1.11.4: pytest is failing when pytest-randomly plugin is used
#838
Comments
kloczek
changed the title
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Hi @kloczek , thank you for reporting this. I must say that at the moment I am puzzled by your observation. The tests seem to be run with completely unadequate parameters! Take for instance this one: I would expect that jupytext/tests/test_cell_metadata.py Line 28 in 4692a82 but this is clearly not the case. May I ask which version of |
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Above output was with pytest 6.2.4. + PYTHONPATH=/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.5-2.fc35.x86_64/usr/lib64/python3.8/site-packages:/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.5-2.fc35.x86_64/usr/lib/python3.8/site-packages
+ /usr/bin/pytest -ra
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.11, pytest-6.2.5, py-1.10.0, pluggy-0.13.1
benchmark: 3.4.1 (defaults: timer=time.perf_counter disable_gc=False min_rounds=5 min_time=0.000005 max_time=1.0 calibration_precision=10 warmup=False warmup_iterations=100000)
Using --randomly-seed=1120978200
rootdir: /home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5
plugins: forked-1.3.0, shutil-1.7.0, virtualenv-1.7.0, expect-1.1.0, flake8-1.0.7, timeout-1.4.2, betamax-0.8.1, freezegun-0.4.2, aspectlib-1.5.2, toolbox-0.5, rerunfailures-9.1.1, requests-mock-1.9.3, cov-2.12.1, flaky-3.7.0, benchmark-3.4.1, xdist-2.3.0, pylama-7.7.1, datadir-1.3.1, regressions-2.2.0, cases-3.6.3, xprocess-0.18.1, black-0.3.12, anyio-3.3.0, asyncio-0.15.1, trio-0.7.0, subtests-0.5.0, isort-2.0.0, hypothesis-6.14.6, mock-3.6.1, profiling-1.7.0, randomly-3.8.0, Faker-8.12.1, nose2pytest-1.0.8, pyfakefs-4.5.1, tornado-0.8.1
collected 2582 items
tests/test_header.py .......... [ 0%]
tests/test_pre_commit_2_sync_nbstripout.py s [ 0%]
tests/test_read_simple_matlab.py .. [ 0%]
tests/test_black.py ...........s. [ 1%]
tests/test_escape_magics.py ................................................................................ [ 4%]
tests/test_execute.py ....s... [ 4%]
tests/test_using_cli.py . [ 4%]
tests/test_pre_commit_mode.py ............ [ 4%]
tests/test_cell_id.py . [ 4%]
tests/test_cm_config.py ............ [ 5%]
tests/test_preserve_empty_cells.py ....... [ 5%]
tests/test_read_simple_groovy.py . [ 5%]
tests/test_read_simple_rmd.py ......... [ 6%]
tests/test_ipynb_to_py.py .................... [ 6%]
tests/test_save_multiple.py ..................................................... [ 8%]
tests/test_metadata_filter.py ................. [ 9%]
tests/test_jupytext_errors.py .. [ 9%]
tests/test_ipynb_to_R.py .... [ 9%]
tests/test_read_simple_sphinx.py ... [ 9%]
tests/test_read_simple_ipynb.py . [ 9%]
tests/test_cell_metadata.py ........................F...........F.F..F...F.....F...FF... [ 12%]
tests/test_metadata_filters_from_config.py . [ 12%]
tests/test_pep8.py ................................................................................................................... [ 16%]
tests/test_stringparser.py .... [ 16%]
tests/test_pytest.py .. [ 17%]
tests/test_read_simple_hydrogen.py ....... [ 17%]
tests/test_unicode.py ............................... [ 18%]
tests/test_read_all_py.py .......................................................................................................... [ 22%]
tests/test_read_simple_rust.py ... [ 22%]
tests/test_cli.py ............................s..............................ss................ss.....................s..........ss.....s..s........................ [ 28%]
.....................s.......................s..........s.........s........................s.....s...............s......s....................s.s.................... [ 34%]
.................................s.............................s.......s.........s..............s..s...... [ 38%]
tests/test_compare.py ..................... [ 39%]
tests/test_paired_paths.py ...................... [ 40%]
tests/test_formats.py .........s............... [ 41%]
tests/test_read_simple_scheme.py . [ 41%]
tests/test_jupytext_read.py .. [ 41%]
tests/test_nbformat_version.py ....... [ 41%]
tests/test_pre_commit_scripts.py .....s.. [ 42%]
tests/test_config.py ................. [ 42%]
tests/test_read_simple_pandoc.py sssss [ 42%]
tests/test_load_multiple.py .. [ 43%]
tests/test_pre_commit_4_sync_execute.py s [ 43%]
tests/test_read_simple_python.py ................................................ [ 44%]
tests/test_read_simple_markdown.py .................................... [ 46%]
tests/test_pre_commit_1_sync.py s [ 46%]
tests/test_pre_commit_3_sync_black_nbstripout.py s [ 46%]
tests/test_read_simple_clojure.py . [ 46%]
tests/test_read_simple_R.py ............ [ 46%]
tests/test_combine.py .................................................. [ 48%]
tests/test_read_incomplete_rmd.py ... [ 48%]
tests/test_read_simple_percent.py ...................... [ 49%]
tests/test_ipynb_to_myst.py .....s.....s [ 50%]
tests/test_cells.py ............... [ 50%]
tests/test_read_simple_nomarker.py .. [ 50%]
tests/test_rmd_to_ipynb.py ...... [ 51%]
tests/test_pre_commit_5_reformat_markdown.py s [ 51%]
tests/test_read_simple_java.py . [ 51%]
tests/test_custom_cell_magics.py . [ 51%]
tests/test_read_simple_julia.py . [ 51%]
tests/test_markdown_in_code_cells.py .... [ 51%]
tests/test_read_simple_csharp.py ....... [ 51%]
tests/test_doxygen.py .......... [ 52%]
tests/test_mirror.py ..............s.....s...s.....s......s............................................s..............s....s..............s.................s.s..... [ 57%]
.s...................s.....s.......................................s...............ss...s..............s....................s.......................s............... [ 64%]
.........s...........................................s......ss.............s...ss....s...........s...... [ 68%]
tests/test_read_folding_markers.py ..... [ 68%]
tests/test_read_write_functions.py ..... [ 68%]
tests/test_pre_commit_0_ipynb_to_py.py s [ 68%]
tests/test_knitr_spin.py . [ 68%]
tests/test_read_dotnet_try_markdown.py ... [ 68%]
tests/test_ipynb_to_rmd.py ........................ [ 69%]
tests/test_jupytext_nbconvert_round_trip.py ....................... [ 70%]
tests/test_auto_ext.py ................................................x.....................................s [ 73%]
tests/test_contentsmanager.py ...................s..............s.......................................................s........s.................................. [ 79%]
.......s...................................................s............................................s........s...s................s............................. [ 85%]
.....................s...s.......................s................s.......................s...........s...s.....................s.....s..............s.............. [ 91%]
.... [ 91%]
tests/test_write_does_not_modify_notebook.py .............................................................................................................. [ 96%]
tests/test_trust_notebook.py ................................................ [ 98%]
tests/test_isort.py . [ 98%]
tests/test_changelog.py ... [ 98%]
tests/test_active_cells.py ............................ [ 99%]
tests/test_cli_config.py ........... [ 99%]
tests/test_hide_remove_input_outputs_rmarkdown.py ........ [100%]
================================================================================= FAILURES =================================================================================
____________________________________________ test_build_options[r plot_1, dpi=72, fig.path="fig_path/"-language_and_metadata1] _____________________________________________
options = 'r plot_1, dpi=72, fig.path="fig_path/"', language_and_metadata = ('R', {'dpi': 72, 'fig.path': 'fig_path/'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'r dpi=72, fig.path="fig_path/"', expected = 'r plot_1, dpi=72, fig.path="fig_path/"', actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -r plot_1, dpi=72, fig.path="fig_path/"
E +r dpi=72, fig.path="fig_path/"
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
___________________________________________ test_build_options[r plot_1, bool=TRUE, fig.path="fig_path/"-language_and_metadata2] ___________________________________________
options = 'r plot_1, bool=TRUE, fig.path="fig_path/"', language_and_metadata = ('R', {'bool': True, 'fig.path': 'fig_path/'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'r bool=TRUE, fig.path="fig_path/"', expected = 'r plot_1, bool=TRUE, fig.path="fig_path/"', actual_name = 'actual', expected_name = 'expected'
return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -r plot_1, bool=TRUE, fig.path="fig_path/"
E +r bool=TRUE, fig.path="fig_path/"
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
_________________________________________ test_parse_rmd_options[r plot_1, bool=TRUE, fig.path="fig_path/"-language_and_metadata2] _________________________________________
options = 'r plot_1, bool=TRUE, fig.path="fig_path/"', language_and_metadata = ('R', {'bool': True, 'fig.path': 'fig_path/'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('R', {'bool': True, 'fig.path': 'fig_path/', 'name': 'plot_1'}), expected = ('R', {'bool': True, 'fig.path': 'fig_path/'}), actual_name = 'actual'
expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -2,6 +2,7 @@
E "R",
E {
E "bool": true,
E - "fig.path": "fig_path/"
E + "fig.path": "fig_path/",
E + "name": "plot_1"
E }
E ]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
____________________________________________ test_parse_rmd_options[python include=FALSE, active="Rmd"-language_and_metadata8] _____________________________________________
options = 'python include=FALSE, active="Rmd"', language_and_metadata = ('python', {'active': 'Rmd'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('python', {'active': 'Rmd', 'tags': ['remove_cell']}), expected = ('python', {'active': 'Rmd'}), actual_name = 'actual', expected_name = 'expected'
return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1,6 +1,9 @@
E [
E "python",
E {
E - "active": "Rmd"
E + "active": "Rmd",
E + "tags": [
E + "remove_cell"
E + ]
E }
E ]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
____________________________________________________ test_parse_rmd_options[r plot_1, echo=TRUE-language_and_metadata4] ____________________________________________________
options = 'r plot_1, echo=TRUE', language_and_metadata = ('R', {'echo': True})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('R', {'echo': True, 'name': 'plot_1'}), expected = ('R', {'echo': True}), actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1,6 +1,7 @@
E [
E "R",
E {
E - "echo": true
E + "echo": true,
E + "name": "plot_1"
E }
E ]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
_________________________________________________________ test_build_options[r echo=FALSE-language_and_metadata3] __________________________________________________________
options = 'r echo=FALSE', language_and_metadata = ('R', {})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'r', expected = 'r echo=FALSE', actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -r echo=FALSE
E +r
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
_______________________________ test_parse_rmd_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6] ________________________________
options = 'python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}', language_and_metadata = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'tags': ['a', 'b', 'c']})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'name': 'noname', 'tags': ['a', 'b', 'c']})
expected = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'tags': ['a', 'b', 'c']}), actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -2,6 +2,7 @@
E "python",
E {
E "echo": "#R_CODE#{sum(a+c(1,2))>1}",
E + "name": "noname",
E "tags": [
E "a",
E "b",
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
_________________________________ test_build_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6] __________________________________
options = 'python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}', language_and_metadata = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'tags': ['a', 'b', 'c']})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'python tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}', expected = 'python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}', actual_name = 'actual'
expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}
E +python tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/compare.py:47: AssertionError
============================================================================= warnings summary =============================================================================
jupytext/cell_reader.py:20
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/cell_reader.py:20: UserWarning: Sphinx Gallery in version 0.9.0 is not supported by Jupytext. Please use sphinx-gallery<=0.7.0 instead. If that is an issue, feel free to report it at https://github.com/mwouts/jupytext/issues, or even better, prepare a PR to handle the new signature of sphinx_gallery.notebook.rst2md.
warnings.warn(
tests/test_execute.py::test_execute
/usr/lib/python3.8/site-packages/nbconvert/exporters/html.py:110: DeprecationWarning: 'contextfilter' is renamed to 'pass_context', the old name will be removed in Jinja 3.1.
def markdown2html(self, context, source):
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
/usr/lib/python3.8/site-packages/traitlets/config/configurable.py:82: DeprecationWarning: Passing unrecognized arguments to super(JupytextConfiguration).__init__(not_a_jupytext_option=True).
object.__init__() takes exactly one argument (the instance to initialize)
This is deprecated in traitlets 4.2.This error will be raised in a future release of traitlets.
super(Configurable, self).__init__(**kwargs)
tests/test_cli.py::test_cli_expect_errors
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/cli.py:332: DeprecationWarning: The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
warnings.warn(
tests/test_cli.py::test_format_prefix_suffix
[warning] You have passed a file name to the '--to' option, when a format description was expected. Maybe you want to use the '-o' option instead?
tests/test_pre_commit_scripts.py::test_manual_call_of_pre_commit_hook
[warning] The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
tests/test_contentsmanager.py: 48 warnings
[warning] GObject.GError is deprecated; use GLib.GError instead
-- Docs: https://docs.pytest.org/en/stable/warnings.html
========================================================================= short test summary info ==========================================================================
SKIPPED [1] tests/test_pre_commit_2_sync_nbstripout.py:14: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_black.py:68: autopep8 not found
SKIPPED [1] tests/test_execute.py:150: irkernel is not installed
SKIPPED [5] tests/test_cli.py:1005: pandoc>=2.11 is not available
SKIPPED [15] tests/test_cli.py:557: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:795: sphinx_gallery is not available
SKIPPED [1] tests/test_cli.py:1075: pandoc>=2.11 is not available
SKIPPED [3] tests/test_cli.py:991: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1188: Please run 'python -m ipykernel install --name python_kernel --user'
SKIPPED [1] tests/test_formats.py:324: pandoc>=2.11 is not available
SKIPPED [1] tests/test_pre_commit_scripts.py:335: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:50: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:13: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:35: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:64: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:82: Pandoc is installed
SKIPPED [1] tests/test_pre_commit_4_sync_execute.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_1_sync.py:17: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_3_sync_black_nbstripout.py:13: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_ipynb_to_myst.py:171: myst is available
SKIPPED [1] tests/test_ipynb_to_myst.py:162: myst is available
SKIPPED [1] tests/test_pre_commit_5_reformat_markdown.py:15: Jupytext folder is not a git repository #814
SKIPPED [11] tests/test_mirror.py:151: sphinx_gallery is not available
SKIPPED [17] tests/test_mirror.py:131: pandoc>=2.11 is not available
SKIPPED [1] tests/test_mirror.py:202: sphinx_gallery is not available
SKIPPED [1] tests/test_mirror.py:208: sphinx_gallery is not available
SKIPPED [1] tests/test_pre_commit_0_ipynb_to_py.py:16: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_auto_ext.py:36: No file_extension in language_info
SKIPPED [17] tests/test_contentsmanager.py:180: pandoc>=2.11 is not available
SKIPPED [1] tests/test_contentsmanager.py:1188: sphinx_gallery is not available
SKIPPED [2] tests/test_contentsmanager.py:1765: jupyterfs is not available
XFAIL tests/test_auto_ext.py::test_auto_from_kernelspecs_works[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/notebooks/ipynb_sage/sage_print_hello.ipynb]
reason: Sage notebooks have Python in their language_info metadata, see #727
FAILED tests/test_cell_metadata.py::test_build_options[r plot_1, dpi=72, fig.path="fig_path/"-language_and_metadata1] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[r plot_1, bool=TRUE, fig.path="fig_path/"-language_and_metadata2] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[r plot_1, bool=TRUE, fig.path="fig_path/"-language_and_metadata2] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[python include=FALSE, active="Rmd"-language_and_metadata8] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[r plot_1, echo=TRUE-language_and_metadata4] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[r echo=FALSE-language_and_metadata3] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6] - AssertionError:
============================================== 8 failed, 2479 passed, 94 skipped, 1 xfailed, 57 warnings in 149.35s (0:02:29) ==============================================
pytest-xprocess reminder::Be sure to terminate the started process by running 'pytest --xkill' if you have not explicitly done so in your fixture with 'xprocess.getinfo(<pr |
|
