README.md

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## Token classification

Fine-tuning the library models for token classification task such as Named Entity Recognition (NER) or Parts-of-speech
tagging (POS). The main scrip `run_ner.py` leverages the 🤗 Datasets library and the Trainer API. You can easily
customize it to your needs if you need extra processing on your datasets.

It will either run on a datasets hosted on our [hub](https://huggingface.co/datasets) or with your own text files for
training and validation.

The following example fine-tunes BERT on CoNLL-2003:

```bash
python run_ner.py \
  --model_name_or_path bert-base-uncased \
  --dataset_name conll2003 \
  --output_dir /tmp/test-ner \
  --do_train \
  --do_eval
```

or just can just run the bash script `run.sh`.

To run on your own training and validation files, use the following command:

```bash
python run_ner.py \
  --model_name_or_path bert-base-uncased \
  --train_file path_to_train_file \
  --validation_file path_to_validation_file \
  --output_dir /tmp/test-ner \
  --do_train \
  --do_eval
```

**Note:** This script only works with models that have a fast tokenizer (backed by the 🤗 Tokenizers library) as it
uses special features of those tokenizers. You can check if your favorite model has a fast tokenizer in
[this table](https://huggingface.co/transformers/index.html#bigtable), if it doesn't you can still use the old version
of the script.

## Old version of the script

You can find the old version of the PyTorch script [here](https://github.com/huggingface/transformers/blob/master/examples/contrib/legacy/token-classification/run_ner_old.py).

### TensorFlow version

The following examples are covered in this section:

* NER on the GermEval 2014 (German NER) dataset
* Emerging and Rare Entities task: WNUT’17 (English NER) dataset

Details and results for the fine-tuning provided by @stefan-it.

### GermEval 2014 (German NER) dataset

#### Data (Download and pre-processing steps)

Data can be obtained from the [GermEval 2014](https://sites.google.com/site/germeval2014ner/data) shared task page.

Here are the commands for downloading and pre-processing train, dev and test datasets. The original data format has four (tab-separated) columns, in a pre-processing step only the two relevant columns (token and outer span NER annotation) are extracted:

```bash
curl -L 'https://drive.google.com/uc?export=download&id=1Jjhbal535VVz2ap4v4r_rN1UEHTdLK5P' \
| grep -v "^#" | cut -f 2,3 | tr '\t' ' ' > train.txt.tmp
curl -L 'https://drive.google.com/uc?export=download&id=1ZfRcQThdtAR5PPRjIDtrVP7BtXSCUBbm' \
| grep -v "^#" | cut -f 2,3 | tr '\t' ' ' > dev.txt.tmp
curl -L 'https://drive.google.com/uc?export=download&id=1u9mb7kNJHWQCWyweMDRMuTFoOHOfeBTH' \
| grep -v "^#" | cut -f 2,3 | tr '\t' ' ' > test.txt.tmp
```

The GermEval 2014 dataset contains some strange "control character" tokens like `'\x96', '\u200e', '\x95', '\xad' or '\x80'`.
One problem with these tokens is, that `BertTokenizer` returns an empty token for them, resulting in misaligned `InputExample`s.
The `preprocess.py` script located in the `scripts` folder a) filters these tokens and b) splits longer sentences into smaller ones (once the max. subtoken length is reached).

Let's define some variables that we need for further pre-processing steps and training the model:

```bash
export MAX_LENGTH=128
export BERT_MODEL=bert-base-multilingual-cased
```

Run the pre-processing script on training, dev and test datasets:

```bash
python3 scripts/preprocess.py train.txt.tmp $BERT_MODEL $MAX_LENGTH > train.txt
python3 scripts/preprocess.py dev.txt.tmp $BERT_MODEL $MAX_LENGTH > dev.txt
python3 scripts/preprocess.py test.txt.tmp $BERT_MODEL $MAX_LENGTH > test.txt
```

The GermEval 2014 dataset has much more labels than CoNLL-2002/2003 datasets, so an own set of labels must be used:

```bash
cat train.txt dev.txt test.txt | cut -d " " -f 2 | grep -v "^$"| sort | uniq > labels.txt
```

#### Prepare the run

Additional environment variables must be set:

```bash
export OUTPUT_DIR=germeval-model
export BATCH_SIZE=32
export NUM_EPOCHS=3
export SAVE_STEPS=750
export SEED=1
```

#### Run the Tensorflow 2 version

To start training, just run:

```bash
python3 run_tf_ner.py --data_dir ./ \
--labels ./labels.txt \
--model_name_or_path $BERT_MODEL \
--output_dir $OUTPUT_DIR \
--max_seq_length  $MAX_LENGTH \
--num_train_epochs $NUM_EPOCHS \
--per_device_train_batch_size $BATCH_SIZE \
--save_steps $SAVE_STEPS \
--seed $SEED \
--do_train \
--do_eval \
--do_predict
```

Such as the Pytorch version, if your GPU supports half-precision training, just add the `--fp16` flag. After training, the model will be both evaluated on development and test datasets.

#### Evaluation

Evaluation on development dataset outputs the following for our example:
```bash
           precision    recall  f1-score   support

 LOCderiv     0.7619    0.6154    0.6809        52
  PERpart     0.8724    0.8997    0.8858      4057
  OTHpart     0.9360    0.9466    0.9413       711
  ORGpart     0.7015    0.6989    0.7002       269
  LOCpart     0.7668    0.8488    0.8057       496
      LOC     0.8745    0.9191    0.8963       235
 ORGderiv     0.7723    0.8571    0.8125        91
 OTHderiv     0.4800    0.6667    0.5581        18
      OTH     0.5789    0.6875    0.6286        16
 PERderiv     0.5385    0.3889    0.4516        18
      PER     0.5000    0.5000    0.5000         2
      ORG     0.0000    0.0000    0.0000         3

micro avg     0.8574    0.8862    0.8715      5968
macro avg     0.8575    0.8862    0.8713      5968
```

On the test dataset the following results could be achieved:
```bash
           precision    recall  f1-score   support

  PERpart     0.8847    0.8944    0.8896      9397
  OTHpart     0.9376    0.9353    0.9365      1639
  ORGpart     0.7307    0.7044    0.7173       697
      LOC     0.9133    0.9394    0.9262       561
  LOCpart     0.8058    0.8157    0.8107      1150
      ORG     0.0000    0.0000    0.0000         8
 OTHderiv     0.5882    0.4762    0.5263        42
 PERderiv     0.6571    0.5227    0.5823        44
      OTH     0.4906    0.6667    0.5652        39
 ORGderiv     0.7016    0.7791    0.7383       172
 LOCderiv     0.8256    0.6514    0.7282       109
      PER     0.0000    0.0000    0.0000        11

micro avg     0.8722    0.8774    0.8748     13869
macro avg     0.8712    0.8774    0.8740     13869
```