From 3929d970442a732c0dbd372e0d164db9f25cc097 Mon Sep 17 00:00:00 2001
From: Andre Anjos <andre.dos.anjos@gmail.com>
Date: Sun, 2 Jun 2024 22:25:21 +0200
Subject: [PATCH] [tests] Mark slow tests (closes #73)
---
pyproject.toml | 6 +++++-
tests/test_cli.py | 5 +++++
tests/test_montgomery.py | 1 +
tests/test_montgomery_shenzhen.py | 1 +
tests/test_montgomery_shenzhen_indian.py | 1 +
tests/test_montgomery_shenzhen_indian_padchest.py | 1 +
tests/test_montgomery_shenzhen_indian_tbx11k.py | 1 +
7 files changed, 15 insertions(+), 1 deletion(-)
diff --git a/pyproject.toml b/pyproject.toml
index 6ffc4ab8..37c132aa 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -165,7 +165,10 @@ uv = "*"
uv-update-lock = "uv pip compile -q pyproject.toml --python-platform=linux -o uv.lock"
[tool.pixi.feature.cuda]
-channels = [{ channel = "nvidia", priority = 1}, { channel = "pytorch", priority = -1 }]
+channels = [
+ { channel = "nvidia", priority = 1 },
+ { channel = "pytorch", priority = -1 },
+]
platforms = ["linux-64", "osx-arm64"]
[tool.pixi.feature.cuda.system-requirements]
@@ -483,3 +486,4 @@ override_SS05 = [ # override SS05 to allow docstrings starting with these words
addopts = ["--cov=mednet", "--cov-report=term-missing", "--import-mode=append"]
junit_logging = "all"
junit_log_passing_tests = false
+markers = ["slow: marks tests as slow (deselect with '-m \"not slow\"')"]
diff --git a/tests/test_cli.py b/tests/test_cli.py
index d98ef50f..e79d500d 100644
--- a/tests/test_cli.py
+++ b/tests/test_cli.py
@@ -201,6 +201,7 @@ def test_upload_help():
_check_help(upload)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
def test_train_pasa_montgomery(temporary_basedir):
from mednet.scripts.train import train
@@ -256,6 +257,7 @@ def test_train_pasa_montgomery(temporary_basedir):
)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
def test_train_pasa_montgomery_from_checkpoint(temporary_basedir):
from mednet.scripts.train import train
@@ -333,6 +335,7 @@ def test_train_pasa_montgomery_from_checkpoint(temporary_basedir):
)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
def test_predict_pasa_montgomery(temporary_basedir):
from mednet.scripts.predict import predict
@@ -386,6 +389,7 @@ def test_predict_pasa_montgomery(temporary_basedir):
)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
def test_evaluate_pasa_montgomery(temporary_basedir):
from mednet.scripts.evaluate import evaluate
@@ -432,6 +436,7 @@ def test_evaluate_pasa_montgomery(temporary_basedir):
)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
def test_experiment(temporary_basedir):
from mednet.scripts.experiment import experiment
diff --git a/tests/test_montgomery.py b/tests/test_montgomery.py
index 3db2bad6..fddeaefa 100644
--- a/tests/test_montgomery.py
+++ b/tests/test_montgomery.py
@@ -110,6 +110,7 @@ def test_loading(database_checkers, name: str, dataset: str):
limit -= 1
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
def test_raw_transforms_image_quality(database_checkers, datadir: pathlib.Path):
datamodule = importlib.import_module(
diff --git a/tests/test_montgomery_shenzhen.py b/tests/test_montgomery_shenzhen.py
index 58bc9806..58f3313c 100644
--- a/tests/test_montgomery_shenzhen.py
+++ b/tests/test_montgomery_shenzhen.py
@@ -61,6 +61,7 @@ def test_split_consistency(name: str):
assert isinstance(combined.splits[split][1][1], shenzhen_loader)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
@pytest.mark.skip_if_rc_var_not_set("datadir.shenzhen")
def test_database_check():
diff --git a/tests/test_montgomery_shenzhen_indian.py b/tests/test_montgomery_shenzhen_indian.py
index 470ee2cf..47de3afd 100644
--- a/tests/test_montgomery_shenzhen_indian.py
+++ b/tests/test_montgomery_shenzhen_indian.py
@@ -75,6 +75,7 @@ def test_split_consistency(name: str):
assert isinstance(combined.splits[split][2][1], indian_loader)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
@pytest.mark.skip_if_rc_var_not_set("datadir.indian")
@pytest.mark.skip_if_rc_var_not_set("datadir.shenzhen")
diff --git a/tests/test_montgomery_shenzhen_indian_padchest.py b/tests/test_montgomery_shenzhen_indian_padchest.py
index d56798a7..e44b5b60 100644
--- a/tests/test_montgomery_shenzhen_indian_padchest.py
+++ b/tests/test_montgomery_shenzhen_indian_padchest.py
@@ -81,6 +81,7 @@ def test_split_consistency(name: str, padchest_name: str):
assert isinstance(combined.splits[split][3][1], padchest_loader)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
@pytest.mark.skip_if_rc_var_not_set("datadir.shenzhen")
@pytest.mark.skip_if_rc_var_not_set("datadir.indian")
diff --git a/tests/test_montgomery_shenzhen_indian_tbx11k.py b/tests/test_montgomery_shenzhen_indian_tbx11k.py
index 0a4a3bff..75464104 100644
--- a/tests/test_montgomery_shenzhen_indian_tbx11k.py
+++ b/tests/test_montgomery_shenzhen_indian_tbx11k.py
@@ -100,6 +100,7 @@ def test_split_consistency(name: str, tbx11k_name: str):
assert isinstance(combined.splits[split][3][1], tbx11k_loader)
+@pytest.mark.slow
@pytest.mark.skip_if_rc_var_not_set("datadir.montgomery")
@pytest.mark.skip_if_rc_var_not_set("datadir.shenzhen")
@pytest.mark.skip_if_rc_var_not_set("datadir.indian")
--
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