1.11.3: pytest is failing #814
Comments
|
Hi @kloczek , thanks for reporting this. Indeed some of the tests (eg the ones on the pre-commit hook) assume that the jupytext directory is a git folder. That assumption does not seem to hold in your case. Could you please tell us a bit more about your use case, and how I can reproduce? Thanks ! |
|
Just tested that patch. Still there are some failing units however it some fails gone. + PYTHONPATH=/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.fc35.x86_64/usr/lib64/python3.8/site-packages:/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.fc35.x86_64/usr/lib/python3.8/site-packages
+ /usr/bin/pytest -ra
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.11, pytest-6.2.4, 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-1.11.3
plugins: forked-1.3.0, shutil-1.7.0, virtualenv-1.7.0, expect-1.1.0, httpbin-1.0.0, flake8-1.0.7, timeout-1.4.2, betamax-0.8.1, freezegun-0.4.2, case-1.5.3, isort-1.3.0, aspectlib-1.5.2, asyncio-0.15.1, toolbox-0.5, xprocess-0.17.1, aiohttp-0.3.0, checkdocs-2.7.0, mock-3.6.1, rerunfailures-9.1.1, requests-mock-1.9.3, cov-2.12.1, pyfakefs-4.5.0, flaky-3.7.0, hypothesis-6.14.0, benchmark-3.4.1, xdist-2.3.0, pylama-7.7.1, datadir-1.3.1, regressions-2.2.0, cases-3.6.3, Faker-8.10.0
collected 2579 items
. . [ 0%]
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 . [ 5%]
tests/test_cell_metadata.py ............................................................ [ 7%]
tests/test_cells.py ............... [ 7%]
tests/test_changelog.py ... [ 8%]
tests/test_cli.py .................................................................................................................................................. [ 13%]
.................................................................................................................................................................... [ 20%]
F........................................................................................s................ [ 24%]
tests/test_cli_config.py ........... [ 24%]
tests/test_cm_config.py ............ [ 25%]
tests/test_combine.py .................................................. [ 27%]
tests/test_compare.py ..................... [ 27%]
tests/test_config.py ................. [ 28%]
tests/test_contentsmanager.py ...................................................................................................................................... [ 33%]
.................................................................................................................................................................... [ 40%]
................................................................................................................................F................................... [ 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 ......................... [ 51%]
tests/test_header.py .......... [ 51%]
tests/test_hide_remove_input_outputs_rmarkdown.py ........ [ 52%]
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%]
..................................................................................F................................................................................. [ 68%]
....F................................................................................................... [ 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 [ 77%]
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 ........ [ 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 ....s [ 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 ... [ 89%]
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%]
================================================================================= FAILURES =================================================================================
_______________________________________________________________________________ test_rst2md ________________________________________________________________________________
tmpdir = local('/tmp/pytest-of-tkloczko/pytest-43/test_rst2md0'), cwd_tmpdir = local('/tmp/pytest-of-tkloczko/pytest-43/test_rst2md0')
@requires_sphinx_gallery
def test_rst2md(tmpdir, cwd_tmpdir):
tmp_py = "notebook.py"
tmp_ipynb = "notebook.ipynb"
# Write notebook in sphinx format
nb = new_notebook(
cells=[
new_markdown_cell("A short sphinx notebook"),
new_markdown_cell(":math:`1+1`"),
]
)
write(nb, tmp_py, fmt="py:sphinx")
> jupytext(
[
tmp_py,
"--from",
"py:sphinx",
"--to",
"ipynb",
"--opt",
"rst2md=True",
"--opt",
"cell_metadata_filter=-all",
]
)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/test_cli.py:809:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cli.py:434: in jupytext
exit_code += jupytext_single_file(nb_file, args, log)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cli.py:501: in jupytext_single_file
notebook = read(nb_file, fmt=fmt, config=config)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:435: in read
return read(stream, as_version=as_version, fmt=fmt, config=config, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:444: in read
return reads(fp.read(), fmt, config=config, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:396: in reads
notebook = reader.reads(text, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:136: in reads
cell, pos = reader.read(lines)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py:142: in read
pos_next_cell = self.find_cell_content(lines)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = <jupytext.cell_reader.SphinxGalleryScriptCellReader object at 0x7fe1f252f640>
lines = ['"""', 'A short sphinx notebook', '"""', '', '###############################################################################', '# :math:`1+1`']
def find_cell_content(self, lines):
"""Parse cell till its end and set content, lines_to_next_cell.
