transformers/docs
Alazar 94306352f4
Port IDEFICS to tensorflow (#26870)
* Initial commit

* Just a copy of modeling_idefics.py that will be ported to TF

* - Prepend TF to the name of all classes
- Convert pytorch ops to TF (not all operations are converted yet)

* Add TF imports

* Add autotranslated files

* Add TF classes to model_tf_auto.py

* Add the TF classes in model_doc

* include auto-translated code

* Adopted from auto-translated version

* Add a forgotten super().build

* Add test code for TF version.

* Fix indentation and load pytorch weights for now

* Some fixes. Many tests are still failing but some are passing now.

- I have added TODO's for some of the hacks I made to unblock me
  and I will address them soon
- I have the processing_idefics.py hacked in my view to support TF temporarily

* Add ALL_LAYERNORM_LAYERS to match pytorch

* Revert "Add ALL_LAYERNORM_LAYERS to match pytorch"

This reverts commit 7e0a35119b4d7a6284d04d8c543fba1b29e573c9 as it
is not needed in the tf implementation.

* Fix freeze_relevant_params()

* Some more fixes

* Fix test_attention_outputs

* Add tf stuff to processing_idefics.py

processing_idefics.py supports both pytorch and tf now.

test_processor_idefics.py for pytorch is passing, so i didn't break anything
but still some issues with tf. I also need to add tf tests in
test_processor_idefics.py.

* Pass return_tensors to image processing code and fix test

* Pass return_tensors to the image processor __init__

* Fix several test cases

- Make input to some of the forward pass of type `TFModelInputType`
- Decorate main layer forward pass with `@unpack_inputs`
- Decorate main layer with `@keras_serializable`
- Pass `inputs` to TFIdeficsModel

* Some more fixes forgotten in last commit

* Fix processing code and vision_tf.py

* Fix perceiver bug

* Import from

* Auto-add build() methods + style pass

* Fix build() errors due to `None` being passed as shape to some layers

* Change name in TFIdeficsForVisionText2Text to attribute in IdeficsForVisionText2Text

* Fix pytorch weights load for tf2

There were a lot of `name=` missing in weight initialization code.

* Attempt to fix CI

* Add back accidently removed line

* Remove torch-specific stuff from the TF test file

* make fix-copies, make style, remove autotranslated files

* Fixes to imports/docstrings

* Let's try the from future import in desperation

* Fix the core random_attention_mask fn to match the torch/flax behaviour

* Clean random_attention_mask up correctly

* Remove torch-only test

* Fix loss shape, couple of nits

* make style

* Don't test for OOB embeddings because IDEFICS uses those deliberately

* Fix loss computation to handle masking

* Fix test failures when flattening

* Fix some test failures

- Add cross attention gate which was missing and wasn't being passed arround
- Fix overwriting of image_attention_mask due to hack I had for dummy inputs

* Add a proper stateless scaled_dot_product_attention

* make style

* Adding missing attribute from the PyTorch version

* Small cleanups to decoupledlinearlayer in case that helps

* Pass epsilon to LayerNormalization

* Attemp to fix pytorch weight cross-loading for TFIdeficsEmbedding

* Fix a bug in TFIdeficsGatedCrossAttentionLayer

* Patching up build() methods

* Constant self.inv_freq

* Constant self.inv_freq

* First working version

The TF implementation works now, there was a bug in the TFIdeficsDecoupledLinear
where the weights were mis-intialized (in_features,out_features)
when it should be: (out_features, in_features)

I have tested this so far with tiny-random and idefics-9b-instruct
and gives correct output.

I also dumped the final outputs for both pytorch and TF
and they are identical.

* Fix some test failures

* remove print statement

* Fix return_tensors

* Fix CI test failure check_code_quality

* Attempt to fix CI failures by running `make fixup`

The hardcoded IDs in test_modeling_tf_idefics.py are for the integration
test and makes that file unreadable and should probably be moved to a seperate file.

