transformers/tests/models/biogpt/test_modeling_biogpt.py

# coding=utf-8
# Copyright 2022 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#     http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
""" Testing suite for the PyTorch BioGPT model. """

import math
import unittest

from transformers import BioGptConfig, is_torch_available
from transformers.testing_utils import require_torch, slow, torch_device

from ...generation.test_utils import GenerationTesterMixin
from ...test_configuration_common import ConfigTester
from ...test_modeling_common import ModelTesterMixin, ids_tensor, random_attention_mask
from ...test_pipeline_mixin import PipelineTesterMixin


if is_torch_available():
    import torch

    from transformers import (
        BioGptForCausalLM,
        BioGptForSequenceClassification,
        BioGptForTokenClassification,
        BioGptModel,
        BioGptTokenizer,
    )
    from transformers.models.biogpt.modeling_biogpt import BIOGPT_PRETRAINED_MODEL_ARCHIVE_LIST


class BioGptModelTester:
    def __init__(
        self,
        parent,
        batch_size=13,
        seq_length=7,
        is_training=True,
        use_input_mask=True,
        use_token_type_ids=False,
        use_labels=True,
        vocab_size=99,
        hidden_size=32,
        num_hidden_layers=2,
        num_attention_heads=4,
        intermediate_size=37,
        hidden_act="gelu",
        hidden_dropout_prob=0.1,
        attention_probs_dropout_prob=0.1,
        max_position_embeddings=512,
        type_vocab_size=16,
        type_sequence_label_size=2,
        initializer_range=0.02,
        num_labels=3,
        num_choices=4,
        scope=None,
    ):
        self.parent = parent
        self.batch_size = batch_size
        self.seq_length = seq_length
        self.is_training = is_training
        self.use_input_mask = use_input_mask
        self.use_token_type_ids = use_token_type_ids
        self.use_labels = use_labels
        self.vocab_size = vocab_size
        self.hidden_size = hidden_size
        self.num_hidden_layers = num_hidden_layers
        self.num_attention_heads = num_attention_heads
        self.intermediate_size = intermediate_size
        self.hidden_act = hidden_act
        self.hidden_dropout_prob = hidden_dropout_prob
        self.attention_probs_dropout_prob = attention_probs_dropout_prob
        self.max_position_embeddings = max_position_embeddings
        self.type_vocab_size = type_vocab_size
        self.type_sequence_label_size = type_sequence_label_size
        self.initializer_range = initializer_range
        self.num_labels = num_labels
        self.num_choices = num_choices
        self.scope = scope

    def prepare_config_and_inputs(self):
        input_ids = ids_tensor([self.batch_size, self.seq_length], self.vocab_size)

        input_mask = None
        if self.use_input_mask:
            input_mask = random_attention_mask([self.batch_size, self.seq_length])

        token_type_ids = None
        if self.use_token_type_ids:
            token_type_ids = ids_tensor([self.batch_size, self.seq_length], self.type_vocab_size)

        sequence_labels = None
        token_labels = None
        choice_labels = None
        if self.use_labels:
            sequence_labels = ids_tensor([self.batch_size], self.type_sequence_label_size)
            token_labels = ids_tensor([self.batch_size, self.seq_length], self.num_labels)
            choice_labels = ids_tensor([self.batch_size], self.num_choices)

        config = self.get_config()

        return config, input_ids, token_type_ids, input_mask, sequence_labels, token_labels, choice_labels

    def get_config(self):
        return BioGptConfig(
            vocab_size=self.vocab_size,
            hidden_size=self.hidden_size,
            num_hidden_layers=self.num_hidden_layers,
            num_attention_heads=self.num_attention_heads,
            intermediate_size=self.intermediate_size,
            hidden_act=self.hidden_act,
            hidden_dropout_prob=self.hidden_dropout_prob,
            attention_probs_dropout_prob=self.attention_probs_dropout_prob,
            max_position_embeddings=self.max_position_embeddings,
            type_vocab_size=self.type_vocab_size,
            is_decoder=False,
            initializer_range=self.initializer_range,
        )

    def create_and_check_model(
        self, config, input_ids, token_type_ids, input_mask, sequence_labels, token_labels, choice_labels
    ):
        model = BioGptModel(config=config)
        model.to(torch_device)
        model.eval()
        result = model(input_ids, attention_mask=input_mask)
        result = model(input_ids)
        self.parent.assertEqual(result.last_hidden_state.shape, (self.batch_size, self.seq_length, self.hidden_size))

    def create_and_check_for_causal_lm(
        self,
        config,
        input_ids,
        token_type_ids,
        input_mask,
        sequence_labels,
        token_labels,
        choice_labels,
        encoder_hidden_states,
        encoder_attention_mask,
    ):
        model = BioGptForCausalLM(config=config)
        model.to(torch_device)
        model.eval()
        result = model(input_ids, attention_mask=input_mask, token_type_ids=token_type_ids, labels=token_labels)
        self.parent.assertEqual(result.logits.shape, (self.batch_size, self.seq_length, self.vocab_size))

    def create_and_check_biogpt_model_attention_mask_past(
        self, config, input_ids, input_mask, head_mask, token_type_ids, *args
    ):
        model = BioGptModel(config=config)
        model.to(torch_device)
        model.eval()

