python-cdd 0.0.98

Open API to/fro routes, models, and tests. Convert between docstrings, classes, methods, argparse, and SQLalchemy.

cdd-python

OpenAPI to/fro routes, models, and tests. Convert between docstrings, classes, methods, argparse, and SQLalchemy.

Public SDK works with filenames, source code, and even in memory constructs (e.g., as imported into your REPL).

Features

Type	Parse	Emit	Convert to all other Types
docstrings (betwixt Google, NumPy, ReST formats; and betwixt type annotations and docstring)	✅	✅	✅
classes	✅	✅	✅
functions	✅	✅	✅
argparse CLI generating functions	✅	✅	✅
JSON-schema	✅	✅	✅
SQLalchemy classes	✅	✅	✅
SQLalchemy Tables	✅	✅	✅
pydantic classes	✅	✅	✅

OpenAPI composite

The OpenAPI parser and emitter utilises:

Type	Parse	Emit
Bottle route functions	WiP	WiP
FastAPI route functions	✅	❌
JSON-schema (e.g., from SQLalchemy)	✅	✅

Install package

PyPi

pip install python-cdd

Master

pip install -r https://raw.githubusercontent.com/offscale/cdd-python/master/requirements.txt
pip install https://api.github.com/repos/offscale/cdd-python/zipball#egg=cdd

Goal

Easily create and maintain Database / ORM models and REST APIs out of existing Python SDKs.

For example, this can be used to expose TensorFlow in a REST API and store its parameters in an SQL database.

Relation to other projects

This was created to aid in the ml_params project. It exposes an @abstractclass which is implemented [officially] by more than 8 projects.

Due to the nature of ML frameworks, ml_params' def train(self, <these>) has a potentially large number of arguments. Accumulate the complexity of maintaining interfaces as the underlying release changes (e.g, new version of PyTorch), add in the extra interfaces folks find useful (CLIs, REST APIs, SQL models, &etc.); and you end up needing a team to maintain it.

That's unacceptable. The only existing solutions maintainable by one engineer involve dynamic generation, with no static, editable interfaces available. This means developer tooling becomes useless for debugging, introspection, and documentation.

To break it down, with current tooling there is no way to know:

• What arguments can be provided to train
• What CLI arguments are available
• What 'shape' the Config takes

Some of these problems can be solved dynamically, however in doing so one loses developer-tool insights. There is no code-completion, and likely the CLI parser won't provide you with the enumeration of possibilities.

For migration from Google App Engine, this project builds upon cdd-python for a unidirectional experience: https://github.com/offscale/cdd-python-gae

SDK example (REPL)

To create a class from tf.keras.optimizers.Adam:

>>> from cdd.source_transformer import to_code

>>> import cdd.emit.class_

>>> import cdd.parse.class_

>>> import tensorflow as tf

>>> from typing import Optional

>>> print(to_code(cdd.emit.class_.class_(cdd.parse.class_.class_(
    tf.keras.optimizers.Adam,
    merge_inner_function="__init__"
),
    class_name="AdamConfig")))


class AdamConfig(object):
    """
    Optimizer that implements the Adam algorithm.

    Adam optimization is a stochastic gradient descent method that is based on
    adaptive estimation of first-order and second-order moments.

    According to
    [Kingma et al., 2014](http://arxiv.org/abs/1412.6980),
    the method is "*computationally
    efficient, has little memory requirement, invariant to diagonal rescaling of
    gradients, and is well suited for problems that are large in terms of
    data/parameters*".


    Usage:

    >>> opt = tf.keras.optimizers.Adam(learning_rate=0.1)
    >>> var1 = tf.Variable(10.0)
    >>> loss = lambda: (var1 ** 2)/2.0       # d(loss)/d(var1) == var1
    >>> step_count = opt.minimize(loss, [var1]).numpy()
    >>> # The first step is `-learning_rate*sign(grad)`
    >>> var1.numpy()
    9.9

    Reference:
      - [Kingma et al., 2014](http://arxiv.org/abs/1412.6980)
      - [Reddi et al., 2018](
          https://openreview.net/pdf?id=ryQu7f-RZ) for `amsgrad`.

