Restore some key tests into the regular CI pipeline (#725)

* restore some key notebook tests

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

* remove advanced marks from unit tests

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

* remove advanced mark from test_validation.py

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

* apply formatting

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

* update test durations, restore some test notebooks

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

* bump the test splits

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

* restore main notebook tests, take a more piecemeal approach

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>

Signed-off-by: Chris Trevino <darthtrevino@gmail.com>
This commit is contained in:
Chris Trevino 2022-10-28 15:46:08 -07:00 коммит произвёл GitHub
Родитель 0f56449d9f
Коммит f13ed30f42
Не найден ключ, соответствующий данной подписи
Идентификатор ключа GPG: 4AEE18F83AFDEB23
9 изменённых файлов: 411 добавлений и 360 удалений

4
.github/workflows/ci.yml поставляемый
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@ -15,7 +15,7 @@ jobs:
matrix:
python-version: [3.8, 3.9]
poetry-version: [1.2.0]
test-group: [1, 2, 3, 4]
test-group: [1, 2, 3, 4, 5, 6]
steps:
- uses: actions/checkout@v2
@ -47,7 +47,7 @@ jobs:
run: poetry run poe format_check
- name: Test
run: poetry run poe test --splits 4 --group ${{ matrix.test-group }}
run: poetry run poe test --splits 6 --group ${{ matrix.test-group }}
- uses: fateyan/action-discord-notifier@v1
if: failure() && github.ref == 'refs/heads/main'

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@ -1,240 +1,287 @@
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}

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@ -1,5 +1,4 @@
import numpy as np
import pytest
from pytest import mark
from .base import TestRefuter
@ -12,7 +11,6 @@ class TestDataSubsetRefuter(object):
refuter_tester = TestRefuter(error_tolerance, estimator_method, "data_subset_refuter")
refuter_tester.continuous_treatment_testsuite() # Run both
@mark.advanced
@mark.parametrize(["error_tolerance", "estimator_method"], [(0.01, "backdoor.propensity_score_matching")])
def test_refutation_data_subset_refuter_binary(self, error_tolerance, estimator_method):
refuter_tester = TestRefuter(error_tolerance, estimator_method, "data_subset_refuter")

Просмотреть файл

@ -2,7 +2,7 @@ import networkx as nx
import numpy as np
import pandas as pd
from flaky import flaky
from pytest import approx, mark
from pytest import approx
from dowhy.gcm import (
AdditiveNoiseModel,
@ -120,7 +120,6 @@ def test_given_simple_gaussian_data_when_attribute_anomaly_scores_with_feature_r
)
@mark.advanced
@flaky(max_runs=3)
def test_given_simple_causal_chain_with_linear_relationships_when_attribute_anomaly_scores_with_it_score_then_returns_qualitatively_correct_results():
num_training_samples = 5000

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@ -2,7 +2,7 @@ import networkx as nx
import numpy as np
import pandas as pd
from flaky import flaky
from pytest import approx, mark
from pytest import approx
from scipy import stats
from dowhy.gcm import (
@ -44,7 +44,6 @@ def test_when_using_parent_relevance_with_continous_data_then_returns_correct_re
assert noise == approx(0, abs=0.5)
@mark.advanced
@flaky(max_runs=5)
def test_when_using_parent_relevance_with_categorical_data_then_returns_correct_results():
causal_model = StructuralCausalModel(nx.DiGraph([("X0", "Y"), ("X1", "Y"), ("X2", "Y"), ("X3", "Y"), ("X4", "Y")]))