Return the position of next cell start"""
cell_end_marker, next_cell_start, explicit_eoc = self.find_cell_end(lines)
# Metadata to dict
cell_start = 0
if self.cell_type == "markdown":
if self.markdown_marker in ['"""', "'''"]:
# Remove the triple quotes
if lines[0].strip() == self.markdown_marker:
cell_start = 1
else:
lines[0] = lines[0][3:]
if not explicit_eoc:
last = lines[cell_end_marker - 1]
lines[cell_end_marker - 1] = last[
: last.rfind(self.markdown_marker)
]
if self.twenty_hash.match(self.markdown_marker):
cell_start = 1
else:
self.metadata = {}
# Cell content
source = lines[cell_start:cell_end_marker]
self.org_content = copy(source)
if self.cell_type == "code" and self.comment_magics:
uncomment_magic(source, self.language or self.default_language)
if self.cell_type == "markdown" and source:
if self.markdown_marker.startswith(self.comment):
source = uncomment(source, self.comment)
if self.rst2md:
if rst2md:
> source = rst2md("\n".join(source)).splitlines()
E TypeError: rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels'
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py:970: TypeError
--------------------------------------------------------------------------- Captured stdout call ---------------------------------------------------------------------------
[jupytext] Reading notebook.py in format py:sphinx
____________________________________________________________________________ test_rst2md_option ____________________________________________________________________________
self = <jupytext.contentsmanager.build_jupytext_contents_manager_class.<locals>.JupytextContentsManager object at 0x7fe1d9743a30>, path = 'notebook.py', content = True
type = None, format = None, load_alternative_format = True
def get(
self,
path,
content=True,
type=None,
format=None,
load_alternative_format=True,
):
"""Takes a path for an entity and returns its model"""
path = path.strip("/")
ext = os.path.splitext(path)[1]
# Not a notebook?
if (
not self.file_exists(path)
or self.dir_exists(path)
or (type is not None and type != "notebook")
):
return self.super.get(path, content, type, format)
config = self.get_config(path, use_cache=content is False)
if ext not in self.all_nb_extensions(config):
return self.super.get(path, content, type, format)
fmt = preferred_format(ext, config.preferred_jupytext_formats_read)
if ext == ".ipynb":
model = self.super.get(path, content, type="notebook", format=format)
else:
model = self.super.get(path, content, type="file", format=format)
model["type"] = "notebook"
if content:
# We may need to update these keys, inherited from text files formats
# Cf. https://github.com/mwouts/jupytext/issues/659
model["format"] = "json"
model["mimetype"] = None
try:
> model["content"] = jupytext.reads(
model["content"], fmt=fmt, config=config
)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/contentsmanager.py:215:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
text = '# ---\n# jupyter:\n# jupytext:\n# text_representation:\n# extension: .py\n# format_name: sphinx\n# ...hinx notebook\n"""\n\n###############################################################################\n# :math:`1+1`\n'
fmt = {'extension': '.py', 'format_name': 'sphinx'}, as_version = nbformat.NO_CONVERT
config = <jupytext.contentsmanager.build_jupytext_contents_manager_class.<locals>.JupytextContentsManager object at 0x7fe1d9743a30>, kwargs = {}, ext = '.py'
format_name = 'sphinx', format_options = {}, reader = <jupytext.jupytext.TextNotebookConverter object at 0x7fe1d9743eb0>
def reads(text, fmt=None, as_version=nbformat.NO_CONVERT, config=None, **kwargs):
"""
Read a notebook from a string
:param text: the text representation of the notebook
:param fmt: (optional) the jupytext format like `md`, `py:percent`, ...
