jupyter-analysis-tools 1.3.0__tar.gz → 1.3.1__tar.gz

jupyter_analysis_tools-1.3.1/.copier-answers.yml

@@ -0,0 +1,25 @@
+# Changes here will be overwritten by Copier
+_commit: cc8ce84
+_src_path: ~/code/yapy-copier-template
+author_count: 2
+author_emails: ingo.bressler@bam.de, brian.pauw@bam.de
+author_names: Ingo Breßler, Brian R. Pauw
+author_websites: https://github.com/ibresslerBAM, https://lookingatnothing.com
+copyright_from: 2018
+docs_url: https://BAMresearch.github.io/jupyter-analysis-tools
+license: MIT
+project_description: Yet another Python library with helpers and utilities for data
+    analysis and processing.
+project_name: Jupyter Analysis Tools
+pypi_host: pypi.org
+python_versions:
+- '3.11'
+- '3.12'
+- '3.13'
+release_date_question: today
+repo_hosting_domain: github.com
+repo_main_branch: main
+repo_name: jupyter-analysis-tools
+repo_userorg: BAMresearch
+sphinx_theme: furo
+version: 1.3.1

jupyter_analysis_tools-1.3.1/AUTHORS.rst

@@ -0,0 +1,6 @@
+
+Authors
+=======
+
+* Ingo Breßler - ingo.bressler@bam.de
+* Brian R. Pauw - brian.pauw@bam.de

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/CHANGELOG.md

@@ -1,5 +1,43 @@
 # CHANGELOG
 
+## v1.3.1 (2025-07-23)
+
+### Bug fixes
+
+* Project: update manifest and flake8 config, reapplied template ([`c98c648`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c98c6489423a45d8a195fda32396ea9d9d18b9eb))
+
+### Code style
+
+* utils: satisfy flake8 ([`2e3dc36`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2e3dc36ef21e60f4fe7b8caea567411cc69967c0))
+
+### Continuous integration
+
+* semantic-release: replace .cookiecutterrc by .copier-answers.yml ([`2030c88`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2030c88dfb0ca69ac332380e33b3baed9cb6cf44))
+
+* coverage: coverage-report fix ([`1bd26b7`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1bd26b71abcb090ef32cb2fbdd05b978bce5144c))
+
+* GitHub Workflows: remove templates, rendered by *copier update* ([`8a637a5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/8a637a5b34df4a3ec6a4e8cae97a9d3e24ad2e5c))
+
+* GitHub Workflow: publish depends on all other job to be successful ([`efc1f22`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/efc1f223aa2da882d43b27406a2f20113c2c8879))
+
+* Template: latest GitHub Workflow templates applied ([`7d87906`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/7d87906c852cb2b57704c45db0b19c7a1ae513a2))
+
+* coverage: fix path name matching rules ([`37bd2d9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/37bd2d93a8fe10a3355feee6779f45bd9161a88b))
+
+### Documentation
+
+* Copyright years: update ([`cee35e6`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/cee35e6fe92ae27575bd7fb4a7a2638cd1c931b2))
+
+* Contributions: Authors update ([`dd5a5c4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/dd5a5c4d81732821057bcc200f462159cffa760b))
+
+### Refactoring
+
+* Project: GitHub Workflow templates fixed ([`b346b28`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/b346b282332f0f7f81b724509a4004e6a69d7791))
+
+* Project: GitHub Workflow templates updated ([`235c4d9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/235c4d9c53997fdf4c08913361fb57167939cd7c))
+
+* Project: switching to copier for project template with update mechanism ([`0d3064b`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/0d3064b8cef45667b0964aab248b583424946207))
+
 ## v1.3.0 (2025-07-16)
 
 ### Bug fixes

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/LICENSE

@@ -1,6 +1,6 @@
 MIT License
 
-Copyright (c) 2018-2023, Ingo Breßler
+Copyright (c) 2018-2025, Ingo Breßler and Brian R. Pauw
 
 Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:
 

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/MANIFEST.in

@@ -3,10 +3,11 @@ exclude docs/reference/autosummary/*
 graft src
 graft ci
 graft tests
+graft testdata
 
 include .editorconfig
 include .pre-commit-config.yaml
-include .cookiecutterrc
+include .copier-answers.yml
 include tox.ini
 
 include AUTHORS.rst
@@ -17,4 +18,3 @@ include README.rst
 
 global-exclude *.py[cod] __pycache__/* *.so *.dylib .DS_Store */.ipynb_checkpoints/*
 recursive-include templates *.j2
-recursive-include testdata *.pdh *.ssfz *.json