    Notes:

    The default value of 1e-7 for epsilon might not be a good default in
    general. For example, when training an Inception network on ImageNet a
    current good choice is 1.0 or 0.1. Note that since Adam uses the
    formulation just before Section 2.1 of the Kingma and Ba paper rather than
    the formulation in Algorithm 1, the "epsilon" referred to here is "epsilon
    hat" in the paper.

    The sparse implementation of this algorithm (used when the gradient is an
    IndexedSlices object, typically because of `tf.gather` or an embedding
    lookup in the forward pass) does apply momentum to variable slices even if
    they were not used in the forward pass (meaning they have a gradient equal
    to zero). Momentum decay (beta1) is also applied to the entire momentum
    accumulator. This means that the sparse behavior is equivalent to the dense
    behavior (in contrast to some momentum implementations which ignore momentum
    unless a variable slice was actually used).

    :cvar learning_rate: A `Tensor`, floating point value, or a schedule that is a
        `tf.keras.optimizers.schedules.LearningRateSchedule`, or a callable that takes no arguments and
        returns the actual value to use, The learning rate.
    :cvar beta_1: A float value or a constant float tensor, or a callable that takes no arguments and
        returns the actual value to use. The exponential decay rate for the 1st moment estimates.
    :cvar beta_2: A float value or a constant float tensor, or a callable that takes no arguments and
        returns the actual value to use, The exponential decay rate for the 2nd moment estimates.
    :cvar epsilon: A small constant for numerical stability. This epsilon is "epsilon hat" in the
        Kingma and Ba paper (in the formula just before Section 2.1), not the epsilon in Algorithm 1 of the
        paper.
    :cvar amsgrad: Boolean. Whether to apply AMSGrad variant of this algorithm from the paper "On the
        Convergence of Adam and beyond".
    :cvar name: Optional name for the operations created when applying gradients.
    :cvar kwargs: Keyword arguments. Allowed to be one of `"clipnorm"` or `"clipvalue"`. `"clipnorm"`
        (float) clips gradients by norm; `"clipvalue"` (float) clips gradients by value."""
    learning_rate: float = 0.001
    beta_1: float = 0.9
    beta_2: float = 0.999
    epsilon: float = 1e-07
    amsgrad: bool = False
    name: Optional[str] = 'Adam'
    kwargs: Optional[dict] = None
    _HAS_AGGREGATE_GRAD: bool = True

Approach

Traverse the AST, and emit the modifications, such that each "format" can convert to each other. Type asymmetries are added to the docstrings, e.g., "primary_key" has no equivalent in a regular python func argument, so is added as ":param my_id: [PK] The unique identifier".

The following are the different formats supported, all of which can convert betwixt eachother:

Docstring

Acquire from the official tensorflow_datasets model zoo, or the ophthalmology focussed ml-prepare library

:param dataset_name: name of dataset. Defaults to mnist
:type dataset_name: ```str```

:param tfds_dir: directory to look for models in. Defaults to ~/tensorflow_datasets
:type tfds_dir: ```Optional[str]```

:param K: backend engine, e.g., `np` or `tf`. Defaults to np
:type K: ```Union[np, tf]```

:param as_numpy: Convert to numpy ndarrays
:type as_numpy: ```Optional[bool]```

:param data_loader_kwargs: pass this as arguments to data_loader function
:type data_loader_kwargs: ```**data_loader_kwargs```

:return: Train and tests dataset splits. Defaults to (np.empty(0), np.empty(0))
:rtype: ```Union[Tuple[tf.data.Dataset, tf.data.Dataset], Tuple[np.ndarray, np.ndarray]]```

class

from typing import Optional, Union, Tuple, Literal

import numpy as np
import tensorflow as tf


class TargetClass(object):
    """
    Acquire from the official tensorflow_datasets model zoo, or the ophthalmology focussed ml-prepare library

