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Matt 7f9b7b3f0e Add ESMFold (#19977) 
* initial commit

* First draft that gets outputs without crashing!

* Add all the ported openfold dependencies

* testing

* Restructure config files for ESMFold

* Debugging to find output discrepancies

* Mainly style

* Make model runnable without extra deps

* Remove utils and merge them to the modeling file

* Use correct gelu and remove some debug prints

* More cleanup

* Update esm docs

* Update conversion script to support ESMFold properly

* Port some top-level changes from ESMFold repo

* Expand EsmFold docstrings

* Make attention_mask optional (default to all 1s)

* Add inference test for ESMFold

* Use config and not n kwargs

* Add modeling output class

* Remove einops

* Remove chunking in ESM FFN

* Update tests for ESMFold

* Quality

* REpo consistency

* Remove tree dependency from ESMFold

* make fixup

* Add an error in case my structure map function breaks later

* Remove needless code

* Stop auto-casting the LM to float16 so CPU tests pass

* Stop auto-casting the LM to float16 so CPU tests pass

* Final test updates

* Split test file

* Copyright and quality

* Unpin PyTorch to see built doc

* Fix config file to_dict() method

* Add some docstrings to the output

* Skip TF checkpoint tests for ESM until we reupload those

* make fixup

* More docstrings

* Unpin to get even with main

* Flag example to write

Co-authored-by: Sylvain Gugger <Sylvain.gugger@gmail.com>
2022-10-31 21:32:58 -04:00
..
albert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
auto
Throw an error if getattribute_from_module can't find anything (#19535)
2022-10-12 20:09:45 +02:00
bart
TF: TF 2.10 unpin + related onnx test skips (#18995)
2022-09-12 19:30:27 +01:00
barthez
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
bartpho
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
beit
Clean up deprecation warnings (#19654)
2022-10-18 13:34:47 -04:00
bert
Allow usage of TF Text BertTokenizer on TFBertTokenizer to make it servable on TF Serving (#19590)
2022-10-14 15:18:02 +01:00
bert_generation
Black preview (#17217)
2022-05-12 16:25:55 -04:00
bert_japanese
Add sentencepiece to BertJapaneseTokenizer (#19769)
2022-10-21 10:04:49 -04:00
bertweet
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
big_bird
wrap forward passes with torch.no_grad() (#19273)
2022-10-04 16:13:22 +02:00
bigbird_pegasus
Black preview (#17217)
2022-05-12 16:25:55 -04:00
blenderbot
🚨🚨🚨 TF: Remove TFWrappedEmbeddings (breaking: TF embedding initialization updated for encoder-decoder models) (#19263)
2022-10-11 16:48:03 +01:00
blenderbot_small
🚨🚨🚨 TF: Remove TFWrappedEmbeddings (breaking: TF embedding initialization updated for encoder-decoder models) (#19263)
2022-10-11 16:48:03 +01:00
bloom
Skip BloomEmbeddingTest.test_embeddings for PyTorch < 1.10 (#19261)
2022-10-10 10:05:30 +02:00
bort
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
byt5
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
camembert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
canine
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
clip
Update serving code to enable saved_model=True (#18153)
2022-07-22 18:05:38 +01:00
codegen
Update expected values in CodeGen tests (#17888)
2022-07-01 15:33:36 +02:00
conditional_detr
[Conditional, Deformable DETR] Add postprocessing methods (#19709)
2022-10-31 08:28:44 +01:00
convbert
wrap forward passes with torch.no_grad() (#19274)
2022-10-04 16:12:03 +02:00
convnext
FX support for ConvNext, Wav2Vec2 and ResNet (#19053)
2022-09-16 10:57:41 +02:00
