Read the Docs build information
Build id: 2577479
Project: tiledb-inc-tiledb-py
Version: 2097
Commit: cb2483e3487f690e0553595f768fd02f0be1dd37
Date: 2024-10-29T10:59:53.993776Z
State: finished
Success: True


[rtd-command-info] start-time: 2024-10-29T10:59:55.222273Z, end-time: 2024-10-29T10:59:55.771965Z, duration: 0, exit-code: 0
git clone --depth 1 https://github.com/TileDB-Inc/TileDB-Py.git .
Cloning into '.'...

[rtd-command-info] start-time: 2024-10-29T10:59:55.839526Z, end-time: 2024-10-29T10:59:56.925667Z, duration: 1, exit-code: 0
git fetch origin --force --prune --prune-tags --depth 50 pull/2097/head:external-2097
From https://github.com/TileDB-Inc/TileDB-Py
 * [new ref]         refs/pull/2097/head -> external-2097
 * [new tag]         0.32.0              -> 0.32.0
 * [new tag]         0.32.1              -> 0.32.1
 * [new tag]         0.32.2              -> 0.32.2
 * [new tag]         0.32.4              -> 0.32.4

[rtd-command-info] start-time: 2024-10-29T10:59:57.053452Z, end-time: 2024-10-29T10:59:57.134355Z, duration: 0, exit-code: 0
git checkout --force cb2483e3487f690e0553595f768fd02f0be1dd37
Note: switching to 'cb2483e3487f690e0553595f768fd02f0be1dd37'.

You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by switching back to a branch.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -c with the switch command. Example:

  git switch -c <new-branch-name>

Or undo this operation with:

  git switch -

Turn off this advice by setting config variable advice.detachedHead to false

HEAD is now at cb2483e add 0.32.5

[rtd-command-info] start-time: 2024-10-29T10:59:57.203485Z, end-time: 2024-10-29T10:59:57.275964Z, duration: 0, exit-code: 0
cat .readthedocs.yml
# Don't build any extra formats
formats: []

# Use RTD config version 2
# https://docs.readthedocs.io/en/stable/config-file/v2.html
version: 2

# Set build OS to avoid build failures with old compiler
build:
  os: "ubuntu-22.04"
  tools:
    python: "3.12"

sphinx:
  configuration: doc/source/conf.py

python:
  install:
    - method: pip
      path: .
      extra_requirements:
        - doc

[rtd-command-info] start-time: 2024-10-29T11:00:03.409518Z, end-time: 2024-10-29T11:00:03.490523Z, duration: 0, exit-code: 0
asdf global python 3.12.3


[rtd-command-info] start-time: 2024-10-29T11:00:03.908544Z, end-time: 2024-10-29T11:00:05.129109Z, duration: 1, exit-code: 0
python -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH
created virtual environment CPython3.12.3.final.0-64 in 847ms
  creator CPython3Posix(dest=/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097, clear=False, no_vcs_ignore=False, global=False)
  seeder FromAppData(download=False, pip=bundle, setuptools=bundle, wheel=bundle, via=copy, app_data_dir=/home/docs/.local/share/virtualenv)
    added seed packages: pip==23.1, setuptools==67.6.1, wheel==0.40.0
  activators BashActivator,CShellActivator,FishActivator,NushellActivator,PowerShellActivator,PythonActivator

[rtd-command-info] start-time: 2024-10-29T11:00:05.197209Z, end-time: 2024-10-29T11:00:19.663991Z, duration: 14, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools
Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages (23.1)
Collecting pip
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Collecting setuptools
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Installing collected packages: setuptools, pip
  Attempting uninstall: setuptools
    Found existing installation: setuptools 67.6.1
    Uninstalling setuptools-67.6.1:
      Successfully uninstalled setuptools-67.6.1
  Attempting uninstall: pip
    Found existing installation: pip 23.1
    Uninstalling pip-23.1:
      Successfully uninstalled pip-23.1
Successfully installed pip-24.3.1 setuptools-75.3.0