    :cvar dataset_name: name of dataset. Defaults to mnist
    :cvar tfds_dir: directory to look for models in. Defaults to ~/tensorflow_datasets
    :cvar K: backend engine, e.g., `np` or `tf`. Defaults to np
    :cvar as_numpy: Convert to numpy ndarrays
    :cvar data_loader_kwargs: pass this as arguments to data_loader function
    :cvar return_type: Train and tests dataset splits. Defaults to (np.empty(0), np.empty(0))"""

    dataset_name: str = 'mnist'
    tfds_dir: Optional[str] = '~/tensorflow_datasets'
    K: Literal['np', 'tf'] = 'np'
    as_numpy: Optional[bool] = None
    data_loader_kwargs: dict = {}
    return_type: Union[Tuple[tf.data.Dataset, tf.data.Dataset], Tuple[np.ndarray, np.ndarray]] = (
        np.empty(0),
        np.empty(0),
    )

class method

from typing import Optional, Union, Tuple, Literal

import numpy as np
import tensorflow as tf


class C(object):
    """ C class (mocked!) """

    def method_name(
        self,
        dataset_name: str = 'mnist',
        tfds_dir: Optional[str] = '~/tensorflow_datasets',
        K: Literal['np', 'tf'] = 'np',
        as_numpy: Optional[bool] = None,
        **data_loader_kwargs
    ) -> Union[Tuple[tf.data.Dataset, tf.data.Dataset], Tuple[np.ndarray, np.ndarray]]:
        """
        Acquire from the official tensorflow_datasets model zoo, or the ophthalmology focussed ml-prepare library
    
        :param dataset_name: name of dataset.
    
        :param tfds_dir: directory to look for models in.
    
        :param K: backend engine, e.g., `np` or `tf`.
    
        :param as_numpy: Convert to numpy ndarrays
    
        :param data_loader_kwargs: pass this as arguments to data_loader function
    
        :return: Train and tests dataset splits.
        """
        return np.empty(0), np.empty(0)

Argparse augmenting function

from typing import Union, Tuple
from json import loads

import numpy as np
import tensorflow as tf


def set_cli_args(argument_parser):
    """
    Set CLI arguments

    :param argument_parser: argument parser
    :type argument_parser: ```ArgumentParser```

    :return: argument_parser, Train and tests dataset splits.
    :rtype: ```Tuple[ArgumentParser, Union[Tuple[tf.data.Dataset, tf.data.Dataset], Tuple[np.ndarray, np.ndarray]]]```
    """
    argument_parser.description = (
        'Acquire from the official tensorflow_datasets model zoo, or the ophthalmology focussed ml-prepare library'
    )
    argument_parser.add_argument(
        '--dataset_name', type=str, help='name of dataset.', required=True, default='mnist'
    )
    argument_parser.add_argument(
        '--tfds_dir',
        type=str,
        help='directory to look for models in.',
        default='~/tensorflow_datasets',
    )
    argument_parser.add_argument(
        '--K',
        type=globals().__getitem__,
        choices=('np', 'tf'),
        help='backend engine, expr.g., `np` or `tf`.',
        required=True,
        default='np',
    )
    argument_parser.add_argument('--as_numpy', type=bool, help='Convert to numpy ndarrays')
    argument_parser.add_argument(
        '--data_loader_kwargs', type=loads, help='pass this as arguments to data_loader function'
    )
    return argument_parser, (np.empty(0), np.empty(0))

SQLalchemy

There are two variants in the latest SQLalchemy, both are supported:

from sqlalchemy import JSON, Boolean, Column, Enum, MetaData, String, Table, create_engine

engine = create_engine("sqlite://", echo=True, future=True)
metadata = MetaData()

config_tbl = Table(
    "config_tbl",
    metadata,
    Column(
        "dataset_name",
        String,
        doc="name of dataset",
        default="mnist",
        primary_key=True,
    ),
    Column(
        "tfds_dir",
        String,
        doc="directory to look for models in",
        default="~/tensorflow_datasets",
        nullable=False,
    ),
    Column(
        "K",
        Enum("np", "tf", name="K"),
        doc="backend engine, e.g., `np` or `tf`",
        default="np",
        nullable=False,
    ),
    Column(
        "as_numpy",
        Boolean,
        doc="Convert to numpy ndarrays",
        default=None,
        nullable=True,
    ),
    Column(
        "data_loader_kwargs",
        JSON,
        doc="pass this as arguments to data_loader function",
        default=None,
        nullable=True,
    ),
    comment='Acquire from the official tensorflow_datasets model zoo, or the ophthalmology focussed ml-prepare\n'
            '\n'
            ':return: Train and tests dataset splits. Defaults to (np.empty(0), np.empty(0))\n'
            ':rtype: ```Union[Tuple[tf.data.Dataset, tf.data.Dataset], Tuple[np.ndarray, np.ndarray]]```',
)

metadata.create_all(engine)

from sqlalchemy.orm import declarative_base
from sqlalchemy import JSON, Boolean, Column, Enum, String

