Read the Docs build information Build id: 3487700 Project: icb-scanpy Version: 1.11.x Commit: db28477eb875c7b8f2404ac6ccd47e7bd802fb95 Date: 2025-10-31T08:44:30.410104Z State: cancelled Success: False [rtd-command-info] start-time: 2025-10-31T08:44:31.451181Z, end-time: 2025-10-31T08:44:32.483720Z, duration: 1, exit-code: 0 git clone --depth 1 https://github.com/scverse/scanpy.git . Cloning into '.'... [rtd-command-info] start-time: 2025-10-31T08:44:32.579805Z, end-time: 2025-10-31T08:44:33.726348Z, duration: 1, exit-code: 0 git fetch origin --force --prune --prune-tags --depth 50 refs/heads/1.11.x:refs/remotes/origin/1.11.x From https://github.com/scverse/scanpy * [new branch] 1.11.x -> origin/1.11.x * [new tag] 1.11.2 -> 1.11.2 * [new tag] 1.11.3 -> 1.11.3 * [new tag] 1.11.4 -> 1.11.4 * [new tag] 1.11.5 -> 1.11.5 [rtd-command-info] start-time: 2025-10-31T08:44:34.418257Z, end-time: 2025-10-31T08:44:34.572918Z, duration: 0, exit-code: 0 git checkout --force origin/1.11.x Note: switching to 'origin/1.11.x'. 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 Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at db28477 Backport PR #3802 on branch 1.11.x (docs: fix sc.filter_cells return documentation typo) (#3804) [rtd-command-info] start-time: 2025-10-31T08:44:34.656900Z, end-time: 2025-10-31T08:44:34.699247Z, duration: 0, exit-code: 0 cat .readthedocs.yml version: 2 submodules: include: all build: os: ubuntu-24.04 tools: python: '3.12' jobs: post_checkout: # unshallow so version can be derived from tag - git fetch --unshallow || true pre_build: # run towncrier to preview the next version’s release notes - ( find docs/release-notes -regex '[^.]+[.][^.]+.md' | grep -q . ) && towncrier build --keep || true sphinx: fail_on_warning: true # do not change or you will be fired configuration: docs/conf.py python: install: - method: pip path: . extra_requirements: - doc - dev # for towncrier [rtd-command-info] start-time: 2025-10-31T08:44:34.839691Z, end-time: 2025-10-31T08:44:34.905939Z, duration: 0, exit-code: 0 git submodule sync [rtd-command-info] start-time: 2025-10-31T08:44:34.993662Z, end-time: 2025-10-31T08:44:57.675355Z, duration: 22, exit-code: 0 git submodule update --init --force -- Submodule 'notebooks' (https://github.com/scverse/scanpy-tutorials/) registered for path 'notebooks' Cloning into '/home/docs/checkouts/readthedocs.org/user_builds/icb-scanpy/checkouts/1.11.x/notebooks'... Submodule path 'notebooks': checked out '897eef59b945f88f9c86715656286796eea43853' [rtd-command-info] start-time: 2025-10-31T08:44:57.764271Z, end-time: 2025-10-31T08:45:01.925539Z, duration: 4, exit-code: 0 git fetch --unshallow || true From https://github.com/scverse/scanpy * [new tag] 0.0 -> 0.0 * [new tag] 0.1 -> 0.1 * [new tag] 0.2 -> 0.2 * [new tag] 0.2.1 -> 0.2.1 * [new tag] 0.2.3 -> 0.2.3 * [new tag] 0.2.3.5 -> 0.2.3.5 * [new tag] 0.2.4 -> 0.2.4 * [new tag] 0.2.5 -> 0.2.5 * [new tag] 0.2.6 -> 0.2.6 * [new tag] 0.2.7 -> 0.2.7 * [new tag] 0.2.8 -> 0.2.8 * [new tag] 0.2.9 -> 0.2.9 * [new tag] 0.2.9.1 -> 0.2.9.1 * [new tag] 0.3 -> 0.3 * [new tag] 0.3.1 -> 0.3.1 * [new tag] 0.3.2 -> 0.3.2 * [new tag] 0.4 -> 0.4 * [new tag] 0.4.1 -> 0.4.1 * [new tag] 0.4.2 -> 0.4.2 * [new tag] 0.4.2.post1 -> 0.4.2.post1 * [new tag] 0.4.2.post2 -> 0.4.2.post2 * [new tag] 0.4.3 -> 0.4.3 * [new tag] 0.4.4 -> 0.4.4 * [new tag] 1.0 -> 1.0 * [new tag] 1.0.1 -> 1.0.1 * [new tag] 1.0.2 -> 1.0.2 * [new tag] 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* [new tag] 1.5.0a1 -> 1.5.0a1 * [new tag] 1.5.1 -> 1.5.1 * [new tag] 1.6.0 -> 1.6.0 * [new tag] 1.7.0rc1 -> 1.7.0rc1 * [new tag] 1.8.0 -> 1.8.0 * [new tag] 1.8.0.dev0 -> 1.8.0.dev0 * [new tag] 1.9.0 -> 1.9.0 * [new tag] 1.9.0.dev0 -> 1.9.0.dev0 Fetching submodule notebooks From https://github.com/scverse/scanpy-tutorials * branch 26e16f83387caef76abdd42afda3c7c13f7139f1 -> FETCH_HEAD [rtd-command-info] start-time: 2025-10-31T08:45:07.608982Z, end-time: 2025-10-31T08:45:07.669058Z, duration: 0, exit-code: 0 asdf global python 3.12.10 [rtd-command-info] start-time: 2025-10-31T08:45:08.120318Z, end-time: 2025-10-31T08:45:09.266291Z, duration: 1, exit-code: 0 python -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH created virtual environment CPython3.12.10.final.0-64 in 848ms creator CPython3Posix(dest=/home/docs/checkouts/readthedocs.org/user_builds/icb-scanpy/envs/1.11.x, clear=False, no_vcs_ignore=False, global=False) seeder FromAppData(download=False, pip=bundle, setuptools=bundle, 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Installing collected packages: urllib3, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, snowballstemmer, roman-numerals-py, Pygments, packaging, MarkupSafe, imagesize, idna, docutils, charset_normalizer, certifi, babel, alabaster, requests, Jinja2, sphinx Successfully installed Jinja2-3.1.6 MarkupSafe-3.0.3 Pygments-2.19.2 alabaster-1.0.0 babel-2.17.0 certifi-2025.10.5 charset_normalizer-3.4.4 docutils-0.21.2 idna-3.11 imagesize-1.4.1 packaging-25.0 requests-2.32.5 roman-numerals-py-3.1.0 snowballstemmer-3.0.1 sphinx-8.2.3 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 urllib3-2.5.0 [rtd-command-info] start-time: None, end-time: None, duration: None, exit-code: None python -m pip install --upgrade --upgrade-strategy only-if-needed --no-cache-dir .[doc,dev]