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flax-speech = ["kenlm", "librosa", "phonemizer", "pyctcdecode (>=0.4.0)"] ftfy = ["ftfy"] -hf-xet = ["hf-xet"] +hf-xet = ["hf_xet"] hub-kernels = ["kernels (>=0.6.1,<0.7)"] integrations = ["kernels (>=0.6.1,<0.7)", "optuna", "ray[tune] (>=2.7.0)", "sigopt"] -ja = ["fugashi (>=1.0)", "ipadic (>=1.0.0,<2.0)", "rhoknp (>=1.1.0,<1.3.1)", "sudachidict-core (>=20220729)", "sudachipy (>=0.6.6)", "unidic (>=1.0.2)", "unidic-lite (>=1.0.7)"] +ja = ["fugashi (>=1.0)", "ipadic (>=1.0.0,<2.0)", "rhoknp (>=1.1.0,<1.3.1)", "sudachidict_core (>=20220729)", "sudachipy (>=0.6.6)", "unidic (>=1.0.2)", "unidic_lite (>=1.0.7)"] +mistral-common = ["mistral-common[opencv] (>=1.6.3)"] modelcreation = ["cookiecutter (==1.7.3)"] natten = ["natten (>=0.14.6,<0.15.0)"] num2words = ["num2words"] @@ -7468,27 +7789,27 @@ onnx = ["onnxconverter-common", "onnxruntime (>=1.4.0)", "onnxruntime-tools (>=1 onnxruntime = ["onnxruntime (>=1.4.0)", "onnxruntime-tools (>=1.4.2)"] open-telemetry = ["opentelemetry-api", 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"tokenizers (>=0.21,<0.22)", "torch (>=2.1)", "tqdm (>=4.27)"] +torchhub = ["filelock", "huggingface-hub (>=0.34.0,<1.0)", "importlib_metadata", "numpy (>=1.17)", "packaging (>=20.0)", "protobuf", "regex (!=2019.12.17)", "requests", "sentencepiece (>=0.1.91,!=0.1.92)", "tokenizers (>=0.21,<0.22)", "torch (>=2.1)", "tqdm (>=4.27)"] video = ["av"] vision = ["Pillow (>=10.0.1,<=15.0)"] @@ -7537,26 +7858,26 @@ typing-extensions = ">=3.7.4.3" [[package]] name = "types-python-dateutil" -version = "2.9.0.20250516" +version = "2.9.0.20250708" description = "Typing stubs for python-dateutil" optional = false python-versions = ">=3.9" groups = ["dev"] files = [ - {file = "types_python_dateutil-2.9.0.20250516-py3-none-any.whl", hash = "sha256:2b2b3f57f9c6a61fba26a9c0ffb9ea5681c9b83e69cd897c6b5f668d9c0cab93"}, - {file = "types_python_dateutil-2.9.0.20250516.tar.gz", hash = "sha256:13e80d6c9c47df23ad773d54b2826bd52dbbb41be87c3f339381c1700ad21ee5"}, + {file = 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"sha256:38b39f4aeeab64884ce9f74c94263ef78f3c22467c8724005483154c26648d36"}, ] [[package]] @@ -7637,14 +7958,14 @@ zstd = ["zstandard (>=0.18.0)"] [[package]] name = "uvicorn" -version = "0.34.3" +version = "0.35.0" description = "The lightning-fast ASGI server." optional = false python-versions = ">=3.9" groups = ["main"] files = [ - {file = "uvicorn-0.34.3-py3-none-any.whl", hash = "sha256:16246631db62bdfbf069b0645177d6e8a77ba950cfedbfd093acef9444e4d885"}, - {file = "uvicorn-0.34.3.tar.gz", hash = "sha256:35919a9a979d7a59334b6b10e05d77c1d0d574c50e0fc98b8b1a0f165708b55a"}, + {file = "uvicorn-0.35.0-py3-none-any.whl", hash = "sha256:197535216b25ff9b785e29a0b79199f55222193d47f820816e7da751e9bc8d4a"}, + {file = "uvicorn-0.35.0.tar.gz", hash = "sha256:bc662f087f7cf2ce11a1d7fd70b90c9f98ef2e2831556dd078d131b96cc94a01"}, ] [package.dependencies] @@ -8108,7 +8429,7 @@ files = [ {file = "zipp-3.23.0-py3-none-any.whl", hash = "sha256:071652d6115ed432f5ce1d34c336c0adfd6a884660d1e9712a256d3d3bd4b14e"}, {file = "zipp-3.23.0.tar.gz", hash = "sha256:a07157588a12518c9d4034df3fbbee09c814741a33ff63c05fa29d26a2404166"}, ] -markers = {dev = "python_version < \"3.10\"", docs = "python_version < \"3.10\""} +markers = {dev = "python_version == \"3.9\"", docs = "python_version == \"3.9\""} [package.extras] check = ["pytest-checkdocs (>=2.4)", "pytest-ruff (>=0.2.1) ; sys_platform != \"cygwin\""] @@ -8234,4 +8555,4 @@ cffi = ["cffi (>=1.11)"] [metadata] lock-version = "2.1" python-versions = ">=3.9,<3.13" -content-hash = "469c9166d82aa6ee0eeaeae949d156cc3fec42d95fce250605f6e46fb950cb9f" +content-hash = "e473fc6d34581c1c1e8456a87629962f7a2c0d7c436c3d6eda86e5b24069c4d7" diff --git a/pyproject.toml b/pyproject.toml index fa14ef5..caef58f 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -63,7 +63,8 @@ langchain-openai = "0.3.26" langchain-huggingface = ">=0.2.0" rank-bm25 = ">=0.2.2" sentence-transformers = ">=4.1.0" -onnxruntime = "1.16.3" +onnxruntime = "1.20.1" +multidict = "^6.6.3" [tool.poetry.group.dev.dependencies] poethepoet = "^0.33.0" diff --git a/pywhyllm/data/__init__.py b/pywhyllm/data/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pywhyllm/data/dataset.py b/pywhyllm/data/dataset.py new file mode 100644 index 0000000..a2110c4 --- /dev/null +++ b/pywhyllm/data/dataset.py @@ -0,0 +1,22 @@ +from typing import List, Protocol + +class Dataset(Protocol): + + def graph(self): + """ + Output the ground truth graph associated with the dataset. + + Returns: + A networkx graph + """ + pass + + def data(self): + """ + Output the data associated with the dataset. + + Returns: + A numpy array containing the data + """ + pass + diff --git a/pywhyllm/data/generate_data.py b/pywhyllm/data/generate_data.py new file mode 100644 index 0000000..f1c8ac9 --- /dev/null +++ b/pywhyllm/data/generate_data.py @@ -0,0 +1,12 @@ + + +def generate_data(graph, *args, **kwargs): + """ + Generate synthetic data based on a causal graph. + Arguments may be added as the functionality is developed. + Args: + graph: A Networkx graph + Returns: + A numpy array containing the synthetic data + """ + pass diff --git a/pywhyllm/data/metrics.py b/pywhyllm/data/metrics.py new file mode 100644 index 0000000..3f1bcc6 --- /dev/null +++ b/pywhyllm/data/metrics.py @@ -0,0 +1,25 @@ + + +def accuracy(edges, true_edges): + """Accuracy metric for predicted edges for a given dataset + """ + pass + + +def precision(edges, true_edges): + """Precision metric for predicted edges for a given dataset + """ + pass + + +def recall(edges, true_edges): + """Recall metric for predicted edges for a given dataset + """ + pass + + +def F1(edges, true_edges): + """F1 metric for predicted edges for a given dataset + """ + pass + diff --git a/pywhyllm/identifiers/__init__.py b/pywhyllm/identifiers/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pywhyllm/modelers/__init__.py b/pywhyllm/modelers/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pywhyllm/modelers/hybrid/__init__.py b/pywhyllm/modelers/hybrid/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pywhyllm/modelers/llm/__init__.py b/pywhyllm/modelers/llm/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pywhyllm/refuters/__init__.py b/pywhyllm/refuters/__init__.py new file mode 100644 index 0000000..e69de29