        # create attention mask
        attn_mask = torch.ones(input_ids.shape, dtype=torch.long, device=torch_device)
        half_seq_length = self.seq_length // 2
        attn_mask[:, half_seq_length:] = 0

        # first forward pass
        output, past = model(input_ids, attention_mask=attn_mask).to_tuple()

        # create hypothetical next token and extent to next_input_ids
        next_tokens = ids_tensor((self.batch_size, 1), config.vocab_size)

        # change a random masked slice from input_ids
        random_seq_idx_to_change = ids_tensor((1,), half_seq_length).item() + 1
        random_other_next_tokens = ids_tensor((self.batch_size, 1), config.vocab_size).squeeze(-1)
        input_ids[:, -random_seq_idx_to_change] = random_other_next_tokens

        # append to next input_ids and attn_mask
        next_input_ids = torch.cat([input_ids, next_tokens], dim=-1)
        attn_mask = torch.cat(
            [attn_mask, torch.ones((attn_mask.shape[0], 1), dtype=torch.long, device=torch_device)],
            dim=1,
        )

        # get two different outputs
        output_from_no_past = model(next_input_ids, attention_mask=attn_mask)["last_hidden_state"]
        output_from_past = model(next_tokens, past_key_values=past, attention_mask=attn_mask)["last_hidden_state"]

        # select random slice
        random_slice_idx = ids_tensor((1,), output_from_past.shape[-1]).item()
        output_from_no_past_slice = output_from_no_past[:, -1, random_slice_idx].detach()
        output_from_past_slice = output_from_past[:, 0, random_slice_idx].detach()

        # test that outputs are equal for slice
        self.parent.assertTrue(torch.allclose(output_from_past_slice, output_from_no_past_slice, atol=1e-3))

    def create_and_check_biogpt_model_past_large_inputs(
        self, config, input_ids, input_mask, head_mask, token_type_ids, *args
    ):
        model = BioGptModel(config=config).to(torch_device).eval()

        attention_mask = torch.ones(input_ids.shape, dtype=torch.long, device=torch_device)

        # first forward pass
        outputs = model(input_ids, attention_mask=attention_mask, use_cache=True)

        output, past_key_values = outputs.to_tuple()

        # create hypothetical multiple next token and extent to next_input_ids
        next_tokens = ids_tensor((self.batch_size, 3), config.vocab_size)
        next_attn_mask = ids_tensor((self.batch_size, 3), 2)

        # append to next input_ids and
        next_input_ids = torch.cat([input_ids, next_tokens], dim=-1)
        next_attention_mask = torch.cat([attention_mask, next_attn_mask], dim=-1)

        output_from_no_past = model(next_input_ids, attention_mask=next_attention_mask)["last_hidden_state"]
        output_from_past = model(next_tokens, attention_mask=next_attention_mask, past_key_values=past_key_values)[
            "last_hidden_state"
        ]

        # select random slice
        random_slice_idx = ids_tensor((1,), output_from_past.shape[-1]).item()
        output_from_no_past_slice = output_from_no_past[:, -3:, random_slice_idx].detach()
        output_from_past_slice = output_from_past[:, :, random_slice_idx].detach()

        self.parent.assertTrue(output_from_past_slice.shape[1] == next_tokens.shape[1])

        # test that outputs are equal for slice
        self.parent.assertTrue(torch.allclose(output_from_past_slice, output_from_no_past_slice, atol=1e-3))

    def create_and_check_forward_and_backwards(
        self, config, input_ids, input_mask, head_mask, token_type_ids, *args, gradient_checkpointing=False
    ):
        model = BioGptForCausalLM(config)
        model.to(torch_device)
        if gradient_checkpointing:
            model.gradient_checkpointing_enable()

        result = model(input_ids, labels=input_ids)
        self.parent.assertEqual(result.loss.shape, ())
        self.parent.assertEqual(result.logits.shape, (self.batch_size, self.seq_length, self.vocab_size))
        result.loss.backward()

