Update spaCy pipeline

.gitattributes

@@ -33,3 +33,5 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.zip filter=lfs diff=lfs merge=lfs -text
 *.zst filter=lfs diff=lfs merge=lfs -text
 *tfevents* filter=lfs diff=lfs merge=lfs -text
+es_neg_uncert_ehr_ner-any-py3-none-any.whl filter=lfs diff=lfs merge=lfs -text
+transformer/model filter=lfs diff=lfs merge=lfs -text

README.md

@@ -0,0 +1,57 @@
+---
+tags:
+- spacy
+- token-classification
+language:
+- es
+license: mit
+model-index:
+- name: es_neg_uncert_ehr_ner
+  results:
+  - task:
+      name: NER
+      type: token-classification
+    metrics:
+    - name: NER Precision
+      type: precision
+      value: 0.8964797136
+    - name: NER Recall
+      type: recall
+      value: 0.8997005988
+    - name: NER F Score
+      type: f_score
+      value: 0.8980872684
+---
+| Feature | Description |
+| --- | --- |
+| **Name** | `es_neg_uncert_ehr_ner` |
+| **Version** | `0.0.0` |
+| **spaCy** | `>=3.7.2,<3.8.0` |
+| **Default Pipeline** | `transformer`, `ner` |
+| **Components** | `transformer`, `ner` |
+| **Vectors** | 0 keys, 0 unique vectors (0 dimensions) |
+| **Sources** | n/a |
+| **License** | `mit` |
+| **Author** | [Álvaro García Barragán](Alvaro8gb/NegUncertaintyNER) |
+
+### Label Scheme
+
+<details>
+
+<summary>View label scheme (4 labels for 1 components)</summary>
+
+| Component | Labels |
+| --- | --- |
+| **`ner`** | `NEG`, `NSCO`, `UNC`, `USCO` |
+
+</details>
+
+### Accuracy
+
+| Type | Score |
+| --- | --- |
+| `ENTS_F` | 89.81 |
+| `ENTS_P` | 89.65 |
+| `ENTS_R` | 89.97 |
+| `TRANSFORMER_LOSS` | 34598.52 |
+| `NER_LOSS` | 35036.89 |

config.cfg

@@ -0,0 +1,149 @@
+[paths]
+train = ""
+dev = ""
+vectors = null
+init_tok2vec = null
+
+[system]
+gpu_allocator = "pytorch"
+seed = 0
+
+[nlp]
+lang = "es"
+pipeline = ["transformer","ner"]
+batch_size = 128
+disabled = []
+before_creation = null
+after_creation = null
+after_pipeline_creation = null
+tokenizer = {"@tokenizers":"spacy.Tokenizer.v1"}
+vectors = {"@vectors":"spacy.Vectors.v1"}
+
+[components]
+
+[components.ner]
+factory = "ner"
+incorrect_spans_key = null
+moves = null
+scorer = {"@scorers":"spacy.ner_scorer.v1"}
+update_with_oracle_cut_size = 100
+
+[components.ner.model]
+@architectures = "spacy.TransitionBasedParser.v2"
+state_type = "ner"
+extra_state_tokens = false
+hidden_width = 64
+maxout_pieces = 2
+use_upper = false
+nO = null
+
+[components.ner.model.tok2vec]
+@architectures = "spacy-transformers.TransformerListener.v1"
+grad_factor = 1.0
+pooling = {"@layers":"reduce_mean.v1"}
+upstream = "*"
+
+[components.transformer]
+factory = "transformer"
+max_batch_items = 4096
+set_extra_annotations = {"@annotation_setters":"spacy-transformers.null_annotation_setter.v1"}
+
+[components.transformer.model]
+@architectures = "spacy-transformers.TransformerModel.v3"
+name = "bert-base-multilingual-cased"
+mixed_precision = false
+
+[components.transformer.model.get_spans]
+@span_getters = "spacy-transformers.strided_spans.v1"
+window = 128
+stride = 96
+
+[components.transformer.model.grad_scaler_config]
+
+[components.transformer.model.tokenizer_config]
+use_fast = true
+
+[components.transformer.model.transformer_config]
+
+[corpora]
+
+[corpora.dev]
+@readers = "spacy.Corpus.v1"
+path = ${paths.dev}
+max_length = 0
+gold_preproc = false
+limit = 0
+augmenter = null
+
+[corpora.train]
+@readers = "spacy.Corpus.v1"
+path = ${paths.train}
+max_length = 0
+gold_preproc = false
+limit = 0
+augmenter = null
+
+[training]
+accumulate_gradient = 3
+dev_corpus = "corpora.dev"
+train_corpus = "corpora.train"
+seed = ${system.seed}
+gpu_allocator = ${system.gpu_allocator}
+dropout = 0.1
+patience = 1600
+max_epochs = 0
+max_steps = 20000
+eval_frequency = 200
+frozen_components = []
+annotating_components = []
+before_to_disk = null
+before_update = null
+
+[training.batcher]
+@batchers = "spacy.batch_by_padded.v1"
+discard_oversize = true
+size = 2000
+buffer = 256
+get_length = null
+
+[training.logger]
+@loggers = "spacy.ConsoleLogger.v1"
+progress_bar = false
+
+[training.optimizer]
+@optimizers = "Adam.v1"
+beta1 = 0.9
+beta2 = 0.999
+L2_is_weight_decay = true
+L2 = 0.01
+grad_clip = 1.0
+use_averages = false
+eps = 0.00000001
+
+[training.optimizer.learn_rate]
+@schedules = "warmup_linear.v1"
+warmup_steps = 250
+total_steps = 20000
+initial_rate = 0.00005
+
+[training.score_weights]
+ents_f = 1.0
+ents_p = 0.0
+ents_r = 0.0
+ents_per_type = null
+
+[pretraining]
+
+[initialize]
+vectors = ${paths.vectors}
+init_tok2vec = ${paths.init_tok2vec}
+vocab_data = null
+lookups = null
+before_init = null
+after_init = null
+
+[initialize.components]
+
+[initialize.components.ner]
+
+[initialize.tokenizer]