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/PKG-INFO

@@ -1,15 +1,14 @@
 Metadata-Version: 2.4
 Name: jupyter-analysis-tools
-Version: 1.3.0
+Version: 1.3.1
 Summary: Yet another Python library with helpers and utilities for data analysis and processing.
-Author-email: Ingo Breßler <dev@ingobressler.net>
-License: MIT license
+Author-email: Ingo Breßler <ingo.bressler@bam.de>, "Brian R. Pauw" <brian.pauw@bam.de>
+License-Expression: MIT
 Project-URL: homepage, https://BAMresearch.github.io/jupyter-analysis-tools
 Project-URL: documentation, https://BAMresearch.github.io/jupyter-analysis-tools
 Project-URL: repository, https://github.com/BAMresearch/jupyter-analysis-tools
 Project-URL: changelog, https://BAMresearch.github.io/jupyter-analysis-tools/changelog.html
 Classifier: Development Status :: 4 - Beta
-Classifier: License :: OSI Approved :: MIT License
 Classifier: Operating System :: Unix
 Classifier: Operating System :: POSIX
 Classifier: Operating System :: MacOS
@@ -53,8 +52,8 @@ Yet another Python library with helpers and utilities for data analysis and proc
     :target: https://pypi.org/project/jupyter-analysis-tools
     :alt: PyPI Package latest release
 
-.. |commits-since| image:: https://img.shields.io/github/commits-since/BAMresearch/jupyter-analysis-tools/v1.3.0.svg
-    :target: https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.3.0...main
+.. |commits-since| image:: https://img.shields.io/github/commits-since/BAMresearch/jupyter-analysis-tools/v1.3.1.svg
+    :target: https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.3.1...main
     :alt: Commits since latest release
 
 .. |license| image:: https://img.shields.io/pypi/l/jupyter-analysis-tools.svg
@@ -127,6 +126,44 @@ Note, to combine the coverage data from all the tox environments run:
 
 # CHANGELOG
 
+## v1.3.1 (2025-07-23)
+
+### Bug fixes
+
+* Project: update manifest and flake8 config, reapplied template ([`c98c648`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c98c6489423a45d8a195fda32396ea9d9d18b9eb))
+
+### Code style
+
+* utils: satisfy flake8 ([`2e3dc36`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2e3dc36ef21e60f4fe7b8caea567411cc69967c0))
+
+### Continuous integration
+
+* semantic-release: replace .cookiecutterrc by .copier-answers.yml ([`2030c88`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2030c88dfb0ca69ac332380e33b3baed9cb6cf44))
+
+* coverage: coverage-report fix ([`1bd26b7`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1bd26b71abcb090ef32cb2fbdd05b978bce5144c))
+
+* GitHub Workflows: remove templates, rendered by *copier update* ([`8a637a5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/8a637a5b34df4a3ec6a4e8cae97a9d3e24ad2e5c))
+
+* GitHub Workflow: publish depends on all other job to be successful ([`efc1f22`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/efc1f223aa2da882d43b27406a2f20113c2c8879))
+
+* Template: latest GitHub Workflow templates applied ([`7d87906`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/7d87906c852cb2b57704c45db0b19c7a1ae513a2))
+
+* coverage: fix path name matching rules ([`37bd2d9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/37bd2d93a8fe10a3355feee6779f45bd9161a88b))
+
+### Documentation
+
+* Copyright years: update ([`cee35e6`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/cee35e6fe92ae27575bd7fb4a7a2638cd1c931b2))
+
+* Contributions: Authors update ([`dd5a5c4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/dd5a5c4d81732821057bcc200f462159cffa760b))
+
+### Refactoring
+
+* Project: GitHub Workflow templates fixed ([`b346b28`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/b346b282332f0f7f81b724509a4004e6a69d7791))
+
+* Project: GitHub Workflow templates updated ([`235c4d9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/235c4d9c53997fdf4c08913361fb57167939cd7c))
+
+* Project: switching to copier for project template with update mechanism ([`0d3064b`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/0d3064b8cef45667b0964aab248b583424946207))
+
 ## v1.3.0 (2025-07-16)
 
 ### Bug fixes

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/README.rst

@@ -14,8 +14,8 @@ Yet another Python library with helpers and utilities for data analysis and proc
     :target: https://pypi.org/project/jupyter-analysis-tools
     :alt: PyPI Package latest release
 
-.. |commits-since| image:: https://img.shields.io/github/commits-since/BAMresearch/jupyter-analysis-tools/v1.3.0.svg
-    :target: https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.3.0...main
+.. |commits-since| image:: https://img.shields.io/github/commits-since/BAMresearch/jupyter-analysis-tools/v1.3.1.svg
+    :target: https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.3.1...main
     :alt: Commits since latest release
 
 .. |license| image:: https://img.shields.io/pypi/l/jupyter-analysis-tools.svg

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/ci/requirements.txt

@@ -5,6 +5,7 @@ six>=1.14.0
 tox
 build
 twine
+toml
 python-semantic-release
 # provides the *coverage* command to combine and publish coverage data
 # generated within tox environments

