precision:  83.53%; recall:  82.34%; FB1:  82.93  692
              ORG: precision:  90.57%; recall:  91.39%; FB1:  90.98  1676
              PER: precision:  96.00%; recall:  96.41%; FB1:  96.20  1624

* large, cased, -2 layer
processed 46435 tokens with 5648 phrases; found: 5669 phrases; correct: 5194.
accuracy:  98.34%; precision:  91.62%; recall:  91.96%; FB1:  91.79
              LOC: precision:  94.39%; recall:  91.79%; FB1:  93.07  1622
             MISC: precision:  82.88%; recall:  82.76%; FB1:  82.82  701
              ORG: precision:  87.69%; recall:  92.23%; FB1:  89.91  1747
              PER: precision:  96.94%; recall:  95.86%; FB1:  96.39  1599

1. dev.txt

- BERT

* base, cased
INFO:tensorflow:Saving dict for global step 30000: eval_accuracy = 0.9934853, eval_f = 0.9627948, eval_loss = 1.6617825, eval_precision = 0.9645357, eval_recall = 0.9610601, global_step = 30000, loss = 1.6632456

* large, cased
INFO:tensorflow:Saving dict for global step 31000: eval_accuracy = 0.9936458, eval_f = 0.96526873, eval_loss = 1.6502532, eval_precision = 0.9670967, eval_recall = 0.9634477, global_step = 31000, loss = 1.6502532

- ELMo

[epoch 33/70] dev precision, recall, f1(token):
precision, recall, fscore
[0.9978130380159136, 0.9583333333333334, 0.9263271939328277, 0.9706510138740662, 0.9892224788298691, 0.9701897018970189, 0.9464285714285714, 0.8797653958944281, 0.9323308270676691, 0.959865053513262]
[0.9979755671902268, 0.9433258762117822, 0.9273318872017353, 0.987513572204126, 0.9831675592960979, 0.9744148067501361, 0.9174434087882823, 0.8670520231213873, 0.9649805447470817, 0.9590840404510055]
[0.9978942959852019, 0.9507703870725291, 0.9268292682926829, 0.9790096878363832, 0.9861857252494244, 0.9722976643128735, 0.9317106152805951, 0.8733624454148471, 0.9483747609942639, 0.9594743880458168]
new best f1 score! : 0.9594743880458168
max model saved in file: ./checkpoint/model_max.ckpt


2. test.txt

- BERT

* base, cased
INFO:tensorflow:Saving dict for global step 30000: eval_accuracy = 0.9861725, eval_f = 0.92653006, eval_loss = 3.263393, eval_precision = 0.9218941, eval_recall = 0.931213, global_step = 30000, loss = 3.263018

* large, cased
INFO:tensorflow:Saving dict for global step 31000: eval_accuracy = 0.98725253, eval_f = 0.9329729, eval_loss = 3.080433, eval_precision = 0.9299449, eval_recall = 0.93602073, global_step = 31000, loss = 3.0799496


3. word-based BERT

- model download : https://github.com/dsindex/bert

* base, uncased

model : engwiki.1m-step.uncased_L-12_H-768_A-12
lstm_size : 256

processed 46435 tokens with 5648 phrases; found: 5669 phrases; correct: 4985.
accuracy:  97.45%; precision:  87.93%; recall:  88.26%; FB1:  88.10
              LOC: precision:  90.45%; recall:  91.37%; FB1:  90.90  1685
             MISC: precision:  75.59%; recall:  77.21%; FB1:  76.39  717
              ORG: precision:  85.42%; recall:  83.56%; FB1:  84.48  1625
              PER: precision:  93.24%; recall:  94.68%; FB1:  93.96  1642

  python3 bert_lstm_ner.py   \
                  --task_name="NER"  \ 
                  --do_train=True   \
                  --do_eval=True   \
                  --do_predict=True
                  --data_dir=NERdata   \
                  --vocab_file=checkpoint/vocab.txt  \ 
                  --bert_config_file=checkpoint/bert_config.json \  
                  --init_checkpoint=checkpoint/bert_model.ckpt   \
                  --max_seq_length=128   \
                  --train_batch_size=32   \
                  --learning_rate=2e-5   \
                  --num_train_epochs=3.0   \
                  --output_dir=./output/result_dir/ 

if os.name == 'nt':
   bert_path = '{your BERT model path}'
   root_path = '{project path}'
else:
   bert_path = '{your BERT model path}'
   root_path = '{project path}'