[rtd-command-info] start-time: 2024-10-29T11:00:19.741379Z, end-time: 2024-10-29T11:00:29.770472Z, duration: 10, exit-code: 0
python -m pip install --upgrade --no-cache-dir sphinx
Collecting sphinx
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Collecting packaging>=23.0 (from sphinx)
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Collecting MarkupSafe>=2.0 (from Jinja2>=3.1->sphinx)
  Downloading MarkupSafe-3.0.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
Collecting charset-normalizer<4,>=2 (from requests>=2.30.0->sphinx)
  Downloading charset_normalizer-3.4.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (34 kB)
Collecting idna<4,>=2.5 (from requests>=2.30.0->sphinx)
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Collecting urllib3<3,>=1.21.1 (from requests>=2.30.0->sphinx)
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Collecting certifi>=2017.4.17 (from requests>=2.30.0->sphinx)
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Downloading sphinx-8.1.3-py3-none-any.whl (3.5 MB)
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Downloading alabaster-1.0.0-py3-none-any.whl (13 kB)
Downloading babel-2.16.0-py3-none-any.whl (9.6 MB)
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Downloading docutils-0.21.2-py3-none-any.whl (587 kB)
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Downloading imagesize-1.4.1-py2.py3-none-any.whl (8.8 kB)
Downloading jinja2-3.1.4-py3-none-any.whl (133 kB)
Downloading packaging-24.1-py3-none-any.whl (53 kB)
Downloading pygments-2.18.0-py3-none-any.whl (1.2 MB)
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Downloading requests-2.32.3-py3-none-any.whl (64 kB)
Downloading snowballstemmer-2.2.0-py2.py3-none-any.whl (93 kB)
Downloading sphinxcontrib_applehelp-2.0.0-py3-none-any.whl (119 kB)
Downloading sphinxcontrib_devhelp-2.0.0-py3-none-any.whl (82 kB)
Downloading sphinxcontrib_htmlhelp-2.1.0-py3-none-any.whl (98 kB)
Downloading sphinxcontrib_jsmath-1.0.1-py2.py3-none-any.whl (5.1 kB)
Downloading sphinxcontrib_qthelp-2.0.0-py3-none-any.whl (88 kB)
Downloading sphinxcontrib_serializinghtml-2.0.0-py3-none-any.whl (92 kB)
Downloading certifi-2024.8.30-py3-none-any.whl (167 kB)
Downloading charset_normalizer-3.4.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (143 kB)
Downloading idna-3.10-py3-none-any.whl (70 kB)
Downloading MarkupSafe-3.0.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (23 kB)
Downloading urllib3-2.2.3-py3-none-any.whl (126 kB)
Installing collected packages: snowballstemmer, urllib3, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, Pygments, packaging, MarkupSafe, imagesize, idna, docutils, charset-normalizer, certifi, babel, alabaster, requests, Jinja2, sphinx
Successfully installed Jinja2-3.1.4 MarkupSafe-3.0.2 Pygments-2.18.0 alabaster-1.0.0 babel-2.16.0 certifi-2024.8.30 charset-normalizer-3.4.0 docutils-0.21.2 idna-3.10 imagesize-1.4.1 packaging-24.1 requests-2.32.3 snowballstemmer-2.2.0 sphinx-8.1.3 sphinxcontrib-applehelp-2.0.0 sphinxcontrib-devhelp-2.0.0 sphinxcontrib-htmlhelp-2.1.0 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-2.0.0 sphinxcontrib-serializinghtml-2.0.0 urllib3-2.2.3