cpm
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
ctrl
Fix CTRL tests (#17508)
2022-06-01 16:27:23 +02:00
cvt
[CvT] Tensorflow implementation (#18597)
2022-10-11 18:16:52 +01:00
data2vec
skip some test_multi_gpu_data_parallel_forward (#18188)
2022-07-20 15:54:44 +02:00
deberta
fix train_new_from_iterator in the case of byte-level tokenizers (#17549)
2022-06-08 15:30:41 +02:00
deberta_v2
wrap forward passes with torch.no_grad() (#19278)
2022-10-04 16:09:23 +02:00
decision_transformer
Update expected values in DecisionTransformerModelIntegrationTest (#18016)
2022-07-05 14:53:43 +02:00
deformable_detr
[Conditional, Deformable DETR] Add postprocessing methods (#19709)
2022-10-31 08:28:44 +01:00
deit
wrap forward passes with torch.no_grad() (#19279)
2022-10-04 16:08:29 +02:00
detr
[fix] Add DeformableDetrFeatureExtractor (#19140)
2022-09-22 09:45:24 +02:00
distilbert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
dit
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
donut
remvoe _create_and_check_torch_fx_tracing in specific test files (#18667)
2022-09-07 16:22:09 +02:00
dpr
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
dpt
Add post_process_semantic_segmentation method to DPTFeatureExtractor (#19107)
2022-09-21 15:15:26 +03:00
electra
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
encoder_decoder
Add support for gradient checkpointing (#19990)
2022-10-31 18:37:17 +01:00
ernie
add task_type_id to BERT to support ERNIE-2.0 and ERNIE-3.0 models (#18686)
2022-09-09 07:36:46 -04:00
esm
Add ESMFold (#19977)
2022-10-31 21:32:58 -04:00
flaubert
wrap forward passes with torch.no_grad() (#19412)
2022-10-10 15:04:10 -04:00
flava
Clean up deprecation warnings (#19654)
2022-10-18 13:34:47 -04:00
fnet
wrap forward passes with torch.no_grad() (#19413)
2022-10-10 15:03:46 -04:00
fsmt
Not use -1e4 as attn mask (#17306)
2022-06-20 16:16:16 +02:00
funnel
Update serving code to enable saved_model=True (#18153)
2022-07-22 18:05:38 +01:00
glpn
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
gpt2
Fixing OPT fast tokenizer option. (#18753)
2022-09-15 17:12:58 +02:00
gpt_neo
fix train_new_from_iterator in the case of byte-level tokenizers (#17549)
2022-06-08 15:30:41 +02:00
gpt_neox
skip some gpt_neox tests that require 80G RAM (#17923)
2022-07-01 09:04:38 -04:00
gpt_neox_japanese
Add support for Japanese GPT-NeoX-based model by ABEJA, Inc. (#18814)
2022-09-14 10:17:40 -04:00
gptj
TF: GPT-J compatible with XLA generation (#17986)
2022-07-06 15:02:07 +01:00
groupvit
Fix TFGroupViT CI (#19461)
2022-10-11 14:29:15 +02:00
herbert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
hubert
Fix train_step, test_step and tests for CLIP (#18684)
2022-09-09 20:01:02 +01:00
ibert
fix train_new_from_iterator in the case of byte-level tokenizers (#17549)
2022-06-08 15:30:41 +02:00
imagegpt
wrap forward passes with torch.no_grad() (#19414)
2022-10-10 15:03:24 -04:00
layoutlm
TF: TF 2.10 unpin + related onnx test skips (#18995)
2022-09-12 19:30:27 +01:00
layoutlmv2
add warning to let the user know that the __call__ method is faster than encode + pad for a fast tokenizer (#18693)
2022-08-24 06:27:56 -04:00
layoutlmv3
Fix test_tf_encode_plus_sent_to_model for LayoutLMv3 (#18898)
2022-09-06 14:51:03 +02:00
layoutxlm
LayoutXLMProcessor: ensure 1-to-1 mapping between samples and images, and add test for it (#18774)
2022-08-30 14:43:14 +02:00
led
Update LEDModelIntegrationTests expected values (#19841)
2022-10-24 16:05:26 +02:00
levit
Add skip logic for attentions test - Levit (#17633)
2022-06-10 12:46:30 +02:00
lilt
Add LiLT (#19450)