Aftter deselecting above failing units I have another set fails. + /usr/bin/pytest -ra --deselect 'tests/test_cell_metadata.py::test_build_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6]' --deselect 'tests/test_cell_metadata.py::test_build_options[r echo=FALSE-language_and_metadata3]' --deselect 'tests/test_cell_metadata.py::test_build_options[r plot_1, bool=TRUE, fig.path="fig_path/"-language_and_metadata2]' --deselect 'tests/test_cell_metadata.py::test_build_options[r plot_1, dpi=72, fig.path="fig_path/"-language_and_metadata1]' --deselect 'tests/test_cell_metadata.py::test_parse_rmd_options[python include=FALSE, active="Rmd"-language_and_metadata8]' --deselect 'tests/test_cell_metadata.py::test_parse_rmd_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6]' --deselect 'tests/test_cell_metadata.py::test_parse_rmd_options[r plot_1, bool=TRUE, fig.path="fig_path/"-language_and_metadata2]' --deselect 'tests/test_cell_metadata.py::test_parse_rmd_options[r plot_1, echo=TRUE-language_and_metadata4]'
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.11, pytest-6.2.5, py-1.10.0, pluggy-0.13.1
benchmark: 3.4.1 (defaults: timer=time.perf_counter disable_gc=False min_rounds=5 min_time=0.000005 max_time=1.0 calibration_precision=10 warmup=False warmup_iterations=100000)
Using --randomly-seed=1386331291
rootdir: /home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5
plugins: forked-1.3.0, shutil-1.7.0, virtualenv-1.7.0, expect-1.1.0, flake8-1.0.7, timeout-1.4.2, betamax-0.8.1, freezegun-0.4.2, aspectlib-1.5.2, toolbox-0.5, rerunfailures-9.1.1, requests-mock-1.9.3, cov-2.12.1, flaky-3.7.0, benchmark-3.4.1, xdist-2.3.0, pylama-7.7.1, datadir-1.3.1, regressions-2.2.0, cases-3.6.3, xprocess-0.18.1, black-0.3.12, anyio-3.3.0, asyncio-0.15.1, trio-0.7.0, subtests-0.5.0, isort-2.0.0, hypothesis-6.14.6, mock-3.6.1, profiling-1.7.0, randomly-3.8.0, Faker-8.12.1, nose2pytest-1.0.8, pyfakefs-4.5.1, tornado-0.8.1
collected 2582 items / 8 deselected / 2574 selected
tests/test_pre_commit_0_ipynb_to_py.py s [ 0%]
tests/test_pytest.py .. [ 0%]
tests/test_custom_cell_magics.py . [ 0%]
tests/test_markdown_in_code_cells.py .... [ 0%]
tests/test_ipynb_to_py.py .................... [ 1%]
tests/test_read_simple_csharp.py ....... [ 1%]
tests/test_contentsmanager.py ...............s...............................................................s...........s.s...s.................s.................. [ 6%]
..........s.....s...........................................................................s.s...........s......................s.................................. [ 12%]
......s...s........s....s.s................s..........................................................s............................................s................ [ 19%]
.... [ 19%]
tests/test_trust_notebook.py ................................................ [ 21%]
tests/test_cell_metadata.py ..................................F.....F........... [ 23%]
tests/test_read_simple_nomarker.py .. [ 23%]
tests/test_read_simple_python.py ................................................ [ 25%]
tests/test_read_write_functions.py ..... [ 25%]
tests/test_cell_id.py . [ 25%]
tests/test_header.py .......... [ 25%]
tests/test_read_simple_hydrogen.py ....... [ 26%]
tests/test_jupytext_errors.py .. [ 26%]
tests/test_pre_commit_5_reformat_markdown.py s [ 26%]
tests/test_write_does_not_modify_notebook.py .............................................................................................................. [ 30%]
tests/test_read_simple_matlab.py .. [ 30%]
tests/test_read_simple_rmd.py ......... [ 31%]
tests/test_cells.py ............... [ 31%]
tests/test_read_simple_scheme.py . [ 31%]
tests/test_nbformat_version.py ....... [ 31%]
tests/test_cli_config.py ........... [ 32%]
tests/test_formats.py ......s.................. [ 33%]
tests/test_read_simple_julia.py . [ 33%]
tests/test_read_simple_percent.py ...................... [ 34%]
tests/test_cli.py ..................ss.s....s.s.........s..s.........s...............................s................s...s..........s...............s.............. [ 39%]
......s.s............................s.s.............................s............................................................s................................. [ 46%]
...................................s...s....s.......s.......s......s......s............................... [ 50%]
tests/test_read_simple_markdown.py .................................... [ 51%]
tests/test_pre_commit_3_sync_black_nbstripout.py s [ 51%]
tests/test_read_all_py.py .......................................................................................................... [ 55%]
tests/test_active_cells.py ............................ [ 56%]
tests/test_using_cli.py . [ 57%]
tests/test_jupytext_nbconvert_round_trip.py ....................... [ 57%]
tests/test_compare.py ..................... [ 58%]
tests/test_metadata_filter.py ................. [ 59%]
tests/test_stringparser.py .... [ 59%]
tests/test_isort.py . [ 59%]
tests/test_auto_ext.py ...............................s..........x............................................ [ 62%]
tests/test_metadata_filters_from_config.py . [ 63%]
tests/test_read_dotnet_try_markdown.py ... [ 63%]
tests/test_read_simple_clojure.py . [ 63%]
tests/test_pre_commit_1_sync.py s [ 63%]
tests/test_read_folding_markers.py ..... [ 63%]
tests/test_pre_commit_scripts.py .....s.. [ 63%]
tests/test_unicode.py ............................... [ 64%]
tests/test_pre_commit_2_sync_nbstripout.py s [ 64%]
tests/test_doxygen.py .......... [ 65%]
tests/test_ipynb_to_rmd.py ........................ [ 66%]
tests/test_read_simple_ipynb.py . [ 66%]
tests/test_ipynb_to_myst.py ..........ss [ 66%]
tests/test_escape_magics.py ................................................................................ [ 69%]
tests/test_hide_remove_input_outputs_rmarkdown.py ........ [ 70%]
tests/test_save_multiple.py ..................................................... [ 72%]
tests/test_rmd_to_ipynb.py ...... [ 72%]
tests/test_read_simple_groovy.py . [ 72%]
tests/test_execute.py ......s. [ 72%]
tests/test_read_simple_rust.py ... [ 72%]
tests/test_pre_commit_4_sync_execute.py s [ 72%]
tests/test_changelog.py ... [ 73%]
tests/test_pre_commit_mode.py ............ [ 73%]
tests/test_combine.py .................................................. [ 75%]
tests/test_read_simple_R.py ............ [ 75%]
tests/test_read_simple_pandoc.py sssss [ 76%]
tests/test_load_multiple.py .. [ 76%]
tests/test_read_simple_java.py . [ 76%]
tests/test_config.py ................. [ 76%]
tests/test_ipynb_to_R.py .... [ 77%]
tests/test_black.py
...........s. [ 77%]
tests/test_cm_config.py ............ [ 78%]
tests/test_knitr_spin.py . [ 78%]
tests/test_preserve_empty_cells.py ....... [ 78%]
tests/test_paired_paths.py ...................... [ 79%]
tests/test_jupytext_read.py .. [ 79%]
tests/test_mirror.py .........................s...........s...s............................................s............s......s............s....ss................. [ 84%]
.s..........................s....s.s.s......s...s......ss..s............s...........................s.............s.......s......s...s........................s..... [ 91%]
........s..............................s...................s.....................s...................... [ 95%]
tests/test_read_incomplete_rmd.py ... [ 95%]
tests/test_read_simple_sphinx.py ... [ 95%]
tests/test_pep8.py ................................................................................................................... [100%]
================================================================================= FAILURES =================================================================================
_______________________________________________________ test_parse_rmd_options[r echo=FALSE-language_and_metadata3] ________________________________________________________
options = 'r echo=FALSE', language_and_metadata = ('R', {})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('R', {'tags': ['remove_input']}), expected = ('R', {}), actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1,4 +1,8 @@
E [
E "R",
E - {}
E + {
E + "tags": [
E + "remove_input"
E + ]
E + }
E ]
jupytext/compare.py:47: AssertionError
______________________________________________ test_build_options[python include=FALSE, active="Rmd"-language_and_metadata8] _______________________________________________
options = 'python include=FALSE, active="Rmd"', language_and_metadata = ('python', {'active': 'Rmd'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'python active="Rmd"', expected = 'python include=FALSE, active="Rmd"', actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -python include=FALSE, active="Rmd"
E +python active="Rmd"
jupytext/compare.py:47: AssertionError
============================================================================= warnings summary =============================================================================
jupytext/cell_reader.py:20
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/cell_reader.py:20: UserWarning: Sphinx Gallery in version 0.9.0 is not supported by Jupytext. Please use sphinx-gallery<=0.7.0 instead. If that is an issue, feel free to report it at https://github.com/mwouts/jupytext/issues, or even better, prepare a PR to handle the new signature of sphinx_gallery.notebook.rst2md.