es_neg_uncert_ehr_ner-any-py3-none-any.whl

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:f1fdf6b3154a16ac1f5bc482dabc9d3824c59632135c19d41b32e718c298e1ad
+size 662043245

meta.json

@@ -0,0 +1,72 @@
+{
+  "lang":"es",
+  "name":"neg_uncert_ehr_ner",
+  "version":"0.0.0",
+  "description":"",
+  "author":"\u00c1lvaro Garc\u00eda Barrag\u00e1n",
+  "email":"alvaro8gb@gmail.com",
+  "url":"Alvaro8gb/NegUncertaintyNER",
+  "license":"mit",
+  "spacy_version":">=3.7.2,<3.8.0",
+  "spacy_git_version":"a89eae928",
+  "vectors":{
+    "width":0,
+    "vectors":0,
+    "keys":0,
+    "name":null
+  },
+  "labels":{
+    "transformer":[
+
+    ],
+    "ner":[
+      "NEG",
+      "NSCO",
+      "UNC",
+      "USCO"
+    ]
+  },
+  "pipeline":[
+    "transformer",
+    "ner"
+  ],
+  "components":[
+    "transformer",
+    "ner"
+  ],
+  "disabled":[
+
+  ],
+  "performance":{
+    "ents_f":0.8980872684,
+    "ents_p":0.8964797136,
+    "ents_r":0.8997005988,
+    "ents_per_type":{
+      "NEG":{
+        "p":0.9592857143,
+        "r":0.9760174419,
+        "f":0.9675792507
+      },
+      "NSCO":{
+        "p":0.8782608696,
+        "r":0.8845541401,
+        "f":0.8813962713
+      },
+      "UNC":{
+        "p":0.8703170029,
+        "r":0.8603988604,
+        "f":0.8653295129
+      },
+      "USCO":{
+        "p":0.7323529412,
+        "r":0.6974789916,
+        "f":0.7144906743
+      }
+    },
+    "transformer_loss":345.985210621,
+    "ner_loss":350.368920027
+  },
+  "requirements":[
+    "spacy-transformers>=1.3.5,<1.4.0"
+  ]
+}

ner/cfg

@@ -0,0 +1,13 @@
+{
+  "moves":null,
+  "update_with_oracle_cut_size":100,
+  "multitasks":[
+
+  ],
+  "min_action_freq":1,
+  "learn_tokens":false,
+  "beam_width":1,
+  "beam_density":0.0,
+  "beam_update_prob":0.0,
+  "incorrect_spans_key":null
+}

ner/moves

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+��moves��{"0":{},"1":{"NSCO":28659,"USCO":10967,"NEG":8636,"UNC":3071},"2":{"NSCO":28659,"USCO":10967,"NEG":8636,"UNC":3071},"3":{"NSCO":28659,"USCO":10967,"NEG":8636,"UNC":3071},"4":{"NSCO":28659,"USCO":10967,"NEG":8636,"UNC":3071,"":1},"5":{"":1}}�cfg��neg_key�

tokenizer

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