    def create_and_check_biogpt_weight_initialization(self, config, *args):
        model = BioGptModel(config)
        model_std = model.config.initializer_range / math.sqrt(2 * model.config.num_hidden_layers)
        for key in model.state_dict().keys():
            if "c_proj" in key and "weight" in key:
                self.parent.assertLessEqual(abs(torch.std(model.state_dict()[key]) - model_std), 0.001)
                self.parent.assertLessEqual(abs(torch.mean(model.state_dict()[key]) - 0.0), 0.01)

    def create_and_check_biogpt_for_token_classification(
        self, config, input_ids, input_mask, head_mask, token_type_ids, *args
    ):
        config.num_labels = self.num_labels
        model = BioGptForTokenClassification(config)
        model.to(torch_device)
        model.eval()
        result = model(input_ids, attention_mask=input_mask, token_type_ids=token_type_ids)
        self.parent.assertEqual(result.logits.shape, (self.batch_size, self.seq_length, self.num_labels))

    def prepare_config_and_inputs_for_common(self):
        config_and_inputs = self.prepare_config_and_inputs()
        (
            config,
            input_ids,
            token_type_ids,
            input_mask,
            sequence_labels,
            token_labels,
            choice_labels,
        ) = config_and_inputs
        inputs_dict = {"input_ids": input_ids, "attention_mask": input_mask}
        return config, inputs_dict


@require_torch
class BioGptModelTest(ModelTesterMixin, GenerationTesterMixin, PipelineTesterMixin, unittest.TestCase):
    all_model_classes = (
        (BioGptModel, BioGptForCausalLM, BioGptForSequenceClassification, BioGptForTokenClassification)
        if is_torch_available()
        else ()
    )
    all_generative_model_classes = (BioGptForCausalLM,) if is_torch_available() else ()
    pipeline_model_mapping = (
        {
            "feature-extraction": BioGptModel,
            "text-classification": BioGptForSequenceClassification,
            "text-generation": BioGptForCausalLM,
            "token-classification": BioGptForTokenClassification,
            "zero-shot": BioGptForSequenceClassification,
        }
        if is_torch_available()
        else {}
    )
    test_pruning = False

    def setUp(self):
        self.model_tester = BioGptModelTester(self)
        self.config_tester = ConfigTester(self, config_class=BioGptConfig, hidden_size=37)

    def test_config(self):
        self.config_tester.run_common_tests()

    def test_model(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        self.model_tester.create_and_check_model(*config_and_inputs)

    def test_model_various_embeddings(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        for type in ["absolute", "relative_key", "relative_key_query"]:
            config_and_inputs[0].position_embedding_type = type
            self.model_tester.create_and_check_model(*config_and_inputs)

    def test_biogpt_model_att_mask_past(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        self.model_tester.create_and_check_biogpt_model_attention_mask_past(*config_and_inputs)

    def test_biogpt_gradient_checkpointing(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        self.model_tester.create_and_check_forward_and_backwards(*config_and_inputs, gradient_checkpointing=True)

    def test_biogpt_model_past_with_large_inputs(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        self.model_tester.create_and_check_biogpt_model_past_large_inputs(*config_and_inputs)

    def test_biogpt_weight_initialization(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        self.model_tester.create_and_check_biogpt_weight_initialization(*config_and_inputs)

    def test_biogpt_token_classification_model(self):
        config_and_inputs = self.model_tester.prepare_config_and_inputs()
        self.model_tester.create_and_check_biogpt_for_token_classification(*config_and_inputs)

    @slow
    def test_batch_generation(self):
        model = BioGptForCausalLM.from_pretrained("microsoft/biogpt")
        model.to(torch_device)
        tokenizer = BioGptTokenizer.from_pretrained("microsoft/biogpt")

        tokenizer.padding_side = "left"

        # Define PAD Token = EOS Token = 50256
        tokenizer.pad_token = tokenizer.eos_token
        model.config.pad_token_id = model.config.eos_token_id

        # use different length sentences to test batching
        sentences = [
            "Hello, my dog is a little",
            "Today, I",
        ]

        inputs = tokenizer(sentences, return_tensors="pt", padding=True)
        input_ids = inputs["input_ids"].to(torch_device)

        outputs = model.generate(
            input_ids=input_ids,
            attention_mask=inputs["attention_mask"].to(torch_device),
        )

        inputs_non_padded = tokenizer(sentences[0], return_tensors="pt").input_ids.to(torch_device)
        output_non_padded = model.generate(input_ids=inputs_non_padded)

        num_paddings = inputs_non_padded.shape[-1] - inputs["attention_mask"][-1].long().sum().cpu().item()
        inputs_padded = tokenizer(sentences[1], return_tensors="pt").input_ids.to(torch_device)
        output_padded = model.generate(input_ids=inputs_padded, max_length=model.config.max_length - num_paddings)