warnings.warn(
tests/test_contentsmanager.py: 48 warnings
/usr/lib/python3.8/site-packages/send2trash/plat_gio.py:18: PyGIDeprecationWarning: GObject.GError is deprecated; use GLib.GError instead
except GObject.GError as e:
tests/test_cli.py::test_format_prefix_suffix
[warning] You have passed a file name to the '--to' option, when a format description was expected. Maybe you want to use the '-o' option instead?
tests/test_cli.py::test_utf8_out_331
[warning] 'contextfilter' is renamed to 'pass_context', the old name will be removed in Jinja 3.1.
tests/test_cli.py::test_cli_expect_errors
tests/test_pre_commit_scripts.py::test_manual_call_of_pre_commit_hook
[warning] The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
[warning] Passing unrecognized arguments to super(JupytextConfiguration).__init__(not_a_jupytext_option=True).
object.__init__() takes exactly one argument (the instance to initialize)
This is deprecated in traitlets 4.2.This error will be raised in a future release of traitlets.
-- Docs: https://docs.pytest.org/en/stable/warnings.html
========================================================================= short test summary info ==========================================================================
SKIPPED [1] tests/test_pre_commit_0_ipynb_to_py.py:16: Jupytext folder is not a git repository #814
SKIPPED [17] tests/test_contentsmanager.py:180: pandoc>=2.11 is not available
SKIPPED [2] tests/test_contentsmanager.py:1765: jupyterfs is not available
SKIPPED [1] tests/test_contentsmanager.py:1188: sphinx_gallery is not available
SKIPPED [1] tests/test_pre_commit_5_reformat_markdown.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_formats.py:324: pandoc>=2.11 is not available
SKIPPED [15] tests/test_cli.py:557: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1075: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:795: sphinx_gallery is not available
SKIPPED [5] tests/test_cli.py:1005: pandoc>=2.11 is not available
SKIPPED [3] tests/test_cli.py:991: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1188: Please run 'python -m ipykernel install --name python_kernel --user'
SKIPPED [1] tests/test_pre_commit_3_sync_black_nbstripout.py:13: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_auto_ext.py:36: No file_extension in language_info
SKIPPED [1] tests/test_pre_commit_1_sync.py:17: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_scripts.py:335: pandoc>=2.11 is not available
SKIPPED [1] tests/test_pre_commit_2_sync_nbstripout.py:14: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_ipynb_to_myst.py:162: myst is available
SKIPPED [1] tests/test_ipynb_to_myst.py:171: myst is available
SKIPPED [1] tests/test_execute.py:150: irkernel is not installed
SKIPPED [1] tests/test_pre_commit_4_sync_execute.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_read_simple_pandoc.py:50: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:35: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:13: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:64: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:82: Pandoc is installed
SKIPPED [1] tests/test_black.py:68: autopep8 not found
SKIPPED [17] tests/test_mirror.py:131: pandoc>=2.11 is not available
SKIPPED [11] tests/test_mirror.py:151: sphinx_gallery is not available
SKIPPED [1] tests/test_mirror.py:208: sphinx_gallery is not available
SKIPPED [1] tests/test_mirror.py:202: sphinx_gallery is not available
XFAIL tests/test_auto_ext.py::test_auto_from_kernelspecs_works[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/notebooks/ipynb_sage/sage_print_hello.ipynb]
reason: Sage notebooks have Python in their language_info metadata, see #727
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[r echo=FALSE-language_and_metadata3] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[python include=FALSE, active="Rmd"-language_and_metadata8] - AssertionError:
======================================= 2 failed, 2477 passed, 94 skipped, 8 deselected, 1 xfailed, 57 warnings in 229.48s (0:03:49) ======================================= |
|
Yep pytest is OK with disabled + /usr/bin/pytest -ra -p no:randomly
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.11, pytest-6.2.5, py-1.10.0, pluggy-0.13.1
benchmark: 3.4.1 (defaults: timer=time.perf_counter disable_gc=False min_rounds=5 min_time=0.000005 max_time=1.0 calibration_precision=10 warmup=False warmup_iterations=100000)
rootdir: /home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5
plugins: forked-1.3.0, shutil-1.7.0, virtualenv-1.7.0, expect-1.1.0, flake8-1.0.7, timeout-1.4.2, betamax-0.8.1, freezegun-0.4.2, aspectlib-1.5.2, toolbox-0.5, rerunfailures-9.1.1, requests-mock-1.9.3, cov-2.12.1, flaky-3.7.0, benchmark-3.4.1, xdist-2.3.0, pylama-7.7.1, datadir-1.3.1, regressions-2.2.0, cases-3.6.3, xprocess-0.18.1, black-0.3.12, anyio-3.3.0, asyncio-0.15.1, trio-0.7.0, subtests-0.5.0, isort-2.0.0, hypothesis-6.14.6, mock-3.6.1, profiling-1.7.0, Faker-8.12.1, nose2pytest-1.0.8, pyfakefs-4.5.1, tornado-0.8.1
collected 2582 items
tests/test_active_cells.py ............................ [ 1%]
tests/test_auto_ext.py .............................................................x.s....................... [ 4%]
tests/test_black.py ...s......... [ 4%]
tests/test_cell_id.py . [ 4%]
tests/test_cell_metadata.py ............................................................ [ 7%]
tests/test_cells.py ............... [ 7%]
tests/test_changelog.py ... [ 8%]
tests/test_cli.py .................................................................................................................................................. [ 13%]
........................................................sssssssssssssss............................................................................................. [ 20%]
s........................................................................ssssssss...s....s................ [ 24%]
tests/test_cli_config.py ........... [ 24%]
tests/test_cm_config.py ............ [ 25%]
tests/test_combine.py .................................................. [ 26%]
tests/test_compare.py ..................... [ 27%]
tests/test_config.py ................. [ 28%]
tests/test_contentsmanager.py ...................................................sssssssssssssssss.................................................................. [ 33%]
.................................................................................................................................................................... [ 39%]
................................................................................................................................s................................... [ 46%]
..ss [ 46%]
tests/test_custom_cell_magics.py . [ 46%]
tests/test_doxygen.py .......... [ 46%]
tests/test_escape_magics.py ................................................................................ [ 50%]
tests/test_execute.py ......s. [ 50%]
tests/test_formats.py ......................s.. [ 51%]
tests/test_header.py .......... [ 51%]
tests/test_hide_remove_input_outputs_rmarkdown.py ........ [ 51%]
tests/test_ipynb_to_R.py .... [ 52%]
tests/test_ipynb_to_myst.py .......ss... [ 52%]
tests/test_ipynb_to_py.py .................... [ 53%]
tests/test_ipynb_to_rmd.py ........................ [ 54%]
tests/test_isort.py . [ 54%]
tests/test_jupytext_errors.py .. [ 54%]
tests/test_jupytext_nbconvert_round_trip.py ....................... [ 55%]
tests/test_jupytext_read.py .. [ 55%]
tests/test_knitr_spin.py . [ 55%]
tests/test_load_multiple.py .. [ 55%]
tests/test_markdown_in_code_cells.py .... [ 55%]
tests/test_metadata_filter.py ................. [ 56%]
tests/test_metadata_filters_from_config.py . [ 56%]
tests/test_mirror.py ............................................................................................................................................... [ 61%]
