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test_execute.py
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test_execute.py
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"""Test sphinx builds which execute notebooks."""
import os
from pathlib import Path
from IPython import version_info as ipy_version
import pytest
from myst_nb.core.execute import ExecutionError
from myst_nb.sphinx_ import NbMetadataCollector
def regress_nb_doc(file_regression, sphinx_run, check_nbs):
try:
file_regression.check(
sphinx_run.get_nb(),
check_fn=check_nbs,
extension=".ipynb",
encoding="utf-8",
)
finally:
doctree_string = sphinx_run.get_doctree().pformat()
# TODO this is a difference in the hashing on the CI,
# with complex_outputs_unrun.ipynb equation PNG, after execution
# sympy
doctree_string = doctree_string.replace(
"91b3db0f47514d451e7c0f5a501d31c4e101b7112050634ad0788405f417782a",
"e2dfbe330154316cfb6f3186e8f57fc4df8aee03b0303ed1345fc22cd51f66de",
)
doctree_string = doctree_string.replace(
"438c56ea3dcf99d86cd64df1b23e2b436afb25846434efb1cfec7b660ef01127",
"e2dfbe330154316cfb6f3186e8f57fc4df8aee03b0303ed1345fc22cd51f66de",
)
if os.name == "nt": # on Windows image file paths are absolute
doctree_string = doctree_string.replace(
Path(sphinx_run.app.srcdir).as_posix() + "/", ""
)
file_regression.check(doctree_string, extension=".xml", encoding="utf-8")
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "auto"})
def test_basic_unrun_auto(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert sphinx_run.warnings() == ""
assert "test_name" in sphinx_run.app.env.metadata["basic_unrun"]
regress_nb_doc(file_regression, sphinx_run, check_nbs)
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "basic_unrun")
assert data
assert data["method"] == "auto"
assert data["succeeded"] is True
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "cache"})
def test_basic_unrun_cache(sphinx_run, file_regression, check_nbs):
"""The outputs should be populated."""
sphinx_run.build()
assert sphinx_run.warnings() == ""
assert "test_name" in sphinx_run.app.env.metadata["basic_unrun"]
regress_nb_doc(file_regression, sphinx_run, check_nbs)
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "basic_unrun")
assert data
assert data["method"] == "cache"
assert data["succeeded"] is True
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "inline"})
def test_basic_unrun_inline(sphinx_run, file_regression, check_nbs):
"""The outputs should be populated."""
sphinx_run.build()
assert sphinx_run.warnings() == ""
assert "test_name" in sphinx_run.app.env.metadata["basic_unrun"]
regress_nb_doc(file_regression, sphinx_run, check_nbs)
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "basic_unrun")
assert data
assert data["method"] == "inline"
assert data["succeeded"] is True
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "cache"})
def test_rebuild_cache(sphinx_run):
"""The notebook should only be executed once."""
sphinx_run.build()
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
sphinx_run.invalidate_files()
sphinx_run.build()
assert "Using cached" in sphinx_run.status()
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "force"})
def test_rebuild_force(sphinx_run):
"""The notebook should be executed twice."""
sphinx_run.build()
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
sphinx_run.invalidate_files()
sphinx_run.build()
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
@pytest.mark.sphinx_params(
"basic_unrun.ipynb",
conf={
"nb_execution_mode": "cache",
"nb_execution_excludepatterns": ["basic_*"],
},
)
def test_exclude_path(sphinx_run, file_regression):
"""The notebook should not be executed."""