Base = declarative_base()


class Config(Base):
    """
    Acquire from the official tensorflow_datasets model zoo, or the ophthalmology focussed ml-prepare
    
    :return: Train and tests dataset splits. Defaults to (np.empty(0), np.empty(0))
    :rtype: ```Union[Tuple[tf.data.Dataset, tf.data.Dataset], Tuple[np.ndarray, np.ndarray]]```
    """
    __tablename__ = "config_tbl"

    dataset_name = Column(
        String,
        doc="name of dataset",
        default="mnist",
        primary_key=True,
    )

    tfds_dir = Column(
        String,
        doc="directory to look for models in",
        default="~/tensorflow_datasets",
        nullable=False,
    )

    K = Column(
        Enum("np", "tf", name="K"),
        doc="backend engine, e.g., `np` or `tf`",
        default="np",
        nullable=False,
    )

    as_numpy = Column(
        Boolean,
        doc="Convert to numpy ndarrays",
        default=None,
        nullable=True,
    )

    data_loader_kwargs = Column(
        JSON,
        doc="pass this as arguments to data_loader function",
        default=None,
        nullable=True,
    )

    def __repr__(self):
        """
        Emit a string representation of the current instance
        
        :return: String representation of instance
        :rtype: ```str```
        """

        return ("Config(dataset_name={dataset_name!r}, tfds_dir={tfds_dir!r}, "
                "K={K!r}, as_numpy={as_numpy!r}, data_loader_kwargs={data_loader_kwargs!r})").format(
            dataset_name=self.dataset_name, tfds_dir=self.tfds_dir, K=self.K,
            as_numpy=self.as_numpy, data_loader_kwargs=self.data_loader_kwargs
        )

Advantages

• CLI gives proper --help messages
• IDE and console gives proper insights to function, and arguments, including on type
• class–based interface opens this up to clean object passing
• Rather than passing around odd ORM class entities, you can use POPO (Plain Old Python Objects) and serialise easily
• @abstractmethod can add—remove, and change—as many arguments as it wants; including required arguments; without worry
• Verbosity of output removes the magic. It's always clear what's going on.
• Outputting regular code means things can be composed and extended as normally.

Disadvantages

• You have to run a tool to synchronise your various formats.
• Duplication (but the tool handles this)

Alternatives

• Slow, manual duplication; or
• Dynamic code generation, e.g., with a singular interface for everything; so everything is in one place without duplication

Minor other use-cases this facilitates

• Switch between having types in the docstring and having the types inline (PEP484–style))
• Switch between docstring formats (to/from {numpy, ReST, google})
• Desktop GUI with wxWidgets, from the argparse layer through Gooey [one liner]

CLI for this project

$ python -m cdd --help

usage: python -m cdd [-h] [--version]
                     {sync_properties,sync,gen,gen_routes,openapi,doctrans,exmod}
                     ...

Open API to/fro routes, models, and tests. Convert between docstrings,
classes, methods, argparse, and SQLalchemy.