..................................................................................sssssssssssssssss..........................................sssssssssss............ [ 68%]
...ss................................................................................................... [ 72%]
tests/test_nbformat_version.py ....... [ 72%]
tests/test_paired_paths.py ...................... [ 73%]
tests/test_pep8.py ................................................................................................................... [ 77%]
tests/test_pre_commit_0_ipynb_to_py.py s [ 77%]
tests/test_pre_commit_1_sync.py s [ 77%]
tests/test_pre_commit_2_sync_nbstripout.py s [ 77%]
tests/test_pre_commit_3_sync_black_nbstripout.py s [ 78%]
tests/test_pre_commit_4_sync_execute.py s [ 78%]
tests/test_pre_commit_5_reformat_markdown.py s [ 78%]
tests/test_pre_commit_mode.py ............ [ 78%]
tests/test_pre_commit_scripts.py .......s [ 78%]
tests/test_preserve_empty_cells.py ....... [ 79%]
tests/test_pytest.py .. [ 79%]
tests/test_read_all_py.py .......................................................................................................... [ 83%]
tests/test_read_dotnet_try_markdown.py ... [ 83%]
tests/test_read_folding_markers.py ..... [ 83%]
tests/test_read_incomplete_rmd.py ... [ 83%]
tests/test_read_simple_R.py ............ [ 84%]
tests/test_read_simple_clojure.py . [ 84%]
tests/test_read_simple_csharp.py ....... [ 84%]
tests/test_read_simple_groovy.py . [ 84%]
tests/test_read_simple_hydrogen.py ....... [ 84%]
tests/test_read_simple_ipynb.py . [ 84%]
tests/test_read_simple_java.py . [ 84%]
tests/test_read_simple_julia.py . [ 84%]
tests/test_read_simple_markdown.py .................................... [ 86%]
tests/test_read_simple_matlab.py .. [ 86%]
tests/test_read_simple_nomarker.py .. [ 86%]
tests/test_read_simple_pandoc.py sssss [ 86%]
tests/test_read_simple_percent.py ...................... [ 87%]
tests/test_read_simple_python.py ................................................ [ 89%]
tests/test_read_simple_rmd.py ......... [ 89%]
tests/test_read_simple_rust.py ... [ 89%]
tests/test_read_simple_scheme.py . [ 89%]
tests/test_read_simple_sphinx.py ... [ 90%]
tests/test_read_write_functions.py ..... [ 90%]
tests/test_rmd_to_ipynb.py ...... [ 90%]
tests/test_save_multiple.py ..................................................... [ 92%]
tests/test_stringparser.py .... [ 92%]
tests/test_trust_notebook.py ................................................ [ 94%]
tests/test_unicode.py ............................... [ 95%]
tests/test_using_cli.py . [ 95%]
tests/test_write_does_not_modify_notebook.py .............................................................................................................. [100%]
============================================================================= warnings summary =============================================================================
jupytext/cell_reader.py:20
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/cell_reader.py:20: UserWarning: Sphinx Gallery in version 0.9.0 is not supported by Jupytext. Please use sphinx-gallery<=0.7.0 instead. If that is an issue, feel free to report it at https://github.com/mwouts/jupytext/issues, or even better, prepare a PR to handle the new signature of sphinx_gallery.notebook.rst2md.
warnings.warn(
tests/test_cli.py::test_utf8_out_331
/usr/lib/python3.8/site-packages/nbconvert/exporters/html.py:110: DeprecationWarning: 'contextfilter' is renamed to 'pass_context', the old name will be removed in Jinja 3.1.
def markdown2html(self, context, source):
tests/test_cli.py::test_cli_expect_errors
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/jupytext/cli.py:332: DeprecationWarning: The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
warnings.warn(
tests/test_cli.py::test_format_prefix_suffix
[warning] You have passed a file name to the '--to' option, when a format description was expected. Maybe you want to use the '-o' option instead?
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
[warning] Passing unrecognized arguments to super(JupytextConfiguration).__init__(not_a_jupytext_option=True).
object.__init__() takes exactly one argument (the instance to initialize)
This is deprecated in traitlets 4.2.This error will be raised in a future release of traitlets.
tests/test_contentsmanager.py: 48 warnings
[warning] GObject.GError is deprecated; use GLib.GError instead
tests/test_pre_commit_scripts.py::test_manual_call_of_pre_commit_hook
[warning] The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
-- Docs: https://docs.pytest.org/en/stable/warnings.html
========================================================================= short test summary info ==========================================================================
SKIPPED [1] tests/test_auto_ext.py:36: No file_extension in language_info
SKIPPED [1] tests/test_black.py:68: autopep8 not found
SKIPPED [15] tests/test_cli.py:557: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:795: sphinx_gallery is not available
SKIPPED [3] tests/test_cli.py:991: pandoc>=2.11 is not available
SKIPPED [5] tests/test_cli.py:1005: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1075: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1188: Please run 'python -m ipykernel install --name python_kernel --user'
SKIPPED [17] tests/test_contentsmanager.py:180: pandoc>=2.11 is not available
SKIPPED [1] tests/test_contentsmanager.py:1188: sphinx_gallery is not available
SKIPPED [2] tests/test_contentsmanager.py:1765: jupyterfs is not available
SKIPPED [1] tests/test_execute.py:150: irkernel is not installed
SKIPPED [1] tests/test_formats.py:324: pandoc>=2.11 is not available
SKIPPED [1] tests/test_ipynb_to_myst.py:162: myst is available
SKIPPED [1] tests/test_ipynb_to_myst.py:171: myst is available
SKIPPED [17] tests/test_mirror.py:131: pandoc>=2.11 is not available
SKIPPED [11] tests/test_mirror.py:151: sphinx_gallery is not available
SKIPPED [1] tests/test_mirror.py:202: sphinx_gallery is not available
SKIPPED [1] tests/test_mirror.py:208: sphinx_gallery is not available
SKIPPED [1] tests/test_pre_commit_0_ipynb_to_py.py:16: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_1_sync.py:17: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_2_sync_nbstripout.py:14: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_3_sync_black_nbstripout.py:13: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_4_sync_execute.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_5_reformat_markdown.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_scripts.py:335: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:13: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:35: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:50: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:64: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:82: Pandoc is installed
XFAIL tests/test_auto_ext.py::test_auto_from_kernelspecs_works[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.5/tests/notebooks/ipynb_sage/sage_print_hello.ipynb]
reason: Sage notebooks have Python in their language_info metadata, see #727
=================================================== 2487 passed, 94 skipped, 1 xfailed, 57 warnings in 156.47s (0:02:36) ===================================================
pytest-xprocess reminder::Be sure to terminate the started process by running 'pytest --xkill' if you have not explicitly done so in your fixture with 'xprocess.getinfo(<process_name>).terminate()'.If you want to fix that kind of issues you need to use https://github.com/mrbean-bremen/pytest-find-dependencies/ |
kloczek
changed the title
pytest-randomly plugin is used
|
In other words there are still two minor issues:
|
|