sphinx_run.build()
assert not NbMetadataCollector.new_exec_data(sphinx_run.env)
assert "Executing" not in sphinx_run.status(), sphinx_run.status()
file_regression.check(
sphinx_run.get_doctree().pformat(), extension=".xml", encoding="utf-8"
)
@pytest.mark.skipif(ipy_version[0] < 8, reason="Error message changes for ipython v8")
@pytest.mark.sphinx_params("basic_failing.ipynb", conf={"nb_execution_mode": "cache"})
def test_basic_failing_cache(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.warnings())
assert "Executing notebook failed" in sphinx_run.warnings()
regress_nb_doc(file_regression, sphinx_run, check_nbs)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "basic_failing")
assert data
assert data["method"] == "cache"
assert data["succeeded"] is False
sphinx_run.get_report_file()
@pytest.mark.skipif(ipy_version[0] < 8, reason="Error message changes for ipython v8")
@pytest.mark.sphinx_params("basic_failing.ipynb", conf={"nb_execution_mode": "auto"})
def test_basic_failing_auto(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
assert "Executing notebook failed" in sphinx_run.warnings()
regress_nb_doc(file_regression, sphinx_run, check_nbs)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "basic_failing")
assert data
assert data["method"] == "auto"
assert data["succeeded"] is False
assert data["traceback"]
sphinx_run.get_report_file()
@pytest.mark.skipif(ipy_version[0] < 8, reason="Error message changes for ipython v8")
@pytest.mark.sphinx_params("basic_failing.ipynb", conf={"nb_execution_mode": "inline"})
def test_basic_failing_inline(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
assert "Executing notebook failed" in sphinx_run.warnings()
regress_nb_doc(file_regression, sphinx_run, check_nbs)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "basic_failing")
assert data
assert data["method"] == "inline"
assert data["succeeded"] is False
assert data["traceback"]
sphinx_run.get_report_file()
@pytest.mark.skipif(ipy_version[0] < 8, reason="Error message changes for ipython v8")
@pytest.mark.sphinx_params(
"basic_failing.ipynb",
conf={"nb_execution_mode": "cache", "nb_execution_allow_errors": True},
)
def test_allow_errors_cache(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert not sphinx_run.warnings()
regress_nb_doc(file_regression, sphinx_run, check_nbs)
@pytest.mark.skipif(ipy_version[0] < 8, reason="Error message changes for ipython v8")
@pytest.mark.sphinx_params(
"basic_failing.ipynb",
conf={"nb_execution_mode": "auto", "nb_execution_allow_errors": True},
)
def test_allow_errors_auto(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert not sphinx_run.warnings()
regress_nb_doc(file_regression, sphinx_run, check_nbs)
@pytest.mark.sphinx_params(
"basic_failing.ipynb",
conf={"nb_execution_raise_on_error": True, "nb_execution_mode": "force"},
)
def test_raise_on_error_force(sphinx_run):
with pytest.raises(ExecutionError, match="basic_failing.ipynb"):
sphinx_run.build()
@pytest.mark.sphinx_params(
"basic_failing.ipynb",
conf={"nb_execution_raise_on_error": True, "nb_execution_mode": "cache"},
)
def test_raise_on_error_cache(sphinx_run):
with pytest.raises(ExecutionError, match="basic_failing.ipynb"):
sphinx_run.build()
@pytest.mark.sphinx_params(
"complex_outputs_unrun.ipynb", conf={"nb_execution_mode": "cache"}
)
def test_complex_outputs_unrun_cache(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert sphinx_run.warnings() == ""
regress_nb_doc(file_regression, sphinx_run, check_nbs)
# Widget view and widget state should make it into the HTML
scripts = sphinx_run.get_html().select("script")
assert any(
"application/vnd.jupyter.widget-view+json" in script.get("type", "")
for script in scripts
)
assert any(
"application/vnd.jupyter.widget-state+json" in script.get("type", "")
for script in scripts
)
@pytest.mark.sphinx_params(
"complex_outputs_unrun.ipynb", conf={"nb_execution_mode": "auto"}
)
def test_complex_outputs_unrun_auto(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert sphinx_run.warnings() == ""