positional arguments:
  {sync_properties,sync,gen,gen_routes,openapi,doctrans,exmod}
    sync_properties     Synchronise one or more properties between input and
                        input_str Python files
    sync                Force argparse, classes, and/or methods to be
                        equivalent
    gen                 Generate classes, functions, argparse function,
                        sqlalchemy tables and/or sqlalchemy classes from the
                        input mapping
    gen_routes          Generate per model route(s)
    openapi             Generate OpenAPI schema from specified project(s)
    doctrans            Convert docstring format of all classes and functions
                        within target file
    exmod               Expose module hierarchy->{functions,classes,vars} for
                        parameterisation via {REST API + database,CLI,SDK}

options:
  -h, --help            show this help message and exit
  --version             show program's version number and exit

sync

$ python -m cdd sync --help

usage: python -m cdd sync [-h] [--argparse-function ARGPARSE_FUNCTIONS]
                          [--argparse-function-name ARGPARSE_FUNCTION_NAMES]
                          [--class CLASSES] [--class-name CLASS_NAMES]
                          [--function FUNCTIONS]
                          [--function-name FUNCTION_NAMES] --truth
                          {argparse_function,class,function}

options:
  -h, --help            show this help message and exit
  --argparse-function ARGPARSE_FUNCTIONS
                        File where argparse function is `def`ined.
  --argparse-function-name ARGPARSE_FUNCTION_NAMES
                        Name of argparse function.
  --class CLASSES       File where class `class` is declared.
  --class-name CLASS_NAMES
                        Name of `class`
  --function FUNCTIONS  File where function is `def`ined.
  --function-name FUNCTION_NAMES
                        Name of Function. If method, use Python resolution
                        syntax, i.e., ClassName.function_name
  --truth {argparse_function,class,function}
                        Single source of truth. Others will be generated from
                        this. Will run with first found choice.

sync_properties

$ python -m cdd sync_properties --help

usage: python -m cdd sync_properties [-h] --input-filename INPUT_FILENAME
                                     --input-param INPUT_PARAMS [--input-eval]
                                     --output-filename OUTPUT_FILENAME
                                     --output-param OUTPUT_PARAMS
                                     [--output-param-wrap OUTPUT_PARAM_WRAP]

options:
  -h, --help            show this help message and exit
  --input-filename INPUT_FILENAME
                        File to find `--input-param` from
  --input-param INPUT_PARAMS
                        Location within file of property. Can be top level
                        like `a` for `a=5` or with the `.` syntax as in
                        `--output-param`.
  --input-eval          Whether to evaluate the input-param, or just leave it
  --output-filename OUTPUT_FILENAME
                        Edited in place, the property within this file (to
                        update) is selected by --output-param
  --output-param OUTPUT_PARAMS
                        Parameter to update. E.g., `A.F` for `class A: F`,
                        `f.g` for `def f(g): pass`
  --output-param-wrap OUTPUT_PARAM_WRAP
                        Wrap all input_str params with this. E.g.,
                        `Optional[Union[{output_param}, str]]`

gen

$ python -m cdd gen --help

usage: python -m cdd gen [-h] --name-tpl NAME_TPL --input-mapping
                         INPUT_MAPPING [--prepend PREPEND]
                         [--imports-from-file IMPORTS_FROM_FILE]
                         [--parse {argparse,class,function,sqlalchemy,sqlalchemy_table}]
                         --emit
                         {argparse,class,function,sqlalchemy,sqlalchemy_table}
                         --output-filename OUTPUT_FILENAME [--emit-call]
                         [--decorator DECORATOR_LIST]

optional arguments:
  -h, --help            show this help message and exit
  --name-tpl NAME_TPL   Template for the name, e.g., `{name}Config`.
  --input-mapping INPUT_MAPPING
                        Import location of dictionary/mapping/2-tuple
                        collection.
  --prepend PREPEND     Prepend file with this. Use '\n' for newlines.
  --imports-from-file IMPORTS_FROM_FILE
                        Extract imports from file and append to `output_file`.
                        If module or other symbol path given, resolve file
                        then use it.
  --parse {argparse,class,function,sqlalchemy,sqlalchemy_table}
                        What type the input is.
  --emit {argparse,class,function,sqlalchemy,sqlalchemy_table}
                        What type to generate.
  --output-filename OUTPUT_FILENAME, -o OUTPUT_FILENAME
                        Output file to write to.
  --emit-call           Whether to place all the previous body into a new
                        `__call__` internal function
  --decorator DECORATOR_LIST
                        List of decorators.