2022-10-12 10:11:20 +02:00
longformer
Fix tflongformer int dtype (#18907)
2022-09-12 17:51:10 +01:00
longt5
Skip test_export_to_onnx for LongT5 if torch < 1.11 (#19122)
2022-09-20 21:52:18 +02:00
luke
Adding fine-tuning models to LUKE (#18353)
2022-08-01 11:09:47 -04:00
lxmert
Update serving code to enable saved_model=True (#18153)
2022-07-22 18:05:38 +01:00
m2m_100
Add missing lang tokens in M2M100Tokenizer.get_vocab (#18416)
2022-10-25 09:18:24 -04:00
marian
🚨🚨🚨 TF: Remove TFWrappedEmbeddings (breaking: TF embedding initialization updated for encoder-decoder models) (#19263)
2022-10-11 16:48:03 +01:00
markuplm
Add MarkupLM (#19198)
2022-09-30 08:25:43 +02:00
maskformer
Fix image segmentation pipeline errors, resolve backward compatibility issues (#19768)
2022-10-21 18:09:58 +03:00
mbart
🚨🚨🚨 TF: Remove TFWrappedEmbeddings (breaking: TF embedding initialization updated for encoder-decoder models) (#19263)
2022-10-11 16:48:03 +01:00
mbart50
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
mctct
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
megatron_bert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
megatron_gpt2
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
mluke
Black preview (#17217)
2022-05-12 16:25:55 -04:00
mobilebert
Fix train_step, test_step and tests for CLIP (#18684)
2022-09-09 20:01:02 +01:00
mobilevit
Add semantic segmentation post-processing method to MobileViT (#19105)
2022-09-23 16:24:28 +03:00
mpnet
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
mt5
Fix expected loss values in some (m)T5 tests (#18177)
2022-07-18 15:26:21 +02:00
mvp
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
nezha
speed up test (#18106)
2022-07-12 04:28:28 -04:00
nllb
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
nystromformer
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
openai
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
opt
Add OPTForQuestionAnswering (#19402)
2022-10-10 09:30:59 -04:00
owlvit
fix owlvit tests, update docstring examples (#18586)
2022-08-11 19:10:25 +03:00
pegasus
🚨🚨🚨 TF: Remove TFWrappedEmbeddings (breaking: TF embedding initialization updated for encoder-decoder models) (#19263)
2022-10-11 16:48:03 +01:00
pegasus_x
Fix CI for PegasusX (#19025)
2022-09-14 14:45:00 +02:00
perceiver
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
phobert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
plbart
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
poolformer
has_attentions - consistent test skipping logic and tf tests (#17495)
2022-06-09 09:50:03 +02:00
prophetnet
Black preview (#17217)
2022-05-12 16:25:55 -04:00
qdqbert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
rag
Avoid GPU OOM for a TF Rag test (#17638)
2022-06-10 18:50:29 +02:00
realm
Black preview (#17217)
2022-05-12 16:25:55 -04:00
reformer
Black preview (#17217)
2022-05-12 16:25:55 -04:00
regnet
Run tests if skip condition not met (#18764)
2022-08-30 14:03:28 +02:00
rembert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
resnet
FX support for ConvNext, Wav2Vec2 and ResNet (#19053)
2022-09-16 10:57:41 +02:00
retribert
fix retribert's test_torch_encode_plus_sent_to_model (#17231)
2022-05-17 14:33:13 +02:00
roberta
fix train_new_from_iterator in the case of byte-level tokenizers (#17549)
2022-06-08 15:30:41 +02:00
roformer
wrap forward passes with torch.no_grad() (#19438)
2022-10-10 14:54:54 -04:00
segformer
Support segformer fx (#19924)
2022-10-28 08:44:38 -04:00
sew
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
sew_d
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
speech_encoder_decoder
