sciris 3.3.0__tar.gz → 3.4.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- sciris-3.4.0/.github/workflows/test_downstream.yaml +73 -0
- sciris-3.4.0/CHANGELOG.md +1115 -0
- {sciris-3.3.0 → sciris-3.4.0}/CLAUDE.md +17 -18
- {sciris-3.3.0/sciris.egg-info → sciris-3.4.0}/PKG-INFO +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-advanced/SKILL.md +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-files/SKILL.md +1 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-intro/SKILL.md +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-parallel/SKILL.md +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-printing/SKILL.md +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-utils/SKILL.md +2 -1
- sciris-3.4.0/docs/_variables.yml +2 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/api.json +46 -36
- {sciris-3.3.0 → sciris-3.4.0}/docs/llms-full.txt +45 -37
- {sciris-3.3.0 → sciris-3.4.0}/docs/llms.txt +19 -18
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_arrays.qmd +1 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_files.qmd +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_parallel.qmd +2 -1
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_utils.qmd +20 -5
- sciris-3.4.0/sciris/_extras/README.md +5 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris/_extras/ansicolors.py +4 -1
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_asd.py +46 -26
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_colors.py +74 -89
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_dataframe.py +72 -62
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_datetime.py +69 -58
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_fileio.py +154 -160
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_math.py +157 -94
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_nested.py +133 -103
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_odict.py +213 -102
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_parallel.py +180 -77
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_plotting.py +161 -140
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_printing.py +61 -53
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_profiling.py +126 -74
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_settings.py +117 -77
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_utils.py +231 -133
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_version.py +2 -2
- {sciris-3.3.0 → sciris-3.4.0}/sciris/sc_versioning.py +45 -52
- {sciris-3.3.0 → sciris-3.4.0/sciris.egg-info}/PKG-INFO +1 -1
- {sciris-3.3.0 → sciris-3.4.0}/sciris.egg-info/SOURCES.txt +0 -3
- {sciris-3.3.0 → sciris-3.4.0}/tests/.coveragerc +0 -1
- {sciris-3.3.0 → sciris-3.4.0}/tests/requirements.txt +2 -1
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_asd.py +47 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_colors.py +41 -3
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_dataframe.py +7 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_datetime.py +2 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_fileio.py +17 -1
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_math.py +28 -5
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_nested.py +19 -1
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_odict.py +44 -1
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_parallel.py +63 -1
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_plotting.py +82 -2
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_printing.py +65 -4
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_profiling.py +110 -7
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_settings.py +40 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_utils.py +103 -3
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_versioning.py +27 -3
- sciris-3.3.0/.github/workflows/test_downstream.yaml +0 -188
- sciris-3.3.0/CHANGELOG.md +0 -873
- sciris-3.3.0/code_audit.md +0 -162
- sciris-3.3.0/docs/_variables.yml +0 -2
- sciris-3.3.0/sciris/_extras/README.md +0 -8
- sciris-3.3.0/sciris/_extras/legacy.py +0 -572
- sciris-3.3.0/sciris_suggestions.md +0 -175
- {sciris-3.3.0 → sciris-3.4.0}/.claude-plugin/marketplace.json +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.github/workflows/publish_docs.yaml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.github/workflows/pypi_release.yaml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.github/workflows/schedule_tests.yaml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.github/workflows/test_docs.yaml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.github/workflows/test_sciris.yaml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.gitignore +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.pylintrc +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/.pytest_cache/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/CODE_OF_CONDUCT.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/CONTRIBUTING.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/LICENSE +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/MANIFEST.in +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/STYLE_GUIDE.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/.claude-plugin/plugin.json +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-arrays/SKILL.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-dates/SKILL.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-dicts/SKILL.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/claude_plugin/skills/sciris-plotting/SKILL.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/context7.json +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/.gitignore +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/404.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/CNAME +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/_extensions/machow/interlinks/objects.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/_quarto.yml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/_site/llms-full.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/_site/llms.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/_site/robots.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/api/index.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/favicon.ico +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/sciris-logo-dark.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/sciris-logo-grey.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/sciris-logo-large.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/sciris-logo.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/sciris-showcase-code.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/sciris-showcase-output.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/styles-dark.scss +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/styles-light.scss +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/assets/styles.css +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/check_notebooks.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/clean_all +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/clean_outputs.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/conduct.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/contributing.