Hi @kloczek , yes last time I took a note about warnings at #823, but I've had no time to make progress there (and I am still willing to) I am a bit surprised that the tests above show dependencies between units. What I think I saw in the first error above was something different, like an incorrect parameterization - I have prepared input and outputs as a list of tuple, but these inputs+outputs don't seem to be presented in pairs to the test function. Do you have a clue of what is happening there? Thanks! |
|
That is fine. This issue is not critical but kind of minior. |
|
Just tested 1.13.3 and still with + PYTHONPATH=/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.13.3-2.fc35.x86_64/usr/lib64/python3.8/site-packages:/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.13.3-2.fc35.x86_64/usr/lib/python3.8/site-packages
+ /usr/bin/pytest -ra
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.12, pytest-6.2.5, py-1.10.0, pluggy-0.13.1
benchmark: 3.4.1 (defaults: timer=time.perf_counter disable_gc=False min_rounds=5 min_time=0.000005 max_time=1.0 calibration_precision=10 warmup=False warmup_iterations=100000)
Using --randomly-seed=2734066668
rootdir: /home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3
plugins: shutil-1.7.0, virtualenv-1.7.0, mock-3.6.1, cov-2.12.1, anyio-3.3.4, forked-1.3.0, xdist-2.3.0, flaky-3.7.0, tornasync-0.6.0.post2, console-scripts-1.2.0, trio-0.7.0, timeout-2.0.1, asyncio-0.16.0, freezegun-0.4.2, flake8-1.0.7, pyfakefs-4.5.3, hypothesis-6.29.3, benchmark-3.4.1, profiling-1.7.0, datadir-1.3.1, regressions-2.2.0, randomly-3.8.0
collected 2678 items
tests/test_read_simple_clojure.py . [ 0%]
tests/test_knitr_spin.py . [ 0%]
tests/test_ipynb_to_rmd.py ........................ [ 0%]
tests/test_black.py ......s...... [ 1%]
tests/test_read_simple_python.py ................................................ [ 3%]
tests/test_ipynb_to_myst.py .s...s...... [ 3%]
tests/test_ipynb_to_R.py .... [ 3%]
tests/test_read_write_functions.py ..... [ 4%]
tests/test_read_incomplete_rmd.py ... [ 4%]
tests/test_read_simple_quarto.py s [ 4%]
tests/test_read_simple_matlab.py .. [ 4%]
tests/test_read_simple_groovy.py . [ 4%]
tests/test_cli_config.py ........... [ 4%]
tests/test_config.py .................. [ 5%]
tests/test_pre_commit_3_sync_black_nbstripout.py s [ 5%]
tests/test_cells.py ................ [ 6%]
tests/test_rmd_to_ipynb.py ...... [ 6%]
tests/test_pre_commit_scripts.py .......s [ 6%]
tests/test_isort.py s [ 6%]
tests/test_using_cli.py . [ 6%]
tests/test_pre_commit_4_sync_execute.py s [ 6%]
tests/test_cell_metadata.py .....................................F..F..FFFF......F...... [ 8%]
tests/test_read_simple_rust.py ... [ 8%]
tests/test_read_simple_percent.py ...................... [ 9%]
tests/test_execute.py ......s. [ 10%]
tests/test_load_multiple.py .. [ 10%]
tests/test_hide_remove_input_outputs_rmarkdown.py ........ [ 10%]
tests/test_pre_commit_5_reformat_markdown.py s [ 10%]
tests/test_combine.py ................................................... [ 12%]
tests/test_trust_notebook.py ................................................. [ 14%]
tests/test_stringparser.py .... [ 14%]
tests/test_cell_markers.py .. [ 14%]
tests/test_read_simple_julia.py . [ 14%]
tests/test_compare.py ..................... [ 15%]
tests/test_read_simple_scheme.py . [ 15%]
tests/test_metadata_filter.py ................. [ 15%]
tests/test_cm_config.py ............. [ 16%]
tests/test_read_simple_java.py . [ 16%]
tests/test_read_simple_R.py ............ [ 16%]
tests/test_markdown_in_code_cells.py .... [ 17%]
tests/test_metadata_filters_from_config.py . [ 17%]
tests/test_cell_id.py . [ 17%]
tests/test_read_simple_markdown.py .................................... [ 18%]
tests/test_read_simple_rmd.py .......... [ 18%]
tests/test_read_folding_markers.py ..... [ 19%]
tests/test_read_simple_ocaml.py .. [ 19%]
tests/test_read_simple_pandoc.py .ssss [ 19%]
tests/test_active_cells.py ............................ [ 20%]
tests/test_cli.py ......s.s......s.............s.s.........s..s.............ss...................................................................................... [ 25%]
.s...................sss............s.................s...............................s..........s............................s................s.................... [ 31%]
..............................s.........s........s.s.....s...............s...................s.............. [ 35%]
tests/test_read_all_py.py ................................................................................................................ [ 40%]
tests/test_jupytext_errors.py .. [ 40%]
tests/test_doxygen.py .......... [ 40%]
tests/test_write_does_not_modify_notebook.py .............................................................................................................. [ 44%]
tests/test_preserve_empty_cells.py ....... [ 44%]
tests/test_auto_ext.py ...........................x......................s..................................... [ 48%]
tests/test_jupytext_read.py .. [ 48%]
tests/test_read_simple_csharp.py ....... [ 48%]
tests/test_header.py .......... [ 48%]
tests/test_pre_commit_mode.py ............ [ 49%]
tests/test_paired_paths.py ...................... [ 50%]
tests/test_pep8.py ......................................................................................................................... [ 54%]
tests/test_jupytext_nbconvert_round_trip.py ....................... [ 55%]
tests/test_save_multiple.py ..................................................... [ 57%]
tests/test_read_empty_text_notebook.py s.................................. [ 58%]
tests/test_ipynb_to_py.py .................... [ 59%]
tests/test_pre_commit_2_sync_nbstripout.py s [ 59%]
tests/test_read_simple_hydrogen.py ....... [ 59%]
tests/test_pre_commit_0_ipynb_to_py.py s [ 60%]
tests/test_read_simple_nomarker.py .. [ 60%]
tests/test_read_simple_ipynb.py . [ 60%]
tests/test_pytest.py .. [ 60%]
tests/test_escape_magics.py ................................................................................ [ 63%]
tests/test_pre_commit_1_sync.py s [ 63%]
tests/test_nbformat_version.py ....... [ 63%]
tests/test_read_dotnet_try_markdown.py ... [ 63%]
tests/test_formats.py ..............s............. [ 64%]
tests/test_mirror.py ........s......s...................................s........s....................s......s.s..........s...s...s..s....................s..s...... [ 69%]
...s...................s........................s......s...........s...................s.......s...s....ss..............s..........s......s...........s........s.... [ 76%]
.............s...........................................................s.s.......s........s...s..s........s..s...... [ 80%]
tests/test_raw_strings.py ......... [ 80%]
tests/test_read_simple_sphinx.py ... [ 80%]
tests/test_changelog.py ... [ 81%]
tests/test_custom_cell_magics.py . [ 81%]
tests/test_unicode.py ............................... [ 82%]
tests/test_contentsmanager.py ...s.........................s.......s.............................s........................s..................s...................... [ 87%]
.........s......................s...s......s.....................s.................................s.........s.......................................s.s.........s.. [ 93%]
.........................s.s.........................s.............................s.................s...s..........s.......s.........s.........s.................s. [ 99%]
............. [100%]
================================================================================= FAILURES =================================================================================