:param as_version: see nbformat.reads
:param config: (optional) a Jupytext configuration object
:param kwargs: (not used) additional parameters for nbformat.reads
:return: the notebook
"""
fmt = copy(fmt) if fmt else divine_format(text)
fmt = long_form_one_format(fmt)
ext = fmt["extension"]
if ext == ".ipynb":
nb = nbformat.reads(text, as_version, **kwargs)
(version, version_minor) = nbformat.reader.get_version(nb)
if version != 4:
warnings.warn(
f"Notebooks in nbformat version {version}.{version_minor} are not supported by Jupytext. "
f"Please consider converting them to nbformat version 4.x with "
f"'jupyter nbconvert --to notebook --inplace'"
)
return nb
format_name = read_format_from_metadata(text, ext) or fmt.get("format_name")
if format_name:
format_options = {}
else:
format_name, format_options = guess_format(text, ext)
if format_name:
fmt["format_name"] = format_name
fmt.update(format_options)
reader = TextNotebookConverter(fmt, config)
> notebook = reader.reads(text, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:396:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = <jupytext.jupytext.TextNotebookConverter object at 0x7fe1d9743eb0>
s = '# ---\n# jupyter:\n# jupytext:\n# text_representation:\n# extension: .py\n# format_name: sphinx\n# ...hinx notebook\n"""\n\n###############################################################################\n# :math:`1+1`\n'
_ = {}, lines = ['"""', 'A short sphinx notebook', '"""', '', '###############################################################################', '# :math:`1+1`']
cells = [{'id': 'cell-7026', 'cell_type': 'code', 'metadata': {}, 'execution_count': None, 'source': '%matplotlib inline', 'outputs': []}]
metadata = {'jupytext': {'rst2md': False, 'text_representation': {'extension': '.py', 'format_name': 'sphinx', 'format_version': '1.1', 'jupytext_version': '1.11.3'}}}
jupyter_md = ['jupyter:', ' jupytext:', ' text_representation:', ' extension: .py', ' format_name: sphinx', " format_version: '1.1'", ...]
header_cell = None, pos = 10, default_language = 'python'
def reads(self, s, **_):
"""Read a notebook represented as text"""
if self.fmt.get("format_name") == "pandoc":
return md_to_notebook(s)
if self.fmt.get("format_name") == MYST_FORMAT_NAME:
return myst_to_notebook(s)
lines = s.splitlines()
cells = []
metadata, jupyter_md, header_cell, pos = header_to_metadata_and_cell(
lines,
self.implementation.header_prefix,
self.implementation.extension,
self.fmt.get(
"root_level_metadata_as_raw_cell",
self.config.root_level_metadata_as_raw_cell
if self.config is not None
else True,
),
)
default_language = default_language_from_metadata_and_ext(
metadata, self.implementation.extension
)
self.update_fmt_with_notebook_options(metadata, read=True)
if header_cell:
cells.append(header_cell)
lines = lines[pos:]
if (
self.implementation.format_name
and self.implementation.format_name.startswith("sphinx")
):
cells.append(new_code_cell(source="%matplotlib inline"))
cell_metadata_json = False
while lines:
reader = self.implementation.cell_reader_class(self.fmt, default_language)
> cell, pos = reader.read(lines)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:136:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = <jupytext.cell_reader.SphinxGalleryScriptCellReader object at 0x7fe1d97186d0>
lines = ['"""', 'A short sphinx notebook', '"""', '', '###############################################################################', '# :math:`1+1`']
def read(self, lines):
"""Read one cell from the given lines, and return the cell,
plus the position of the next cell
"""
# Do we have an explicit code marker on the first line?
self.metadata_and_language_from_option_line(lines[0])
if self.metadata and "language" in self.metadata:
self.language = self.metadata.pop("language")
# Parse cell till its end and set content, lines_to_next_cell
> pos_next_cell = self.find_cell_content(lines)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py:142:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = <jupytext.cell_reader.SphinxGalleryScriptCellReader object at 0x7fe1d97186d0>
lines = ['"""', 'A short sphinx notebook', '"""', '', '###############################################################################', '# :math:`1+1`']
def find_cell_content(self, lines):
"""Parse cell till its end and set content, lines_to_next_cell.