* Attempt to fix tests_pr_documentation_tests

* Fix a test failure in test_image_processing_idefics.py

* Fix test test_pt_tf_model_equivalence

* Fix a few failures

* Tiny fix

* Some minor fixes

* Remove a duplicate test

* Override a few test failures for IDEFICS

- `test_keras_save_load` is passing now
- `test_compile_tf_model` is still failing

* Fix processing_idefics.py after rebase

* Guard import keras with is_tf_available

* fix check code quality

* fix check code quality

* Minor fixes

* Skip test_save_load temporarily

This test passed on my local box but fails on the CI, skipping
for now to see if there are other remaining failures on the CI.

* Run `ruff format tests src utils`

* Fix last failing test, `test_compile_tf_model`

* Add fixes for vision_tf.py

I forgot to add this file in last commit.

* Minor fixes

* Replace "<<<" with "<<" for doc tests

IDEFICS-9B is too big for doctest runner, so don't run it there

* Make code more readable

* Fix bug after code review

I added a layer_norm_eps to IdeficsConfig but I don't even need it
since the vision config has a layer_norm_eps.

* Fix after code review

Use original code tokenizer.convert_tokens_to_ids

* Keep PyTorch as the default return_tensors

* Fixes to modeling_tf after code review

* Fixes from code review

- Remove all references of `TF_IDEFICS_PRETRAINED_MODEL_ARCHIVE_LIST`
- Pass 1e-5 to LayerNormalization in perceiver

* Run ruff

* Undo a change

* Refactor processing code after Matt's suggestion

* Remove TODO's that aren't needed anymore

* For pytorch, Use original pytorch processing code from main

Since this PR is a TF port it shouldn't make any modifications
to pytorch IDEFICS code. This changes undo's the pytorch processing
modifications I made and uses original code from main.

* Update tests/models/idefics/test_modeling_idefics.py

* Update tests/models/idefics/test_modeling_tf_idefics.py

* Add missing imports for is_pt_tf_cross_test

* [DO NOT MERGE]: This is a commit for debugging and will be reverted

The cross test `test_pt_tf_model_equivalence` passes locally but
fails when running on the CI. This commit is to help debug that
and will be reverted.

* Revert "[DO NOT MERGE]: This is a commit for debugging and will be reverted"

This reverts commit 8f0d709ec5bd46685fb0b4259d914ffee794875b.

* [DO NOT MERGE]: This commit is for debugging a CI failure and will be reverted

* [DO NOT MERGE]: This commit is for debugging a CI failure and will be reverted

* Revert "[DO NOT MERGE]: This commit is for debugging a CI failure and will be reverted"

This reverts commit 998cc38b8c3d313bf5e5eb55a7f5b7b881897b89.

* Revert "[DO NOT MERGE]: This commit is for debugging a CI failure and will be reverted"

This reverts commit 1c695ac4219c4ae4d39b330b01744dc27deb7dd4.

* Don't skip test_save_load

IIRC test_save_load was also failing on the CI but not on my local
box, it might be easier to debug that on the CI first than the cross tests

* Debugging commit, will be reverted

* Revert "Debugging commit, will be reverted"

This reverts commit 8eafc8e41e20c4e95a3a90834f06a6e9f445e2d5.

* Override `test_save_load` and push model to save

Maybe this will help me repro this weird bug

* pass my repo_id

* add endpoint

* Pass a temp (write) token just for this CI

* Undo last few commits, still pushing to hub for model debugging

The issue seems to be with save_pretrained(),  when I looked at the model saved
from the CI test failure it is basically empty and has no weights.
`self.save_weights(..)` seems to be failing in save_pretrained but needs
more debugging

* Add logging to modeling tf utils, will be reverted just for debugging

* Debugging, will revert

* Revert "Debugging, will revert"

This reverts commit 9d0d3075fb7c82d8cde3a5c76bc8f3876c5c55d3.

* Revert "Add logging to modeling tf utils, will be reverted just for debugging"

This reverts commit 774b6b7b1c17b3ce5d7634ade768f2f686cee617.

* Remove `test_save_load`

The CI failures are gone after my latest rebase, no idea why
but I was still saving the model to my hub on HF and the tf_model.h5
file now has everything.