[rtd-command-info] start-time: 2024-10-29T11:00:29.839513Z, end-time: 2024-10-29T11:03:53.151610Z, duration: 203, exit-code: 0
python -m pip install --upgrade --upgrade-strategy only-if-needed --no-cache-dir .[doc]
Processing /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/2097
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Installing backend dependencies: started
  Installing backend dependencies: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Collecting numpy>=1.25 (from tiledb==0.32.5.dev5+gcb2483e)
  Downloading numpy-2.1.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
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Collecting jinja2==3.0.0 (from tiledb==0.32.5.dev5+gcb2483e)
  Downloading Jinja2-3.0.0-py3-none-any.whl.metadata (3.5 kB)
Collecting sphinx-rtd-theme==2.0.0 (from tiledb==0.32.5.dev5+gcb2483e)
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Collecting breathe (from tiledb==0.32.5.dev5+gcb2483e)
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Collecting Sphinx (from tiledb==0.32.5.dev5+gcb2483e)
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Collecting docutils<0.21 (from sphinx-rtd-theme==2.0.0->tiledb==0.32.5.dev5+gcb2483e)
  Downloading docutils-0.20.1-py3-none-any.whl.metadata (2.8 kB)
Collecting sphinxcontrib-jquery<5,>=4 (from sphinx-rtd-theme==2.0.0->tiledb==0.32.5.dev5+gcb2483e)
  Downloading sphinxcontrib_jquery-4.1-py2.py3-none-any.whl.metadata (2.6 kB)
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Requirement already satisfied: sphinxcontrib-serializinghtml>=1.1.9 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages (from Sphinx->tiledb==0.32.5.dev5+gcb2483e) (2.0.0)
Requirement already satisfied: sphinxcontrib-qthelp in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages (from Sphinx->tiledb==0.32.5.dev5+gcb2483e) (2.0.0)
INFO: pip is looking at multiple versions of sphinx to determine which version is compatible with other requirements. This could take a while.
Collecting Sphinx (from tiledb==0.32.5.dev5+gcb2483e)
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INFO: pip is still looking at multiple versions of sphinx to determine which version is compatible with other requirements. This could take a while.
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Collecting alabaster~=0.7.14 (from Sphinx->tiledb==0.32.5.dev5+gcb2483e)
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  Building wheel for tiledb (pyproject.toml): still running...
  Building wheel for tiledb (pyproject.toml): finished with status 'done'
  Created wheel for tiledb: filename=tiledb-0.32.5.dev5+gcb2483e-cp312-cp312-linux_x86_64.whl size=16600105 sha256=dc647afd5853dd3f3b70d342cc513764b8f29d42357fb7136005c39a437a32e7
  Stored in directory: /tmp/pip-ephem-wheel-cache-l061dm2h/wheels/15/7f/05/097261825be973071008cc86a9976cee15a7bd7b68578b56b2
Successfully built tiledb
Installing collected packages: numpy, jinja2, docutils, alabaster, tiledb, Sphinx, sphinxcontrib-jquery, breathe, sphinx-rtd-theme
  Attempting uninstall: jinja2
    Found existing installation: Jinja2 3.1.4
    Uninstalling Jinja2-3.1.4:
      Successfully uninstalled Jinja2-3.1.4
  Attempting uninstall: docutils
    Found existing installation: docutils 0.21.2
    Uninstalling docutils-0.21.2:
      Successfully uninstalled docutils-0.21.2
  Attempting uninstall: alabaster
    Found existing installation: alabaster 1.0.0
    Uninstalling alabaster-1.0.0:
      Successfully uninstalled alabaster-1.0.0
  Attempting uninstall: Sphinx
    Found existing installation: Sphinx 8.1.3
    Uninstalling Sphinx-8.1.3:
      Successfully uninstalled Sphinx-8.1.3
Successfully installed Sphinx-7.3.7 alabaster-0.7.16 breathe-4.35.0 docutils-0.20.1 jinja2-3.0.0 numpy-2.1.2 sphinx-rtd-theme-2.0.0 sphinxcontrib-jquery-4.1 tiledb-0.32.5.dev5+gcb2483e

[rtd-command-info] start-time: 2024-10-29T11:03:53.348321Z, end-time: 2024-10-29T11:03:53.403867Z, duration: 0, exit-code: 0
cat doc/source/conf.py
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#

# -- Imports configuration -------------------------------------------------

import os
import sys
from os.path import abspath, dirname, join
import sphinx_rtd_theme
from importlib.metadata import version as get_version

sys.path.insert(0, abspath(join(dirname(__file__))))