Return the position of next cell start"""
cell_end_marker, next_cell_start, explicit_eoc = self.find_cell_end(lines)
# Metadata to dict
cell_start = 0
if self.cell_type == "markdown":
if self.markdown_marker in ['"""', "'''"]:
# Remove the triple quotes
if lines[0].strip() == self.markdown_marker:
cell_start = 1
else:
lines[0] = lines[0][3:]
if not explicit_eoc:
last = lines[cell_end_marker - 1]
lines[cell_end_marker - 1] = last[
: last.rfind(self.markdown_marker)
]
if self.twenty_hash.match(self.markdown_marker):
cell_start = 1
else:
self.metadata = {}
# Cell content
source = lines[cell_start:cell_end_marker]
self.org_content = copy(source)
if self.cell_type == "code" and self.comment_magics:
uncomment_magic(source, self.language or self.default_language)
if self.cell_type == "markdown" and source:
if self.markdown_marker.startswith(self.comment):
source = uncomment(source, self.comment)
if self.rst2md:
if rst2md:
> source = rst2md("\n".join(source)).splitlines()
E TypeError: rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels'
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py:970: TypeError
During handling of the above exception, another exception occurred:
tmpdir = local('/tmp/pytest-of-tkloczko/pytest-43/test_rst2md_option0')
@requires_sphinx_gallery
def test_rst2md_option(tmpdir):
tmp_py = str(tmpdir.join("notebook.py"))
# Write notebook in sphinx format
nb = new_notebook(
cells=[
new_markdown_cell("A short sphinx notebook"),
new_markdown_cell(":math:`1+1`"),
]
)
write(nb, tmp_py, fmt="py:sphinx")
cm = jupytext.TextFileContentsManager()
cm.sphinx_convert_rst2md = True
cm.root_dir = str(tmpdir)
> nb2 = cm.get("notebook.py")["content"]
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/test_contentsmanager.py:1205:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = <jupytext.contentsmanager.build_jupytext_contents_manager_class.<locals>.JupytextContentsManager object at 0x7fe1d9743a30>, path = 'notebook.py', content = True
type = None, format = None, load_alternative_format = True
def get(
self,
path,
content=True,
type=None,
format=None,
load_alternative_format=True,
):
"""Takes a path for an entity and returns its model"""
path = path.strip("/")
ext = os.path.splitext(path)[1]
# Not a notebook?
if (
not self.file_exists(path)
or self.dir_exists(path)
or (type is not None and type != "notebook")
):
return self.super.get(path, content, type, format)
config = self.get_config(path, use_cache=content is False)
if ext not in self.all_nb_extensions(config):
return self.super.get(path, content, type, format)
fmt = preferred_format(ext, config.preferred_jupytext_formats_read)
if ext == ".ipynb":
model = self.super.get(path, content, type="notebook", format=format)
else:
model = self.super.get(path, content, type="file", format=format)
model["type"] = "notebook"
if content:
# We may need to update these keys, inherited from text files formats
# Cf. https://github.com/mwouts/jupytext/issues/659
model["format"] = "json"
model["mimetype"] = None
try:
model["content"] = jupytext.reads(
model["content"], fmt=fmt, config=config
)
except Exception as err:
self.log.error(
u"Error while reading file: %s %s", path, err, exc_info=True
)
> raise HTTPError(500, str(err))
E tornado.web.HTTPError: HTTP 500: Internal Server Error (rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels')
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/contentsmanager.py:222: HTTPError
---------------------------------------------------------------------------- Captured log call -----------------------------------------------------------------------------
ERROR traitlets:contentsmanager.py:219 Error while reading file: notebook.py rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels'
Traceback (most recent call last):
File "/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/contentsmanager.py", line 215, in get
model["content"] = jupytext.reads(
File "/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py", line 396, in reads