* Run make fix-copies

* Run ruff format tests src utils

* Debugging commit, will be reverted

* Run ruff, also trigger CI run

* Run ruff again

* Undo debugging commit

---------

Co-authored-by: Matt <rocketknight1@gmail.com>
Co-authored-by: Matt <Rocketknight1@users.noreply.github.com>
2024-05-13 15:59:46 +01:00
..
source Port IDEFICS to tensorflow (#26870) 2024-05-13 15:59:46 +01:00
README.md [Docs] Fix placement of tilde character (#28913) 2024-02-07 17:19:39 -08:00
TRANSLATING.md Update list of persons to tag (#25708) 2023-08-24 10:13:30 +02:00

Generating the documentation

To generate the documentation, you first have to build it. Several packages are necessary to build the doc, you can install them with the following command, at the root of the code repository:

pip install -e ".[docs]"

Then you need to install our special tool that builds the documentation:

pip install git+https://github.com/huggingface/doc-builder

NOTE

You only need to generate the documentation to inspect it locally (if you're planning changes and want to check how they look before committing for instance). You don't have to commit the built documentation.


Building the documentation

Once you have setup the doc-builder and additional packages, you can generate the documentation by typing the following command:

doc-builder build transformers docs/source/en/ --build_dir ~/tmp/test-build

You can adapt the --build_dir to set any temporary folder that you prefer. This command will create it and generate the MDX files that will be rendered as the documentation on the main website. You can inspect them in your favorite Markdown editor.

Previewing the documentation

To preview the docs, first install the watchdog module with:

pip install watchdog

Then run the following command:

doc-builder preview {package_name} {path_to_docs}

For example:

doc-builder preview transformers docs/source/en/

The docs will be viewable at http://localhost:3000. You can also preview the docs once you have opened a PR. You will see a bot add a comment to a link where the documentation with your changes lives.


NOTE

The preview command only works with existing doc files. When you add a completely new file, you need to update _toctree.yml & restart preview command (ctrl-c to stop it & call doc-builder preview ... again).


Adding a new element to the navigation bar

Accepted files are Markdown (.md).

Create a file with its extension and put it in the source directory. You can then link it to the toc-tree by putting the filename without the extension in the _toctree.yml file.

Renaming section headers and moving sections

It helps to keep the old links working when renaming the section header and/or moving sections from one document to another. This is because the old links are likely to be used in Issues, Forums, and Social media and it'd make for a much more superior user experience if users reading those months later could still easily navigate to the originally intended information.

Therefore, we simply keep a little map of moved sections at the end of the document where the original section was. The key is to preserve the original anchor.

So if you renamed a section from: "Section A" to "Section B", then you can add at the end of the file:

Sections that were moved:

[ <a href="#section-b">Section A</a><a id="section-a"></a> ]

and of course, if you moved it to another file, then:

Sections that were moved:

[ <a href="../new-file#section-b">Section A</a><a id="section-a"></a> ]

Use the relative style to link to the new file so that the versioned docs continue to work.

For an example of a rich moved section set please see the very end of the Trainer doc.

Writing Documentation - Specification

The huggingface/transformers documentation follows the Google documentation style for docstrings, although we can write them directly in Markdown.

Adding a new tutorial

Adding a new tutorial or section is done in two steps:

  • Add a new file under ./source. This file can either be ReStructuredText (.rst) or Markdown (.md).
  • Link that file in ./source/_toctree.yml on the correct toc-tree.

Make sure to put your new file under the proper section. It's unlikely to go in the first section (Get Started), so depending on the intended targets (beginners, more advanced users, or researchers) it should go in sections two, three, or four.

Translating

When translating, refer to the guide at ./TRANSLATING.md.

Adding a new model

When adding a new model:

  • Create a file xxx.md or under ./source/model_doc (don't hesitate to copy an existing file as template).
  • Link that file in ./source/_toctree.yml.
  • Write a short overview of the model:
    • Overview with paper & authors
    • Paper abstract
    • Tips and tricks and how to use it best
  • Add the classes that should be linked in the model. This generally includes the configuration, the tokenizer, and every model of that class (the base model, alongside models with additional heads), both in PyTorch and TensorFlow. The order is generally:
    • Configuration
    • Tokenizer
    • PyTorch base model
    • PyTorch head models
    • TensorFlow base model
    • TensorFlow head models
    • Flax base model
    • Flax head models

These classes should be added using our Markdown syntax. Usually as follows:

## XXXConfig

[[autodoc]] XXXConfig

This will include every public method of the configuration that is documented. If for some reason you wish for a method not to be displayed in the documentation, you can do so by specifying which methods should be in the docs:

## XXXTokenizer

[[autodoc]] XXXTokenizer
    - build_inputs_with_special_tokens
    - get_special_tokens_mask
    - create_token_type_ids_from_sequences
    - save_vocabulary

If you just want to add a method that is not documented (for instance magic methods like __call__ are not documented by default) you can put the list of methods to add in a list that contains all:

## XXXTokenizer

[[autodoc]] XXXTokenizer
    - all
    - __call__

Writing source documentation

Values that should be put in code should either be surrounded by backticks: `like so`. Note that argument names and objects like True, None, or any strings should usually be put in code.

When mentioning a class, function, or method, it is recommended to use our syntax for internal links so that our tool adds a link to its documentation with this syntax: [`XXXClass`] or [`function`]. This requires the class or function to be in the main package.

If you want to create a link to some internal class or function, you need to provide its path. For instance: [`utils.ModelOutput`]. This will be converted into a link with utils.ModelOutput in the description. To get rid of the path and only keep the name of the object you are linking to in the description, add a ~: [`~utils.ModelOutput`] will generate a link with ModelOutput in the description.

The same works for methods so you can either use [`XXXClass.method`] or [`~XXXClass.method`].

Defining arguments in a method

Arguments should be defined with the Args: (or Arguments: or Parameters:) prefix, followed by a line return and an indentation. The argument should be followed by its type, with its shape if it is a tensor, a colon, and its description:

    Args:
        n_layers (`int`): The number of layers of the model.

If the description is too long to fit in one line, another indentation is necessary before writing the description after the argument.

Here's an example showcasing everything so far:

    Args:
        input_ids (`torch.LongTensor` of shape `(batch_size, sequence_length)`):
            Indices of input sequence tokens in the vocabulary.

            Indices can be obtained using [`AlbertTokenizer`]. See [`~PreTrainedTokenizer.encode`] and
            [`~PreTrainedTokenizer.__call__`] for details.

            [What are input IDs?](../glossary#input-ids)

For optional arguments or arguments with defaults we follow the following syntax: imagine we have a function with the following signature:

def my_function(x: str = None, a: float = 1):

then its documentation should look like this:

    Args:
        x (`str`, *optional*):
            This argument controls ...
        a (`float`, *optional*, defaults to 1):
            This argument is used to ...

Note that we always omit the "defaults to `None`" when None is the default for any argument. Also note that even if the first line describing your argument type and its default gets long, you can't break it on several lines. You can however, write as many lines as you want in the indented description (see the example above with input_ids).

Writing a multi-line code block

Multi-line code blocks can be useful for displaying examples. They are done between two lines of three backticks as usual in Markdown:

```
# first line of code
# second line
# etc
```

We follow the doctest syntax for the examples to automatically test the results to stay consistent with the library.

Writing a return block

The return block should be introduced with the Returns: prefix, followed by a line return and an indentation. The first line should be the type of the return, followed by a line return. No need to indent further for the elements building the return.

Here's an example of a single value return:

    Returns:
        `List[int]`: A list of integers in the range [0, 1] --- 1 for a special token, 0 for a sequence token.

Here's an example of a tuple return, comprising several objects:

    Returns:
        `tuple(torch.FloatTensor)` comprising various elements depending on the configuration ([`BertConfig`]) and inputs:
        - ** loss** (*optional*, returned when `masked_lm_labels` is provided) `torch.FloatTensor` of shape `(1,)` --
          Total loss is the sum of the masked language modeling loss and the next sequence prediction (classification) loss.
        - **prediction_scores** (`torch.FloatTensor` of shape `(batch_size, sequence_length, config.vocab_size)`) --
          Prediction scores of the language modeling head (scores for each vocabulary token before SoftMax).

Adding an image

Due to the rapidly growing repository, it is important to make sure that no files that would significantly weigh down the repository are added. This includes images, videos, and other non-text files. We prefer to leverage a hf.co hosted dataset like the ones hosted on hf-internal-testing in which to place these files and reference them by URL. We recommend putting them in the following dataset: huggingface/documentation-images. If an external contribution, feel free to add the images to your PR and ask a Hugging Face member to migrate your images to this dataset.