Просмотреть файл

@ -2,7 +2,7 @@ import networkx as nx
import numpy as np
import pandas as pd
from flaky import flaky
from pytest import approx, mark
from pytest import approx
from sklearn.linear_model import LogisticRegression
from dowhy.gcm import StructuralCausalModel, auto, fit, intrinsic_causal_influence
@ -13,7 +13,6 @@ from dowhy.gcm.uncertainty import estimate_entropy_of_probabilities, estimate_va
from dowhy.gcm.util.general import apply_one_hot_encoding, fit_one_hot_encoders
@mark.advanced
@flaky(max_runs=3)
def test_intrinsic_causal_influence_variance_linear():
causal_model = StructuralCausalModel(nx.DiGraph([("X0", "X1"), ("X1", "X2"), ("X2", "X3")]))
@ -42,7 +41,6 @@ def test_intrinsic_causal_influence_variance_linear():
assert np.sum([iccs[key] for key in iccs]) == approx(estimate_variance(X3), abs=0.5)
@mark.advanced
@flaky(max_runs=3)
def test_intrinsic_causal_influence_categorical():
causal_model = StructuralCausalModel(nx.DiGraph([("X0", "X1"), ("X1", "X2"), ("X2", "X3")]))
@ -86,7 +84,6 @@ def test_intrinsic_causal_influence_categorical():
assert np.sum([iccs[key] for key in iccs]) == approx(-expected_output_empty_subset, abs=0.05)
@mark.advanced
@flaky(max_runs=3)
def test_intrinsic_causal_influence_categorical_2():
causal_model = StructuralCausalModel(nx.DiGraph([("X0", "X1"), ("X1", "X2"), ("X2", "X3")]))
@ -142,7 +139,6 @@ def test_intrinsic_causal_influence_categorical_2():
assert np.sum([iccs[key] for key in iccs]) == approx(-expected_output_empty_subset, abs=0.05)
@mark.advanced
@flaky(max_runs=3)
def test_given_only_categorical_data_when_estimate_icc_then_does_not_fail():
causal_model = StructuralCausalModel(nx.DiGraph([("X0", "X1"), ("X1", "X2"), ("X2", "X3")]))

Просмотреть файл

@ -2,7 +2,7 @@ import numpy as np
import pytest
from flaky import flaky
from numpy.matlib import repmat
from pytest import approx, mark
from pytest import approx
from dowhy.gcm.ml import (
create_hist_gradient_boost_classifier,
@ -97,7 +97,6 @@ def test_marginal_expectation_returns_reduced_results():
assert results.shape[1] == 1
@mark.advanced
@flaky(max_runs=5)
def test_marginal_expectation_independent_continuous_linear():
X = np.random.normal(0, 1, (1000, 3))

Просмотреть файл

@ -2,7 +2,6 @@ import networkx as nx
import numpy as np
import pandas as pd
from flaky import flaky
from pytest import mark
from dowhy.gcm import (
InvertibleStructuralCausalModel,
@ -174,7 +173,6 @@ def test_given_non_linear_data_and_correct_dag_when_refute_invertible_model_then
)
@mark.advanced
@flaky(max_runs=2)
def test_given_non_linear_data_and_incorrect_dag_when_refute_invertible_model_then_reject_model():
data = _generate_simple_non_linear_data()
@ -201,7 +199,6 @@ def test_given_non_linear_data_and_incorrect_dag_when_refute_invertible_model_th
)
@mark.advanced
@flaky(max_runs=3)
def test_given_non_linear_data_and_incorrect_dag_with_collider_when_refute_invertible_model_then_reject_model():
data = _generate_simple_non_linear_data()

Просмотреть файл

@ -19,13 +19,14 @@ advanced_notebooks = [
"dowhy_optimize_backdoor_example.ipynb",
# applied notebook, not necessary to test each time
"dowhy_ranking_methods.ipynb",
# needs xgboost too
"DoWhy-The Causal Story Behind Hotel Booking Cancellations.ipynb",
#
# Slow Notebooks
#
"tutorial-causalinference-machinelearning-using-dowhy-econml.ipynb",
"dowhy-conditional-treatment-effects.ipynb",
"dowhy_refuter_notebook.ipynb",
"DoWhy-The Causal Story Behind Hotel Booking Cancellations.ipynb", # needs xgboost too
"dowhy_twins_example.ipynb",
"gcm_rca_microservice_architecture.ipynb",
"gcm_supply_chain_dist_change.ipynb",