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/docs/conf.py

@@ -19,17 +19,20 @@ extensions = [
     "sphinx.ext.napoleon",
     "sphinx.ext.todo",
     "sphinx.ext.viewcode",
+    "sphinx.ext.inheritance_diagram",
+    "sphinx.ext.graphviz",
     "myst_parser",
 ]
+inheritance_edge_attrs = dict(color="gray")  # readable in darkmode too
 autosummary_generate = True  # Turn on sphinx.ext.autosummary
 templates_path = ["_templates"]
 source_suffix = ".rst"
 master_doc = "index"
 project = "Jupyter Analysis Tools"
-year = "2018-2023"
-author = "Ingo Breßler"
+year = "2018-2025"
+author = "Ingo Breßler and Brian R. Pauw"
 copyright = "{0}, {1}".format(year, author)
-version = "1.3.0"
+version = "1.3.1"
 release = version
 commit_id = None
 try:
@@ -42,6 +45,7 @@ except subprocess.CalledProcessError as e:
 
 autodoc_mock_imports = [
     "ipykernel",
+    "notebook",
     "pandas",
     "ipywidgets",
     "matplotlib",
@@ -49,6 +53,9 @@ autodoc_mock_imports = [
     "h5py",
     "pint",
     "sasmodels",
+    "chempy",
+    "graphviz",
+    "mcsas3",
 ]
 
 pygments_style = "trac"
@@ -78,7 +85,7 @@ linkcheck_ignore = [
     + r".*",
     # attempted fix of '406 Client Error: Not Acceptable for url'
     # https://github.com/sphinx-doc/sphinx/issues/1331
-    join(project_meta["project"]["urls"]["repository"], "commit", r"[0-9a-fA-F]+"),
+    join(project_meta["project"]["urls"]["repository"], "commit", r"[0-9a-fA-F]+")
 ]
 linkcheck_anchors_ignore_for_url = [
     r"https://pypi\.org/project/[^/]+",

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/pyproject.toml

@@ -1,13 +1,11 @@
 [project]
 name = "jupyter-analysis-tools"
 description = "Yet another Python library with helpers and utilities for data analysis and processing."
-authors = [{ name = "Ingo Breßler", email = "dev@ingobressler.net" }]
 dynamic = ["version", "readme"]
-license = {text = "MIT license"}
+license = "MIT"
 classifiers = [
   # complete classifier list: http://pypi.python.org/pypi?%3Aaction=list_classifiers
   "Development Status :: 4 - Beta",
-  "License :: OSI Approved :: MIT License",
   "Operating System :: Unix",
   "Operating System :: POSIX",
   "Operating System :: MacOS",
@@ -30,6 +28,14 @@ dependencies = [
   "numpy", "scipy", "pandas", "matplotlib", "ipywidgets"
 ]
 
+[[project.authors]]
+name = "Ingo Breßler"
+email = "ingo.bressler@bam.de"
+
+[[project.authors]]
+name = "Brian R. Pauw"
+email = "brian.pauw@bam.de"
+
 [project.urls]
 homepage = "https://BAMresearch.github.io/jupyter-analysis-tools"
 documentation = "https://BAMresearch.github.io/jupyter-analysis-tools"
@@ -53,7 +59,7 @@ version = {attr = "jupyter_analysis_tools.__version__"}
 readme = {file = ["README.rst", "CHANGELOG.md"]}
 
 [tool.coverage.report]
-path = "coverage-report"
+path = "coverage-report"  # see coverage.yml github action
 
 # on version numbers: https://peps.python.org/pep-0440/
 # and bottom of https://softwareengineering.stackexchange.com/a/151558

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/src/jupyter_analysis_tools/__init__.py

@@ -1,7 +1,7 @@
 # -*- coding: utf-8 -*-
 # __init__.py
 
-__version__ = "1.3.0"
+__version__ = "1.3.1"
 
 from .binning import reBin
 from .git import checkRepo, isNBstripoutActivated, isNBstripoutInstalled, isRepo

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/src/jupyter_analysis_tools.egg-info/PKG-INFO