notebook = reader.reads(text, **kwargs)
File "/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py", line 136, in reads
cell, pos = reader.read(lines)
File "/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py", line 142, in read
pos_next_cell = self.find_cell_content(lines)
File "/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py", line 970, in find_cell_content
source = rst2md("\n".join(source)).splitlines()
TypeError: rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels'
__________________ test_ipynb_to_pandoc[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/ipynb_julia/julia_benchmark_plotly_barchart.ipynb] ___________________
nb_file = '/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/ipynb_julia/julia_benchmark_plotly_barchart.ipynb', no_jupytext_version_number = None
@requires_pandoc
@pytest.mark.parametrize(
"nb_file",
list_notebooks("ipynb", skip="(functional|Notebook with|flavors|invalid|305)"),
)
def test_ipynb_to_pandoc(nb_file, no_jupytext_version_number):
> assert_conversion_same_as_mirror(nb_file, "md:pandoc", "ipynb_to_pandoc")
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/test_mirror.py:137:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/test_mirror.py:79: in assert_conversion_same_as_mirror
compare(actual, expected)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
actual = '---\njupyter:\n kernelspec:\n display_name: Julia 1.1.1\n language: julia\n name: \'julia-1.1\'\n nbformat...\n response["url"],\n "/700/700\' width=\'750\'></iframe>")\ndisplay("text/html", s)\n```\n:::\n'
expected = '---\njupyter:\n kernelspec:\n display_name: Julia 1.1.1\n language: julia\n name: julia-1.1\n nbformat: 4\...\n response["url"],\n "/700/700\' width=\'750\'></iframe>")\ndisplay("text/html", s)\n```\n:::\n'
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 @@ -3,7 +3,7 @@
E kernelspec:
E display_name: Julia 1.1.1
E language: julia
E - name: julia-1.1
E + name: 'julia-1.1'
E nbformat: 4
E nbformat_minor: 1
E ---
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/compare.py:47: AssertionError
______________________________ test_sphinx_md_to_ipynb[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/sphinx/plot_notebook.py] ______________________________
nb_file = '/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/sphinx/plot_notebook.py', no_jupytext_version_number = None
@requires_sphinx_gallery
@pytest.mark.parametrize("nb_file", list_notebooks("sphinx"))
def test_sphinx_md_to_ipynb(nb_file, no_jupytext_version_number):
> assert_conversion_same_as_mirror(
nb_file,
{"extension": ".ipynb", "format_name": "sphinx", "rst2md": True},
"sphinx-rst2md_to_ipynb",
compare_notebook=True,
)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/test_mirror.py:211:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/test_mirror.py:45: in assert_conversion_same_as_mirror
notebook = jupytext.read(nb_file, fmt=fmt)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:435: in read
return read(stream, as_version=as_version, fmt=fmt, config=config, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:444: in read
return reads(fp.read(), fmt, config=config, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:396: in reads
notebook = reader.reads(text, **kwargs)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/jupytext.py:136: in reads
cell, pos = reader.read(lines)
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py:142: in read
pos_next_cell = self.find_cell_content(lines)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = <jupytext.cell_reader.SphinxGalleryScriptCellReader object at 0x7fe1c0c1ff70>
lines = ['"""', 'Notebook styled examples', '========================', '', 'The gallery is capable of transforming Python files into reStructuredText files', 'with a notebook structure. For this to be used you need to respect some syntax', ...]
def find_cell_content(self, lines):
"""Parse cell till its end and set content, lines_to_next_cell.