send model to the correct device (#18800)
2022-08-29 18:46:30 +02:00
speech_to_text
remvoe _create_and_check_torch_fx_tracing in specific test files (#18667)
2022-09-07 16:22:09 +02:00
speech_to_text_2
Fx support for multiple model architectures (#17393)
2022-05-31 10:02:55 +02:00
splinter
Fix Splinter test (#17854)
2022-06-24 16:26:14 +02:00
squeezebert
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
swin
remvoe _create_and_check_torch_fx_tracing in specific test files (#18667)
2022-09-07 16:22:09 +02:00
swinv2
Add swin transformer v2 (#17469)
2022-07-27 11:14:47 -04:00
t5
🚨🚨🚨 TF: Remove TFWrappedEmbeddings (breaking: TF embedding initialization updated for encoder-decoder models) (#19263)
2022-10-11 16:48:03 +01:00
table_transformer
Add table transformer [v2] (#19614)
2022-10-18 15:20:09 +02:00
tapas
Fix test_tf_encode_plus_sent_to_model for TAPAS (#19559)
2022-10-14 16:10:36 +02:00
tapex
Replace as_target context managers by direct calls (#18325)
2022-07-29 08:09:09 -04:00
time_series_transformer
Add a decorator for flaky tests (#19498)
2022-10-12 14:00:17 -04:00
trajectory_transformer
Add trajectory transformer (#17141)
2022-05-17 19:07:43 -04:00
transfo_xl
Add magic method to our TF models to convert datasets with column inference (#17160)
2022-06-06 15:53:49 +01:00
trocr
Fx support for multiple model architectures (#17393)
2022-05-31 10:02:55 +02:00
unispeech
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
unispeech_sat
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
van
has_attentions - consistent test skipping logic and tf tests (#17495)
2022-06-09 09:50:03 +02:00
videomae
Use repo_type instead of deprecated datasets repo IDs (#19202)
2022-09-26 09:50:48 -04:00
vilt
[Past CI] Vilt only supports PT >= v1.10 (#19851)
2022-10-25 15:59:35 +02:00
vision_encoder_decoder
PT <-> TF for composite models (#19732)
2022-10-21 12:40:39 +02:00
vision_text_dual_encoder
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
visual_bert
wrap forward passes with torch.no_grad() (#19439)
2022-10-10 14:54:36 -04:00
vit
Improve vision models (#17731)
2022-06-24 11:34:51 +02:00
vit_mae
TF: tests for (de)serializable models with resized tokens (#19013)
2022-09-16 16:38:08 +01:00
vit_msn
Some fixes regarding auto mappings and test class names (#19923)
2022-10-27 14:38:59 +02:00
wav2vec2
Fix bug in Wav2Vec2's GPU tests (#19803)
2022-10-27 09:00:03 -04:00
wav2vec2_conformer
[Test] Fix W2V-Conformer integration test (#17303)
2022-05-17 18:20:36 +02:00
wav2vec2_phoneme
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
wav2vec2_with_lm
Allow user-managed Pool in Wav2Vec2ProcessorWithLM.batch_decode (#18351)
2022-10-18 08:48:03 -04:00
wavlm
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
whisper
Run some TF Whisper tests in subprocesses to avoid GPU OOM (#19772)
2022-10-21 21:59:18 +02:00
x_clip
[X-CLIP] Fix doc tests (#19523)
2022-10-12 17:05:12 +02:00
xglm
XGLM - Fix Softmax NaNs when using FP16 (#18057)
2022-09-29 10:42:07 +02:00
xlm
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
xlm_prophetnet
Black preview (#17217)
2022-05-12 16:25:55 -04:00
xlm_roberta
Black preview (#17217)
2022-05-12 16:25:55 -04:00
xlm_roberta_xl
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00
xlnet
Return scalar losses instead of per-sample means (#18013)
2022-07-04 17:26:19 +01:00
yolos
[fix] Add DeformableDetrFeatureExtractor (#19140)
2022-09-22 09:45:24 +02:00
yoso
fix train_new_from_iterator in the case of byte-level tokenizers (#17549)
2022-06-08 15:30:41 +02:00
__init__.py
Move test model folders (#17034)
2022-05-03 14:42:02 +02:00