____________________________________________ test_parse_rmd_options[python include=FALSE, active="Rmd"-language_and_metadata8] _____________________________________________
options = 'python include=FALSE, active="Rmd"', language_and_metadata = ('python', {'active': 'Rmd'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('python', {'active': 'Rmd', 'tags': ['remove_cell']}), expected = ('python', {'active': 'Rmd'}), actual_name = 'actual', expected_name = 'expected'
return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1,6 +1,9 @@
E [
E "python",
E {
E - "active": "Rmd"
E + "active": "Rmd",
E + "tags": [
E + "remove_cell"
E + ]
E }
E ]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
___________________________________________ test_build_options[r chunk_name, include=FALSE, active="Rmd"-language_and_metadata9] ___________________________________________
options = 'r chunk_name, include=FALSE, active="Rmd"', language_and_metadata = ('R', {'active': 'Rmd'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'r active="Rmd"', expected = 'r chunk_name, include=FALSE, active="Rmd"', actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -r chunk_name, include=FALSE, active="Rmd"
E +r active="Rmd"
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
__________________________________________ test_parse_rmd_options[r plot_1, dpi=72, fig.path="fig_path/"-language_and_metadata1] ___________________________________________
options = 'r plot_1, dpi=72, fig.path="fig_path/"', language_and_metadata = ('R', {'dpi': 72, 'fig.path': 'fig_path/'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('R', {'dpi': 72, 'fig.path': 'fig_path/', 'name': 'plot_1'}), expected = ('R', {'dpi': 72, 'fig.path': 'fig_path/'}), actual_name = 'actual'
expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -2,6 +2,7 @@
E "R",
E {
E "dpi": 72,
E - "fig.path": "fig_path/"
E + "fig.path": "fig_path/",
E + "name": "plot_1"
E }
E ]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
_________________________________________ test_parse_rmd_options[r chunk_name, include=FALSE, active="Rmd"-language_and_metadata9] _________________________________________
options = 'r chunk_name, include=FALSE, active="Rmd"', language_and_metadata = ('R', {'active': 'Rmd'})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('R', {'active': 'Rmd', 'name': 'chunk_name', 'tags': ['remove_cell']}), expected = ('R', {'active': 'Rmd'}), actual_name = 'actual', expected_name = 'expected'
return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1,6 +1,10 @@
E [
E "R",
E {
E - "active": "Rmd"
E + "active": "Rmd",
E + "name": "chunk_name",
E + "tags": [
E + "remove_cell"
E + ]
E }
E ]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
_______________________________ test_parse_rmd_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6] ________________________________
options = 'python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}', language_and_metadata = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'tags': ['a', 'b', 'c']})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_parse_rmd_options(options, language_and_metadata):
> compare(rmd_options_to_metadata(options), language_and_metadata)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:59:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'name': 'noname', 'tags': ['a', 'b', 'c']})
expected = ('python', {'echo': '#R_CODE#{sum(a+c(1,2))>1}', 'tags': ['a', 'b', 'c']}), actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -2,6 +2,7 @@
E "python",
E {
E "echo": "#R_CODE#{sum(a+c(1,2))>1}",
E + "name": "noname",
E "tags": [
E "a",
E "b",
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
_________________________________________________________ test_build_options[r echo=FALSE-language_and_metadata3] __________________________________________________________
options = 'r echo=FALSE', language_and_metadata = ('R', {})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'r', expected = 'r echo=FALSE', actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -r echo=FALSE
E +r
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
______________________________________________________ test_build_options[r plot_1, echo=TRUE-language_and_metadata4] ______________________________________________________
options = 'r plot_1, echo=TRUE', language_and_metadata = ('R', {'echo': True})
@pytest.mark.parametrize("options,language_and_metadata", SAMPLES)
def test_build_options(options, language_and_metadata):
> compare(metadata_to_rmd_options(*language_and_metadata), options)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/test_cell_metadata.py:64:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = 'r echo=TRUE', expected = 'r plot_1, echo=TRUE', actual_name = 'actual', expected_name = 'expected', return_diff = False
def compare(
actual, expected, actual_name="actual", expected_name="expected", return_diff=False
):
"""Compare two strings, lists or dict-like objects"""
if actual != expected:
diff = difflib.unified_diff(
_multilines(expected),
_multilines(actual),
expected_name,
actual_name,
lineterm="",
)
if expected_name == "" and actual_name == "":
diff = list(diff)[2:]
diff = "\n".join(diff)
if return_diff:
return diff
> raise AssertionError("\n" + diff)
E AssertionError:
E --- expected
E +++ actual
E @@ -1 +1 @@
E -r plot_1, echo=TRUE
E +r echo=TRUE
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/compare.py:47: AssertionError
============================================================================= warnings summary =============================================================================
jupytext/cell_reader.py:20
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/cell_reader.py:20: UserWarning: Sphinx Gallery in version 0.10.1 is not supported by Jupytext. Please use sphinx-gallery<=0.7.0 instead. If that is an issue, feel free to report it at https://github.com/mwouts/jupytext/issues, or even better, prepare a PR to handle the new signature of sphinx_gallery.notebook.rst2md.
warnings.warn(
../../../../../usr/lib/python3.8/site-packages/jsonschema/validators.py:190: 67 warnings
tests/test_read_simple_clojure.py: 6 warnings
tests/test_knitr_spin.py: 23 warnings
tests/test_ipynb_to_rmd.py: 167 warnings
tests/test_black.py: 46 warnings
tests/test_read_simple_python.py: 194 warnings
tests/test_ipynb_to_myst.py: 20 warnings
tests/test_ipynb_to_R.py: 24 warnings
tests/test_read_write_functions.py: 10 warnings
tests/test_read_incomplete_rmd.py: 10 warnings
tests/test_read_simple_matlab.py: 2 warnings
tests/test_read_simple_groovy.py: 6 warnings
tests/test_cli_config.py: 20 warnings
tests/test_cells.py: 12 warnings
tests/test_rmd_to_ipynb.py: 58 warnings
tests/test_pre_commit_scripts.py: 7 warnings
tests/test_using_cli.py: 44 warnings
tests/test_read_simple_rust.py: 19 warnings
tests/test_read_simple_percent.py: 63 warnings
tests/test_execute.py: 34 warnings
tests/test_load_multiple.py: 2 warnings
tests/test_hide_remove_input_outputs_rmarkdown.py: 16 warnings
tests/test_combine.py: 41 warnings
tests/test_trust_notebook.py: 697 warnings
tests/test_cell_markers.py: 2 warnings
tests/test_read_simple_julia.py: 5 warnings
tests/test_compare.py: 64 warnings
tests/test_read_simple_scheme.py: 12 warnings
tests/test_metadata_filter.py: 9 warnings
tests/test_cm_config.py: 8 warnings
tests/test_read_simple_java.py: 6 warnings
tests/test_read_simple_R.py: 50 warnings
tests/test_markdown_in_code_cells.py: 7 warnings
tests/test_metadata_filters_from_config.py: 3 warnings
tests/test_cell_id.py: 2 warnings
tests/test_read_simple_markdown.py: 103 warnings
tests/test_read_simple_rmd.py: 37 warnings
tests/test_read_folding_markers.py: 16 warnings
tests/test_read_simple_ocaml.py: 2 warnings
tests/test_active_cells.py: 32 warnings
tests/test_cli.py: 206 warnings
/usr/lib/python3.8/site-packages/jsonschema/validators.py:190: DeprecationWarning: Passing a schema to Validator.iter_errors is deprecated and will be removed in a future release. Call validator.evolve(schema=new_schema).iter_errors(...) instead.