# -- ReadTheDocs configuration ---------------------------------------------

# Special handling on ReadTheDocs builds.
# Some of this code is from https://github.com/robotpy/robotpy-docs/blob/master/conf.py
readthedocs = os.environ.get("READTHEDOCS", None) == "True"
rtd_version = os.environ.get("READTHEDOCS_VERSION", "latest")
rtd_version = rtd_version if rtd_version in ["stable", "latest"] else "stable"

# -- Project information -----------------------------------------------------

project = "TileDB-Py"
copyright = "2024, TileDB, Inc."
author = "TileDB, Inc."

# The full version, including alpha/beta/rc tags
release: str = get_version("tiledb")
# The short X.Y version
version: str = ".".join(release.split(".")[:2])


# -- General configuration ---------------------------------------------------

# If your documentation needs a minimal Sphinx version, state it here.
#
# needs_sphinx = '1.0'

# Add any Sphinx extension module names here, as strings. They can be
# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
# ones.
extensions = ["sphinx.ext.autodoc", "sphinx.ext.doctest", "sphinx.ext.intersphinx"]

# Mapping for linking between RTD subprojects.
if readthedocs:
    intersphinx_mapping = {
        "tiledb": (
            "https://tiledb-inc-tiledb.readthedocs-hosted.com/en/%s/" % rtd_version,
            None,
        ),
        "tiledb-py": (
            "https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/%s/"
            % rtd_version,
            None,
        ),
        "python": ("https://docs.python.org/", None),
    }

# Add any paths that contain templates here, relative to this directory.
templates_path = ["_templates"]

# The suffix(es) of source filenames.
# You can specify multiple suffix as a list of string:
#
# source_suffix = ['.rst', '.md']
source_suffix = ".rst"

# The master toctree document.
master_doc = "index"

# The language for content autogenerated by Sphinx. Refer to documentation
# for a list of supported languages.
#
# This is also used if you do content translation via gettext catalogs.
# Usually you set "language" from the command line for these cases.
language = "en"

# List of patterns, relative to source directory, that match files and
# directories to ignore when looking for source files.
# This pattern also affects html_static_path and html_extra_path .
exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"]

# The name of the Pygments (syntax highlighting) style to use.
pygments_style = "friendly"


# -- Options for HTML output -------------------------------------------------

html_static_path = ["_static"]
html_title = "TileDB Python API Reference — TileDB-Py %s documentation" % version
html_logo = "_static/tiledb-logo_color_no_margin_@4x.png"
html_favicon = "_static/favicon.ico"

html_theme = "sphinx_rtd_theme"
html_theme_path = [sphinx_rtd_theme.get_html_theme_path()]

# -- Options for HTMLHelp output ---------------------------------------------

# Output file base name for HTML help builder.
htmlhelp_basename = "TileDB-Pydoc"


# -- Options for LaTeX output ------------------------------------------------

latex_elements = {
    # The paper size ('letterpaper' or 'a4paper').
    #
    # 'papersize': 'letterpaper',
    # The font size ('10pt', '11pt' or '12pt').
    #
    # 'pointsize': '10pt',
    # Additional stuff for the LaTeX preamble.
    #
    # 'preamble': '',
    # Latex figure (float) alignment
    #
    # 'figure_align': 'htbp',
}

# Grouping the document tree into LaTeX files. List of tuples
# (source start file, target name, title,
#  author, documentclass [howto, manual, or own class]).
latex_documents = [
    (master_doc, "TileDB-Py.tex", "TileDB-Py Documentation", "TileDB, Inc.", "manual")
]


# -- Options for manual page output ------------------------------------------

# One entry per manual page. List of tuples
# (source start file, name, description, authors, manual section).
man_pages = [(master_doc, "tiledb-py", "TileDB-Py Documentation", [author], 1)]