Return the position of next cell start"""
cell_end_marker, next_cell_start, explicit_eoc = self.find_cell_end(lines)
# Metadata to dict
cell_start = 0
if self.cell_type == "markdown":
if self.markdown_marker in ['"""', "'''"]:
# Remove the triple quotes
if lines[0].strip() == self.markdown_marker:
cell_start = 1
else:
lines[0] = lines[0][3:]
if not explicit_eoc:
last = lines[cell_end_marker - 1]
lines[cell_end_marker - 1] = last[
: last.rfind(self.markdown_marker)
]
if self.twenty_hash.match(self.markdown_marker):
cell_start = 1
else:
self.metadata = {}
# Cell content
source = lines[cell_start:cell_end_marker]
self.org_content = copy(source)
if self.cell_type == "code" and self.comment_magics:
uncomment_magic(source, self.language or self.default_language)
if self.cell_type == "markdown" and source:
if self.markdown_marker.startswith(self.comment):
source = uncomment(source, self.comment)
if self.rst2md:
if rst2md:
> source = rst2md("\n".join(source)).splitlines()
E TypeError: rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels'
/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/jupytext/cell_reader.py:970: TypeError
============================================================================= warnings summary =============================================================================
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-1.11.3/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:67: autopep8 not found
SKIPPED [1] tests/test_cli.py:1188: Please run 'python -m ipykernel install --name python_kernel --user'
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_ipynb_to_myst.py:162: myst is available
SKIPPED [1] tests/test_ipynb_to_myst.py:171: myst is 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_read_simple_pandoc.py:82: Pandoc is installed
XFAIL tests/test_auto_ext.py::test_auto_from_kernelspecs_works[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/ipynb_sage/sage_print_hello.ipynb]
reason: Sage notebooks have Python in their language_info metadata, see #727
FAILED tests/test_cli.py::test_rst2md - TypeError: rst2md() missing 3 required positional arguments: 'gallery_conf', 'target_dir', and 'heading_levels'
FAILED tests/test_contentsmanager.py::test_rst2md_option - tornado.web.HTTPError: HTTP 500: Internal Server Error (rst2md() missing 3 required positional arguments: 'gal...
FAILED tests/test_mirror.py::test_ipynb_to_pandoc[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/ipynb_julia/julia_benchmark_plotly_barchart.ipynb] - Asse...
FAILED tests/test_mirror.py::test_sphinx_md_to_ipynb[/home/tkloczko/rpmbuild/BUILD/jupytext-1.11.3/tests/notebooks/sphinx/plot_notebook.py] - TypeError: rst2md() missing...
============================================== 4 failed, 2557 passed, 15 skipped, 1 xfailed, 56 warnings in 201.38s (0:03:21) ============================================== |
|
That's right, thanks for the feedback. I think that the rst2md errors should be fixed by the PR above. Finally, for the last one, |
|
Hi @kloczek , I expect to have fixed the last 4 errors, would you mind giving a try to the latest dev version? Thanks |
|
Firs I must upgrade pandoc. |
|
Thanks! Well in fact you won't need to upgrade pandoc - thanks to the latest commits, the corresponding tests will be skipped if the test set detects that you don't have |
|
Just tested 1.11.3 + all patches committed to the master and looks like in that case none of the test units are failing. There are some warnings but that is all. + PYTHONPATH=/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.1.fc35.x86_64/usr/lib64/python3.8/site-packages:/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.1.fc35.x86_64/usr/lib/python3.8/site-packages
+ /usr/bin/pytest -ra
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.11, pytest-6.2.4, 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-1.11.3
plugins: forked-1.3.0, shutil-1.7.0, virtualenv-1.7.0, expect-1.1.0, httpbin-1.0.0, flake8-1.0.7, timeout-1.4.2, betamax-0.8.1, freezegun-0.4.2, case-1.5.3, isort-1.3.0, aspectlib-1.5.2, asyncio-0.15.1, toolbox-0.5, xprocess-0.17.1, aiohttp-0.3.0, checkdocs-2.7.0, mock-3.6.1, rerunfailures-9.1.1, requests-mock-1.9.3, cov-2.12.1, pyfakefs-4.5.0, flaky-3.7.0, hypothesis-6.14.0, benchmark-3.4.1, xdist-2.3.0, pylama-7.7.1, datadir-1.3.1, regressions-2.2.0, cases-3.6.3, Faker-8.10.0
collected 2584 items
. . [ 0%]
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-1.11.3/jupytext/cell_reader.py:20: UserWarning: Sphinx Gallery in version 0.8.2 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-1.11.3/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:67: 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-1.11.3/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 176.64s (0:02:56) ===================================================So I think that you can close that ticket. It is yet another small detail which bothers me. --- a/setup.py~ 2021-06-10 06:07:36.000000000 +0100