        batch_out_sentence = tokenizer.batch_decode(outputs, skip_special_tokens=True)
        non_padded_sentence = tokenizer.decode(output_non_padded[0], skip_special_tokens=True)
        padded_sentence = tokenizer.decode(output_padded[0], skip_special_tokens=True)

        expected_output_sentence = [
            "Hello, my dog is a little bit bigger than a little bit.",
            "Today, I have a good idea of how to use the information",
        ]
        self.assertListEqual(expected_output_sentence, batch_out_sentence)
        self.assertListEqual(expected_output_sentence, [non_padded_sentence, padded_sentence])

    @slow
    def test_model_from_pretrained(self):
        for model_name in BIOGPT_PRETRAINED_MODEL_ARCHIVE_LIST[:1]:
            model = BioGptModel.from_pretrained(model_name)
            self.assertIsNotNone(model)

    # Copied from tests.models.opt.test_modeling_opt.OPTModelTest with OPT->BioGpt, prepare_config_and_inputs-> prepare_config_and_inputs_for_common
    def test_biogpt_sequence_classification_model(self):
        config, input_dict = self.model_tester.prepare_config_and_inputs_for_common()
        config.num_labels = 3
        input_ids = input_dict["input_ids"]
        attention_mask = input_ids.ne(1).to(torch_device)
        sequence_labels = ids_tensor([self.model_tester.batch_size], self.model_tester.type_sequence_label_size)
        model = BioGptForSequenceClassification(config)
        model.to(torch_device)
        model.eval()
        result = model(input_ids, attention_mask=attention_mask, labels=sequence_labels)
        self.assertEqual(result.logits.shape, (self.model_tester.batch_size, self.model_tester.num_labels))

    # Copied from tests.models.opt.test_modeling_opt.OPTModelTest with OPT->BioGpt, prepare_config_and_inputs-> prepare_config_and_inputs_for_common
    def test_biogpt_sequence_classification_model_for_multi_label(self):
        config, input_dict = self.model_tester.prepare_config_and_inputs_for_common()
        config.num_labels = 3
        config.problem_type = "multi_label_classification"
        input_ids = input_dict["input_ids"]
        attention_mask = input_ids.ne(1).to(torch_device)
        sequence_labels = ids_tensor(
            [self.model_tester.batch_size, config.num_labels], self.model_tester.type_sequence_label_size
        ).to(torch.float)
        model = BioGptForSequenceClassification(config)
        model.to(torch_device)
        model.eval()
        result = model(input_ids, attention_mask=attention_mask, labels=sequence_labels)
        self.assertEqual(result.logits.shape, (self.model_tester.batch_size, self.model_tester.num_labels))


@require_torch
class BioGptModelIntegrationTest(unittest.TestCase):
    @slow
    def test_inference_lm_head_model(self):
        model = BioGptForCausalLM.from_pretrained("microsoft/biogpt")
        input_ids = torch.tensor([[2, 4805, 9, 656, 21]])
        output = model(input_ids)[0]

        vocab_size = 42384

        expected_shape = torch.Size((1, 5, vocab_size))
        self.assertEqual(output.shape, expected_shape)

        expected_slice = torch.tensor(
            [[[-9.5236, -9.8918, 10.4557], [-11.0469, -9.6423, 8.1022], [-8.8664, -7.8826, 5.5325]]]
        )

        self.assertTrue(torch.allclose(output[:, :3, :3], expected_slice, atol=1e-4))

    @slow
    def test_biogpt_generation(self):
        tokenizer = BioGptTokenizer.from_pretrained("microsoft/biogpt")
        model = BioGptForCausalLM.from_pretrained("microsoft/biogpt")
        model.to(torch_device)

        torch.manual_seed(0)
        tokenized = tokenizer("COVID-19 is", return_tensors="pt").to(torch_device)
        output_ids = model.generate(
            **tokenized,
            min_length=100,
            max_length=1024,
            num_beams=5,
            early_stopping=True,
        )
        output_str = tokenizer.decode(output_ids[0], skip_special_tokens=True)

        EXPECTED_OUTPUT_STR = (
            "COVID-19 is a global pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the"
            " causative agent of coronavirus disease 2019 (COVID-19), which has spread to more than 200 countries and"
            " territories, including the United States (US), Canada, Australia, New Zealand, the United Kingdom (UK),"
            " and the United States of America (USA), as of March 11, 2020, with more than 800,000 confirmed cases and"
            " more than 800,000 deaths."
        )
        self.assertEqual(output_str, EXPECTED_OUTPUT_STR)