regress_nb_doc(file_regression, sphinx_run, check_nbs)
# Widget view and widget state should make it into the HTML
scripts = sphinx_run.get_html().select("script")
assert any(
"application/vnd.jupyter.widget-view+json" in script.get("type", "")
for script in scripts
)
assert any(
"application/vnd.jupyter.widget-state+json" in script.get("type", "")
for script in scripts
)
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "off"})
def test_no_execute(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert sphinx_run.warnings() == ""
regress_nb_doc(file_regression, sphinx_run, check_nbs)
@pytest.mark.sphinx_params("basic_unrun.ipynb", conf={"nb_execution_mode": "cache"})
def test_jupyter_cache_path(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
assert "Cached executed notebook" in sphinx_run.status()
assert sphinx_run.warnings() == ""
regress_nb_doc(file_regression, sphinx_run, check_nbs)
# Testing relative paths within the notebook
@pytest.mark.sphinx_params("basic_relative.ipynb", conf={"nb_execution_mode": "cache"})
def test_relative_path_cache(sphinx_run):
sphinx_run.build()
assert "Execution Failed" not in sphinx_run.status(), sphinx_run.status()
@pytest.mark.sphinx_params("basic_relative.ipynb", conf={"nb_execution_mode": "force"})
def test_relative_path_force(sphinx_run):
sphinx_run.build()
assert "Execution Failed" not in sphinx_run.status(), sphinx_run.status()
@pytest.mark.sphinx_params(
"kernel_alias.md",
conf={"nb_execution_mode": "force", "nb_kernel_rgx_aliases": {"oth.+": "python3"}},
)
def test_kernel_rgx_aliases(sphinx_run):
sphinx_run.build()
assert sphinx_run.warnings() == ""
@pytest.mark.sphinx_params(
"sleep_10.ipynb",
conf={"nb_execution_mode": "cache", "nb_execution_timeout": 1},
)
def test_execution_timeout(sphinx_run):
"""execution should fail given the low timeout value"""
sphinx_run.build()
# print(sphinx_run.warnings())
assert "Executing notebook failed" in sphinx_run.warnings()
@pytest.mark.sphinx_params(
"sleep_10_metadata_timeout.ipynb",
conf={"nb_execution_mode": "cache", "nb_execution_timeout": 60},
)
def test_execution_metadata_timeout(sphinx_run):
"""notebook timeout metadata has higher preference then execution_timeout config"""
sphinx_run.build()
# print(sphinx_run.warnings())
assert "Executing notebook failed" in sphinx_run.warnings()
@pytest.mark.sphinx_params(
"nb_exec_table.md",
conf={"nb_execution_mode": "auto"},
)
def test_nb_exec_table(sphinx_run, file_regression):
"""Test that the table gets output into the HTML,
including a row for the executed notebook.
"""
sphinx_run.build()
# print(sphinx_run.status())
assert not sphinx_run.warnings()
file_regression.check(
sphinx_run.get_doctree().pformat(), extension=".xml", encoding="utf-8"
)
# print(sphinx_run.get_html())
rows = sphinx_run.get_html().select("table.docutils tr")
assert any("nb_exec_table" in row.text for row in rows)
@pytest.mark.sphinx_params(
"custom-formats.Rmd",
conf={
"nb_execution_mode": "auto",
"nb_custom_formats": {".Rmd": ["jupytext.reads", {"fmt": "Rmd"}]},
},
)
def test_custom_convert_auto(sphinx_run, file_regression, check_nbs):
sphinx_run.build()
# print(sphinx_run.status())
assert sphinx_run.warnings() == ""
regress_nb_doc(file_regression, sphinx_run, check_nbs)
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "custom-formats")
assert data
assert data["method"] == "auto"
assert data["succeeded"] is True
@pytest.mark.sphinx_params(
"custom-formats.Rmd",
conf={
"nb_execution_mode": "cache",
"nb_custom_formats": {".Rmd": ["jupytext.reads", {"fmt": "Rmd"}]},
},
)
def test_custom_convert_cache(sphinx_run, file_regression, check_nbs):
"""The outputs should be populated."""
sphinx_run.build()
assert sphinx_run.warnings() == ""
regress_nb_doc(file_regression, sphinx_run, check_nbs)
assert NbMetadataCollector.new_exec_data(sphinx_run.env)
data = NbMetadataCollector.get_exec_data(sphinx_run.env, "custom-formats")
assert data
assert data["method"] == "cache"
assert data["succeeded"] is True