PS: If you're outputting JSON-schema and want a file per schema then:

python -c 'import sys,json,os; f=open(sys.argv[1], "rt"); d=json.load(f); f.close(); [(lambda f: json.dump(sc,f) or f.close())(open(os.path.join(os.path.dirname(sys.argv[1]), sc["$id"].rpartition("/")[2]), "wt")) for sc in d["schemas"]]' <path_to_json_file>

gen_routes

$ python -m cdd gen_routes --help

usage: python -m cdd gen_routes [-h] --crud {CRUD,CR,C,R,U,D,CR,CU,CD,CRD}
                                [--app-name APP_NAME] --model-path MODEL_PATH
                                --model-name MODEL_NAME --routes-path
                                ROUTES_PATH [--route ROUTE]

options:
  -h, --help            show this help message and exit
  --crud {CRUD,CR,C,R,U,D,CR,CU,CD,CRD}
                        What of (C)reate, (R)ead, (U)pdate, (D)elete to
                        generate
  --app-name APP_NAME   Name of app (e.g., `app_name = Bottle();
                        @app_name.get('/api') def slash(): pass`)
  --model-path MODEL_PATH
                        Python module resolution (foo.models) or filepath
                        (foo/models)
  --model-name MODEL_NAME
                        Name of model to generate from
  --routes-path ROUTES_PATH
                        Python module resolution 'foo.routes' or filepath
                        'foo/routes'
  --route ROUTE         Name of the route, defaults to
                        `/api/{model_name.lower()}`

openapi

$ python -m cdd openapi --help

usage: python -m cdd openapi [-h] [--app-name APP_NAME] --model-paths
                             MODEL_PATHS --routes-paths
                             [ROUTES_PATHS [ROUTES_PATHS ...]]

optional arguments:
  -h, --help            show this help message and exit
  --app-name APP_NAME   Name of app (e.g., `app_name = Bottle();
                        @app_name.get('/api') def slash(): pass`)
  --model-paths MODEL_PATHS
                        Python module resolution (foo.models) or filepath
                        (foo/models)
  --routes-paths [ROUTES_PATHS [ROUTES_PATHS ...]]
                        Python module resolution 'foo.routes' or filepath
                        'foo/routes'

doctrans

$ python -m cdd doctrans --help

usage: python -m cdd doctrans [-h] --filename FILENAME --format
                              {rest,google,numpydoc}
                              (--type-annotations | --no-type-annotations)

options:
  -h, --help            show this help message and exit
  --filename FILENAME   Python file to convert docstrings within. Edited in
                        place.
  --format {rest,google,numpydoc}
                        The docstring format to replace existing format with.
  --type-annotations    Inline the type, i.e., annotate PEP484 (outside
                        docstring. Requires 3.6+)
  --no-type-annotations
                        Ensure all types are in docstring (rather than a
                        PEP484 type annotation)

exmod

$ python -m cdd exmod --help

usage: python -m cdd exmod [-h] --module MODULE --emit
                           {argparse,class,function,sqlalchemy,sqlalchemy_table}
                           [--blacklist BLACKLIST] [--whitelist WHITELIST]
                           --output-directory OUTPUT_DIRECTORY [--dry-run]

options:
  -h, --help            show this help message and exit
  --module MODULE, -m MODULE
                        The module or fully-qualified name (FQN) to expose.
  --emit {argparse,class,function,sqlalchemy,sqlalchemy_table}
                        What type to generate.
  --blacklist BLACKLIST
                        Modules/FQN to omit. If unspecified will emit all
                        (unless whitelist).
  --whitelist WHITELIST
                        Modules/FQN to emit. If unspecified will emit all
                        (minus blacklist).
  --output-directory OUTPUT_DIRECTORY, -o OUTPUT_DIRECTORY
                        Where to place the generated exposed interfaces to the
                        given `--module`.
  --dry-run             Show what would be created; don't actually write to
                        the filesystem.

---

License

Licensed under either of

• Apache License, Version 2.0 (LICENSE-APACHE or https://apache.org/licenses/LICENSE-2.0)
• MIT license (LICENSE-MIT or https://opensource.org/licenses/MIT)

at your option.

Contribution

Unless you explicitly state otherwise, any contribution intentionally submitted for inclusion in the work by you, as defined in the Apache-2.0 license, shall be dual licensed as above, without any additional terms or conditions.