+++ b/setup.py 2021-07-12 03:49:32.001643552 +0100
@@ -36,7 +36,7 @@
"nbformat",
"pyyaml",
"toml",
- "markdown-it-py[plugins]~=1.0",
+ "mdit-py-plugins",
],
python_requires="~=3.6",
extras_require={
--- a/requirements.txt~ 2021-06-10 06:07:36.000000000 +0100
+++ b/requirements.txt 2021-07-12 03:48:37.806538754 +0100
@@ -1,4 +1,4 @@
nbformat
pyyaml
toml
-markdown-it-py[plugins]~=1.0
+mdit-py-pluginspip is able to resolve dependencies with square brackets however all packaging software does not allow use square brackets in dependencies. |
|
That patch it is only quick hack to prove that rpm dependencies are OK. |
|
Interesting... I have prepared a PR above, you will let me know if that solves the last point. Regarding the warnings, some warnings are issued on purpose during the tests to make sure the warnings do exists... I'm sure there is a way to catch expected warnings, but unless you tell me that is a problem I might not investigate further. |
|
Just tested that: [tkloczko@barrel SPECS]$ rpmbuild -ba --with check python-jupytext.spec
warning: Downloading https://github.com/mwouts/jupytext//archive/v1.11.3/python-jupytext-1.11.3.tar.gz to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-1.11.3.tar.gz
warning: Downloading https://github.com/mwouts/jupytext//commit/c3fb4fa6.patch#/python-jupytext-Update-contributing.md-link-804.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Update-contributing.md-link-804.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/b508b1c4.patch#/python-jupytext-Use-local-links-link-to-developing.md.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Use-local-links-link-to-developing.md.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/b32c4b42.patch#/python-jupytext-The-cell_markers-option-are-more-conveniently-set-in.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-The-cell_markers-option-are-more-conveniently-set-in.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/76ce21c7.patch#/python-jupytext-Skip-the-pre-commit-tests-when-the-Jupytext-folder-i.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Skip-the-pre-commit-tests-when-the-Jupytext-folder-i.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/f40d42cd.patch#/python-jupytext-The-rst2md-option-requires-sphinx_gallery-0.7.0-817.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-The-rst2md-option-requires-sphinx_gallery-0.7.0-817.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/a1b02e39.patch#/python-jupytext-Require-Pandoc-2.11-in-the-tests-818.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Require-Pandoc-2.11-in-the-tests-818.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/d881c191.patch#/python-jupytext-Jupytext-formats-use-while-paths-might-use-either-or.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Jupytext-formats-use-while-paths-might-use-either-or.patch
warning: Downloading https://github.com/mwouts/jupytext//commit/70f0a969.patch#/python-jupytext-System-assigns-of-the-form-var-cmd-are-commented-out.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-System-assigns-of-the-form-var-cmd-are-commented-out.patch
warning: Downloading https://github.com/mwouts/jupytext//pull/822.patch#/python-jupytext-Explicit-dependency-on-mdit-py-plugins.patch to /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Explicit-dependency-on-mdit-py-plugins.patch
warning: Macro expanded in comment on line 19: %{name}-change_markdown-it-py-plugins_dependency.patch
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ttvymT
+ umask 022
+ cd /home/tkloczko/rpmbuild/BUILD
+ cd /home/tkloczko/rpmbuild/BUILD
+ rm -rf jupytext-1.11.3
+ /usr/bin/gzip -dc /home/tkloczko/rpmbuild/SOURCES/python-jupytext-1.11.3.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd jupytext-1.11.3
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-man3_level.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Update-contributing.md-link-804.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Use-local-links-link-to-developing.md.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-The-cell_markers-option-are-more-conveniently-set-in.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Skip-the-pre-commit-tests-when-the-Jupytext-folder-i.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-The-rst2md-option-requires-sphinx_gallery-0.7.0-817.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Require-Pandoc-2.11-in-the-tests-818.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Jupytext-formats-use-while-paths-might-use-either-or.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-System-assigns-of-the-form-var-cmd-are-commented-out.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /home/tkloczko/rpmbuild/SOURCES/python-jupytext-Explicit-dependency-on-mdit-py-plugins.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ RPM_EC=0
++ jobs -p
+ exit 0
[..]