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/index.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/make_api.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/overview.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/preview +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/publish +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/quarto_utils.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/render +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/requirements.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/sciris-citation.bib +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/style_guide.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/.jupyter_cache/__version__.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/convert_notebooks +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/dancing_lines.gif +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-advanced.gif +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-arrays.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-dates.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-dicts.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-files.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-intro.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-parallel.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-plotting.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-printing.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/img-utils.png +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/sim1/sim.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/sim2/sim.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_advanced.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_dates.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_dicts.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_intro.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_plotting.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials/tut_printing.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/tutorials.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/docs/whatsnew.qmd +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/pyproject.toml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris/__init__.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris/_extras/__init__.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris/fancy.mplstyle +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris/simple.mplstyle +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris.egg-info/dependency_links.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris.egg-info/requires.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/sciris.egg-info/top_level.txt +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/setup.cfg +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/.pytest_cache/README.md +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/README.rst +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/check_coverage +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/check_style +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/archive_2023-04-19.zip +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/deadclass.obj +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/deadclass.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/exampledata.xlsx +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/examplefont.ttf +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/make_archive.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/make_deadclass.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/pickle_2021-01-01.obj +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/files/pickle_2022-01-01.obj +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/pytest.ini +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/README.rst +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/run_downstream +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/run_regression +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/sciris2021-01-01.yml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/sciris2022-01-01.yml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/sciris2023-01-01.yml +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/regression/setup_envs +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/run_tests +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/sc_test_utils.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/showcase_sciris.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/showcase_vanilla.py +0 -0
- {sciris-3.3.0 → sciris-3.4.0}/tests/test_api.py +0 -0
|
@@ -0,0 +1,73 @@
|
|
|
1
|
+
name: Downstream
|
|
2
|
+
on:
|
|
3
|
+
workflow_dispatch:
|
|
4
|
+
workflow_call:
|
|
5
|
+
push:
|
|
6
|
+
branches:
|
|
7
|
+
- main
|
|
8
|
+
pull_request:
|
|
9
|
+
|
|
10
|
+
jobs:
|
|
11
|
+
test_downstream:
|
|
12
|
+
name: ${{ matrix.name }} tests
|
|
13
|
+
timeout-minutes: 10
|
|
14
|
+
strategy:
|
|
15
|
+
fail-fast: false
|
|
16
|
+
max-parallel: 8
|
|
17
|
+
matrix:
|
|
18
|
+
os: ['ubuntu-latest']
|
|
19
|
+
python-version: ['3.14']
|
|
20
|
+
package: ['covasim', 'hpvsim', 'starsim', 'atomica']
|
|
21
|
+
include:
|
|
22
|
+
- package: covasim
|
|
23
|
+
name: Covasim
|
|
24
|
+
repo: starsimhub/covasim
|
|
25
|
+
install: pip install -e .[test]
|
|
26
|
+
tests: test_*.py
|
|
27
|
+
- package: hpvsim
|
|
28
|
+
name: HPVsim
|
|
29
|
+
repo: starsimhub/hpvsim
|
|
30
|
+
install: pip install -e ".[hiv]" -r tests/requirements.txt && hpvsim-download-data # [hiv] pulls in stisim, which the HIV tests need
|
|
31
|
+
tests: test_*.py
|
|
32
|
+
- package: starsim
|
|
33
|
+
name: Starsim
|
|
34
|
+
repo: starsimhub/starsim
|
|
35
|
+
install: pip install -e .[dev]
|
|
36
|
+
tests: test_*.py
|
|
37
|
+
- package: atomica
|
|
38
|
+
name: Atomica
|
|
39
|
+
repo: atomicateam/atomica
|
|
40
|
+
install: pip install -e . pytest pytest-xdist pytest-cov pytest-env
|
|
41
|
+
tests: test_tox_*.py
|
|
42
|
+
runs-on: ${{ matrix.os }}
|
|
43
|
+
|
|
44
|
+
steps:
|
|
45
|
+
- name: Checkout sources
|
|
46
|
+
uses: actions/checkout@v7
|
|
47
|
+
- uses: actions/setup-python@v7
|
|
48
|
+
with:
|
|
49
|
+
python-version: ${{ matrix.python-version }}
|
|
50
|
+
architecture: x64
|
|
51
|
+
|
|
52
|
+
- name: Install Sciris
|
|
53
|
+
run: pip install -e .
|
|
54
|
+
|
|
55
|
+
- name: Check out ${{ matrix.name }}
|
|
56
|
+
uses: actions/checkout@v7
|
|
57
|
+
with:
|
|
58
|
+
repository: ${{ matrix.repo }}
|
|
59
|
+
path: ${{ matrix.package }}
|
|
60
|
+
|
|
61
|
+
- name: Install ${{ matrix.name }}
|
|
62
|
+
working-directory: ./${{ matrix.package }}
|
|
63
|
+
run: ${{ matrix.install }}
|
|
64
|
+
|
|
65
|
+
- name: Run ${{ matrix.name }} tests
|
|
66
|
+
working-directory: ./${{ matrix.package }}/tests
|
|
67
|
+
run: pytest ${{ matrix.tests }} -n auto --durations=0 --junitxml=${{ matrix.package }}-test-results.xml # Run actual tests
|
|
68
|
+
- name: Upload test results
|
|
69
|
+
uses: mikepenz/action-junit-report@v6
|
|
70
|
+
if: always()
|
|
71
|
+
with:
|
|
72
|
+
report_paths: '${{ matrix.package }}/tests/${{ matrix.package }}-test-results.xml'
|
|
73
|
+
check_name: '${{ matrix.name }} test report'
|