# -- Options for Texinfo output ----------------------------------------------

# Grouping the document tree into Texinfo files. List of tuples
# (source start file, target name, title, author,
#  dir menu entry, description, category)
texinfo_documents = [
    (
        master_doc,
        "TileDB-Py",
        "TileDB-Py Documentation",
        author,
        "TileDB-Py",
        "One line description of project.",
        "Miscellaneous",
    )
]

# -- Custom Document processing ----------------------------------------------

# Generate the sidebar automatically so that it is identical across all subprojects.
# This (and gensidebar.py) from https://github.com/robotpy/robotpy-docs
import gensidebar

gensidebar.generate_sidebar(
    {"on_rtd": readthedocs, "rtd_version": rtd_version}, "tiledb-py"
)

# -- Custom setup -----------------------------------------------------------


def setup(app):
    app.add_css_file("custom.css")

[rtd-command-info] start-time: 2024-10-29T11:03:53.473472Z, end-time: 2024-10-29T11:03:58.283662Z, duration: 4, exit-code: 0
python -m sphinx -T -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html
Running Sphinx v7.3.7
making output directory... done
loading intersphinx inventory from https://tiledb-inc-tiledb.readthedocs-hosted.com/en/stable/objects.inv...
loading intersphinx inventory from https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/stable/objects.inv...
loading intersphinx inventory from https://docs.python.org/objects.inv...
intersphinx inventory has moved: https://docs.python.org/objects.inv -> https://docs.python.org/3/objects.inv
WARNING: failed to reach any of the inventories with the following issues:
intersphinx inventory 'https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/stable/objects.inv' not fetchable due to <class 'requests.exceptions.HTTPError'>: 404 Client Error: Not Found for url: https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/stable/objects.inv
building [mo]: targets for 0 po files that are out of date
writing output... 
building [html]: targets for 2 source files that are out of date
updating environment: [new config] 2 added, 0 changed, 0 removed
reading sources... [ 50%] index
reading sources... [100%] python-api

/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/__init__.py:docstring of tiledb.dense_array.DenseArrayImpl.query:22: ERROR: Unexpected indentation.
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/__init__.py:docstring of tiledb.dense_array.DenseArrayImpl.query:23: WARNING: Block quote ends without a blank line; unexpected unindent.
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata:1: WARNING: duplicate object description of tiledb.Group.GroupMetadata, other instance in python-api, use :no-index: for one of them
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata:1: WARNING: duplicate object description of tiledb.group.Group.GroupMetadata, other instance in python-api, use :no-index: for one of them
WARNING: autodoc: failed to import method 'Group.GroupMetadata.__keys__' from module 'tiledb'; the following exception was raised:
No module named 'tiledb.Group'
WARNING: autodoc: failed to import method 'Group.GroupMetadata.__values__' from module 'tiledb'; the following exception was raised:
No module named 'tiledb.Group'
WARNING: autodoc: failed to import method 'Group.GroupMetadata.__items__' from module 'tiledb'; the following exception was raised:
No module named 'tiledb.Group'
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata.clear:1: WARNING: duplicate object description of tiledb.Group.GroupMetadata.clear, other instance in python-api, use :no-index: for one of them
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata.dump:1: WARNING: duplicate object description of tiledb.Group.GroupMetadata.dump, other instance in python-api, use :no-index: for one of them
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata.pop:1: WARNING: duplicate object description of tiledb.Group.GroupMetadata.pop, other instance in python-api, use :no-index: for one of them
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata.popitem:1: WARNING: duplicate object description of tiledb.Group.GroupMetadata.popitem, other instance in python-api, use :no-index: for one of them
/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/2097/lib/python3.12/site-packages/tiledb/group.py:docstring of tiledb.group.Group.GroupMetadata.setdefault:1: WARNING: duplicate object description of tiledb.Group.GroupMetadata.setdefault, other instance in python-api, use :no-index: for one of them
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
copying assets... copying static files... done
copying extra files... done
done
writing output... [ 50%] index
writing output... [100%] python-api

generating indices... genindex done
writing additional pages... search done
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 13 warnings.

The HTML pages are in ../../_readthedocs/html.