Processing files: python-jupytext-1.11.3-2.2.fc35.noarch
Provides: config(python-jupytext) = 1.11.3-2.2.fc35 python-jupytext = 1.11.3-2.2.fc35 python3.8dist(jupytext) = 1.11.4~~dev0 python3dist(jupytext) = 1.11.4~~dev0
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: (python3.8dist(markdown-it-py) >= 1 with python3.8dist(markdown-it-py) < 2) /usr/bin/python3 python(abi) = 3.8 python3.8dist(mdit-py-plugins) python3.8dist(nbformat) python3.8dist(pyyaml) python3.8dist(toml)
Checking for unpackaged file(s): /usr/lib/rpm/check-files /home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.2.fc35.x86_64
Wrote: /home/tkloczko/rpmbuild/SRPMS/python-jupytext-1.11.3-2.2.fc35.src.rpm
Wrote: /home/tkloczko/rpmbuild/RPMS/python-jupytext-1.11.3-2.2.fc35.noarch.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.ynzTYk
+ umask 022
+ cd /home/tkloczko/rpmbuild/BUILD
+ cd jupytext-1.11.3
+ /usr/bin/rm -rf /home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.2.fc35.x86_64
+ RPM_EC=0
++ jobs -p
+ exit 0And generated package dependencies with your patch looks now like below: [tkloczko@barrel RPMS]$ rpm -qp --qf "[%{REQUIRENAME} %{REQUIREFLAGS:depflags} %{REQUIREVERSION}\n]" python-jupytext-1.11.3-2.2.fc35.noarch.rpm
(python3.8dist(markdown-it-py) >= 1 with python3.8dist(markdown-it-py) < 2) <<<< HERE!!!
/usr/bin/python3
config(python-jupytext) = 1.11.3-2.2.fc35
python(abi) = 3.8
python3.8dist(mdit-py-plugins)
python3.8dist(nbformat)
python3.8dist(pyyaml)
python3.8dist(toml)
rpmlib(CompressedFileNames) <= 3.0.4-1
rpmlib(FileDigests) <= 4.6.0-1
rpmlib(PayloadFilesHavePrefix) <= 4.0-1
rpmlib(PayloadIsZstd) <= 5.4.18-1
rpmlib(RichDependencies) <= 4.12.0-1
rpmlib(TildeInVersions) <= 4.10.0-1So looks like with that PR ot should be OK. Thank you very much :) |
|
A just FTR .. pytest still shows some warnings + PYTHONPATH=/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.2.fc35.x86_64/usr/lib64/python3.8/site-packages:/home/tkloczko/rpmbuild/BUILDROOT/python-jupytext-1.11.3-2.2.fc35.x86_64/usr/lib/python3.8/site-packages
+ /usr/bin/pytest -ra
=========================================================================== test session starts ============================================================================
platform linux -- Python 3.8.11, pytest-6.2.4, 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-1.11.3
plugins: forked-1.3.0, shutil-1.7.0, virtualenv-1.7.0, expect-1.1.0, httpbin-1.0.0, flake8-1.0.7, timeout-1.4.2, betamax-0.8.1, freezegun-0.4.2, case-1.5.3, isort-1.3.0, aspectlib-1.5.2, asyncio-0.15.1, toolbox-0.5, xprocess-0.17.1, aiohttp-0.3.0, checkdocs-2.7.0, mock-3.6.1, rerunfailures-9.1.1, requests-mock-1.9.3, cov-2.12.1, pyfakefs-4.5.0, flaky-3.7.0, hypothesis-6.14.0, benchmark-3.4.1, xdist-2.3.0, pylama-7.7.1, datadir-1.3.1, regressions-2.2.0, cases-3.6.3, Faker-8.10.0
collected 2584 items
. . [ 0%]
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-1.11.3/jupytext/cell_reader.py:20: UserWarning: Sphinx Gallery in version 0.8.2 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-1.11.3/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:67: 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-1.11.3/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 171.98s (0:02:51) =================================================== |
|
Great news! |
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Just normal build, install and test cycle used on building package from non-root account:
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