Styling the docstring

We have an automatic script running with the make style comment that will make sure that:

  • the docstrings fully take advantage of the line width
  • all code examples are formatted using black, like the code of the Transformers library

This script may have some weird failures if you made a syntax mistake or if you uncover a bug. Therefore, it's recommended to commit your changes before running make style, so you can revert the changes done by that script easily.

Testing documentation examples

Good documentation often comes with an example of how a specific function or class should be used. Each model class should contain at least one example showcasing how to use this model class in inference. E.g. the class Wav2Vec2ForCTC includes an example of how to transcribe speech to text in the docstring of its forward function.

Writing documentation examples

The syntax for Example docstrings can look as follows:

    Example:

    ```python
    >>> from transformers import Wav2Vec2Processor, Wav2Vec2ForCTC
    >>> from datasets import load_dataset
    >>> import torch

    >>> dataset = load_dataset("hf-internal-testing/librispeech_asr_demo", "clean", split="validation")
    >>> dataset = dataset.sort("id")
    >>> sampling_rate = dataset.features["audio"].sampling_rate

    >>> processor = Wav2Vec2Processor.from_pretrained("facebook/wav2vec2-base-960h")
    >>> model = Wav2Vec2ForCTC.from_pretrained("facebook/wav2vec2-base-960h")

    >>> # audio file is decoded on the fly
    >>> inputs = processor(dataset[0]["audio"]["array"], sampling_rate=sampling_rate, return_tensors="pt")
    >>> with torch.no_grad():
    ...     logits = model(**inputs).logits
    >>> predicted_ids = torch.argmax(logits, dim=-1)

    >>> # transcribe speech
    >>> transcription = processor.batch_decode(predicted_ids)
    >>> transcription[0]
    'MISTER QUILTER IS THE APOSTLE OF THE MIDDLE CLASSES AND WE ARE GLAD TO WELCOME HIS GOSPEL'
    ```

The docstring should give a minimal, clear example of how the respective model is to be used in inference and also include the expected (ideally sensible) output. Often, readers will try out the example before even going through the function or class definitions. Therefore, it is of utmost importance that the example works as expected.

Docstring testing

To do so each example should be included in the doctests. We use pytests' doctest integration to verify that all of our examples run correctly. For Transformers, the doctests are run on a daily basis via GitHub Actions as can be seen here.

For Python files

Run all the tests in the docstrings of a given file with the following command, here is how we test the modeling file of Wav2Vec2 for instance:

pytest --doctest-modules src/transformers/models/wav2vec2/modeling_wav2vec2.py -sv --doctest-continue-on-failure

If you want to isolate a specific docstring, just add :: after the file name then type the whole path of the function/class/method whose docstring you want to test. For instance, here is how to just test the forward method of Wav2Vec2ForCTC:

pytest --doctest-modules src/transformers/models/wav2vec2/modeling_wav2vec2.py::transformers.models.wav2vec2.modeling_wav2vec2.Wav2Vec2ForCTC.forward -sv --doctest-continue-on-failure

For Markdown files

You can test locally a given file with this command (here testing the quicktour):

pytest --doctest-modules docs/source/quicktour.md -sv --doctest-continue-on-failure --doctest-glob="*.md"

Writing doctests

Here are a few tips to help you debug the doctests and make them pass:

  • The outputs of the code need to match the expected output exactly, so make sure you have the same outputs. In particular doctest will see a difference between single quotes and double quotes, or a missing parenthesis. The only exceptions to that rule are:
    • whitespace: one give whitespace (space, tabulation, new line) is equivalent to any number of whitespace, so you can add new lines where there are spaces to make your output more readable.
    • numerical values: you should never put more than 4 or 5 digits to expected results as different setups or library versions might get you slightly different results. doctest is configured to ignore any difference lower than the precision to which you wrote (so 1e-4 if you write 4 digits).
  • Don't leave a block of code that is very long to execute. If you can't make it fast, you can either not use the doctest syntax on it (so that it's ignored), or if you want to use the doctest syntax to show the results, you can add a comment # doctest: +SKIP at the end of the lines of code too long to execute
  • Each line of code that produces a result needs to have that result written below. You can ignore an output if you don't want to show it in your code example by adding a comment # doctest: +IGNORE_RESULT at the end of the line of code producing it.