warnings.warn(
tests/test_pre_commit_scripts.py::test_manual_call_of_pre_commit_hook
/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/jupytext/cli.py:341: DeprecationWarning: The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
warnings.warn(
tests/test_using_cli.py::test_jupytext_commands_in_the_documentation_work
/usr/lib/python3.8/site-packages/nbconvert/exporters/html.py:110: DeprecationWarning: 'contextfilter' is renamed to 'pass_context', the old name will be removed in Jinja 3.1.
def markdown2html(self, context, source):
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
tests/test_cm_config.py::test_incorrect_config_message[.jupytext.py-c.not_a_jupytext_option = True]
tests/test_cm_config.py::test_incorrect_config_message[pyproject.toml-[tool.jupytext]\nnot_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[pyproject.toml-[tool.jupytext]\nnot_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
tests/test_cm_config.py::test_incorrect_config_message[jupytext.toml-not_a_jupytext_option = true]
/usr/lib/python3.8/site-packages/traitlets/config/configurable.py:85: DeprecationWarning: Passing unrecognized arguments to super(JupytextConfiguration).__init__(not_a_jupytext_option=True).
object.__init__() takes exactly one argument (the instance to initialize)
This is deprecated in traitlets 4.2.This error will be raised in a future release of traitlets.
super(Configurable, self).__init__(**kwargs)
tests/test_cli.py::test_format_prefix_suffix
[warning] You have passed a file name to the '--to' option, when a format description was expected. Maybe you want to use the '-o' option instead?
tests/test_cli.py: 2821 warnings
tests/test_read_all_py.py: 2504 warnings
tests/test_doxygen.py: 3 warnings
tests/test_write_does_not_modify_notebook.py: 200 warnings
tests/test_preserve_empty_cells.py: 47 warnings
tests/test_auto_ext.py: 195 warnings
tests/test_jupytext_read.py: 2 warnings
tests/test_read_simple_csharp.py: 8 warnings
tests/test_header.py: 7 warnings
tests/test_pre_commit_mode.py: 27 warnings
tests/test_paired_paths.py: 3 warnings
tests/test_pep8.py: 1273 warnings
tests/test_jupytext_nbconvert_round_trip.py: 53 warnings
tests/test_save_multiple.py: 512 warnings
tests/test_ipynb_to_py.py: 119 warnings
tests/test_read_simple_hydrogen.py: 21 warnings
tests/test_read_simple_nomarker.py: 14 warnings
tests/test_pytest.py: 5 warnings
tests/test_escape_magics.py: 67 warnings
tests/test_nbformat_version.py: 5 warnings
tests/test_read_dotnet_try_markdown.py: 3 warnings
tests/test_formats.py: 4 warnings
tests/test_mirror.py: 4393 warnings
tests/test_raw_strings.py: 8 warnings
tests/test_read_simple_sphinx.py: 19 warnings
tests/test_custom_cell_magics.py: 3 warnings
tests/test_unicode.py: 46 warnings
tests/test_contentsmanager.py: 3594 warnings
[warning] Passing a schema to Validator.iter_errors is deprecated and will be removed in a future release. Call validator.evolve(schema=new_schema).iter_errors(...) instead.
tests/test_cli.py::test_cli_expect_errors
[warning] The --pre-commit argument is deprecated. Please consider switching to the pre-commit.com framework (let us know at https://github.com/mwouts/jupytext/issues if that is an issue for you)
tests/test_contentsmanager.py: 48 warnings
[warning] GObject.GError is deprecated; use GLib.GError instead
-- Docs: https://docs.pytest.org/en/stable/warnings.html
========================================================================= short test summary info ==========================================================================
SKIPPED [1] tests/test_black.py:68: autopep8 not found
SKIPPED [1] tests/test_ipynb_to_myst.py:162: myst is available
SKIPPED [1] tests/test_ipynb_to_myst.py:171: myst is available
SKIPPED [1] tests/test_read_simple_quarto.py:9: quarto>=0.2 is not available
SKIPPED [1] tests/test_pre_commit_3_sync_black_nbstripout.py:13: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_scripts.py:335: pandoc>=2.11 is not available
SKIPPED [1] tests/test_isort.py:8: isort not found
SKIPPED [1] tests/test_pre_commit_4_sync_execute.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_execute.py:150: irkernel is not installed
SKIPPED [1] tests/test_pre_commit_5_reformat_markdown.py:15: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_read_simple_pandoc.py:35: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:50: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:13: pandoc>=2.11 is not available
SKIPPED [1] tests/test_read_simple_pandoc.py:64: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:796: sphinx_gallery is not available
SKIPPED [5] tests/test_cli.py:1010: pandoc>=2.11 is not available
SKIPPED [15] tests/test_cli.py:558: pandoc>=2.11 is not available
SKIPPED [3] tests/test_cli.py:996: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1080: pandoc>=2.11 is not available
SKIPPED [1] tests/test_cli.py:1220: Please run 'python -m ipykernel install --name python_kernel --user'
SKIPPED [1] tests/test_auto_ext.py:36: No file_extension in language_info
SKIPPED [1] tests/test_read_empty_text_notebook.py:14: quarto is not available
SKIPPED [1] tests/test_pre_commit_2_sync_nbstripout.py:14: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_0_ipynb_to_py.py:16: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_pre_commit_1_sync.py:17: Jupytext folder is not a git repository #814
SKIPPED [1] tests/test_formats.py:350: pandoc>=2.11 is not available
SKIPPED [17] tests/test_mirror.py:132: pandoc>=2.11 is not available
SKIPPED [1] tests/test_mirror.py:225: sphinx_gallery is not available
SKIPPED [7] tests/test_mirror.py:141: quarto>=0.2 is not available
SKIPPED [11] tests/test_mirror.py:168: sphinx_gallery is not available
SKIPPED [1] tests/test_mirror.py:219: sphinx_gallery is not available
SKIPPED [17] tests/test_contentsmanager.py:181: pandoc>=2.11 is not available
SKIPPED [7] tests/test_contentsmanager.py:204: quarto>=0.2 is not available
SKIPPED [2] tests/test_contentsmanager.py:1867: jupyterfs is not available
SKIPPED [1] tests/test_contentsmanager.py:1290: sphinx_gallery is not available
XFAIL tests/test_auto_ext.py::test_auto_from_kernelspecs_works[/home/tkloczko/rpmbuild/BUILD/jupytext-1.13.3/tests/notebooks/ipynb_sage/sage_print_hello.ipynb]
reason: Sage notebooks have Python in their language_info metadata, see #727
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[python include=FALSE, active="Rmd"-language_and_metadata8] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[r chunk_name, include=FALSE, active="Rmd"-language_and_metadata9] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[r plot_1, dpi=72, fig.path="fig_path/"-language_and_metadata1] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[r chunk_name, include=FALSE, active="Rmd"-language_and_metadata9] - AssertionError:
FAILED tests/test_cell_metadata.py::test_parse_rmd_options[python noname, tags=c("a", "b", "c"), echo={sum(a+c(1,2))>1}-language_and_metadata6] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[r echo=FALSE-language_and_metadata3] - AssertionError:
FAILED tests/test_cell_metadata.py::test_build_options[r plot_1, echo=TRUE-language_and_metadata4] - AssertionError:
============================================ 7 failed, 2560 passed, 110 skipped, 1 xfailed, 18167 warnings in 333.95s (0:05:33) ============================================ |
|
Hi @kloczek , sorry I still haven't find the time to fix this - I hope to unpile this issue in the coming weeks. |
|
No ruch .. for now I'm testing with |
|
I've tested 40b122c and lookd like it works. Thank you :) |
|
You're welcome! Thank you for introducing me to BTW I also plan to reduce the number of warnings soon with #893 |
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I'm trying to package your module as rpm packag. So I'm using typical in such case build, install and test cycle used on building package from non-root account:
May I ask for help because few units are failing:
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