@@ -1,15 +1,14 @@
 Metadata-Version: 2.4
 Name: jupyter-analysis-tools
-Version: 1.3.0
+Version: 1.3.1
 Summary: Yet another Python library with helpers and utilities for data analysis and processing.
-Author-email: Ingo Breßler <dev@ingobressler.net>
-License: MIT license
+Author-email: Ingo Breßler <ingo.bressler@bam.de>, "Brian R. Pauw" <brian.pauw@bam.de>
+License-Expression: MIT
 Project-URL: homepage, https://BAMresearch.github.io/jupyter-analysis-tools
 Project-URL: documentation, https://BAMresearch.github.io/jupyter-analysis-tools
 Project-URL: repository, https://github.com/BAMresearch/jupyter-analysis-tools
 Project-URL: changelog, https://BAMresearch.github.io/jupyter-analysis-tools/changelog.html
 Classifier: Development Status :: 4 - Beta
-Classifier: License :: OSI Approved :: MIT License
 Classifier: Operating System :: Unix
 Classifier: Operating System :: POSIX
 Classifier: Operating System :: MacOS
@@ -53,8 +52,8 @@ Yet another Python library with helpers and utilities for data analysis and proc
     :target: https://pypi.org/project/jupyter-analysis-tools
     :alt: PyPI Package latest release
 
-.. |commits-since| image:: https://img.shields.io/github/commits-since/BAMresearch/jupyter-analysis-tools/v1.3.0.svg
-    :target: https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.3.0...main
+.. |commits-since| image:: https://img.shields.io/github/commits-since/BAMresearch/jupyter-analysis-tools/v1.3.1.svg
+    :target: https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.3.1...main
     :alt: Commits since latest release
 
 .. |license| image:: https://img.shields.io/pypi/l/jupyter-analysis-tools.svg
@@ -127,6 +126,44 @@ Note, to combine the coverage data from all the tox environments run:
 
 # CHANGELOG
 
+## v1.3.1 (2025-07-23)
+
+### Bug fixes
+
+* Project: update manifest and flake8 config, reapplied template ([`c98c648`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c98c6489423a45d8a195fda32396ea9d9d18b9eb))
+
+### Code style
+
+* utils: satisfy flake8 ([`2e3dc36`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2e3dc36ef21e60f4fe7b8caea567411cc69967c0))
+
+### Continuous integration
+
+* semantic-release: replace .cookiecutterrc by .copier-answers.yml ([`2030c88`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2030c88dfb0ca69ac332380e33b3baed9cb6cf44))
+
+* coverage: coverage-report fix ([`1bd26b7`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1bd26b71abcb090ef32cb2fbdd05b978bce5144c))
+
+* GitHub Workflows: remove templates, rendered by *copier update* ([`8a637a5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/8a637a5b34df4a3ec6a4e8cae97a9d3e24ad2e5c))
+
+* GitHub Workflow: publish depends on all other job to be successful ([`efc1f22`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/efc1f223aa2da882d43b27406a2f20113c2c8879))
+
+* Template: latest GitHub Workflow templates applied ([`7d87906`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/7d87906c852cb2b57704c45db0b19c7a1ae513a2))
+
+* coverage: fix path name matching rules ([`37bd2d9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/37bd2d93a8fe10a3355feee6779f45bd9161a88b))
+
+### Documentation
+
+* Copyright years: update ([`cee35e6`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/cee35e6fe92ae27575bd7fb4a7a2638cd1c931b2))
+
+* Contributions: Authors update ([`dd5a5c4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/dd5a5c4d81732821057bcc200f462159cffa760b))
+
+### Refactoring
+
+* Project: GitHub Workflow templates fixed ([`b346b28`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/b346b282332f0f7f81b724509a4004e6a69d7791))
+
+* Project: GitHub Workflow templates updated ([`235c4d9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/235c4d9c53997fdf4c08913361fb57167939cd7c))
+
+* Project: switching to copier for project template with update mechanism ([`0d3064b`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/0d3064b8cef45667b0964aab248b583424946207))
+
 ## v1.3.0 (2025-07-16)
 
 ### Bug fixes

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/src/jupyter_analysis_tools.egg-info/SOURCES.txt

@@ -1,4 +1,4 @@
-.cookiecutterrc
+.copier-answers.yml
 .editorconfig
 .pre-commit-config.yaml
 AUTHORS.rst
@@ -10,13 +10,6 @@ README.rst
 pyproject.toml
 tox.ini
 ci/requirements.txt
-ci/update.py
-ci/templates/.github/workflows/build.yml
-ci/templates/.github/workflows/ci-cd.yml
-ci/templates/.github/workflows/coverage.yml
-ci/templates/.github/workflows/docs.yml
-ci/templates/.github/workflows/release.yml
-ci/templates/.github/workflows/tests.yml
 docs/authors.rst
 docs/changelog.rst
 docs/conf.py

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/tests/requirements.txt

@@ -1,4 +1,5 @@
 ipykernel
+notebook
 pandas
 ipywidgets
 matplotlib

{jupyter_analysis_tools-1.3.0 → jupyter_analysis_tools-1.3.1}/tox.ini

@@ -1,14 +1,3 @@
-# on updates run 'python3 ci/update.py --no-env' to generate tests.yml github workflows
-[testenv:bootstrap]
-deps =
-    jinja2
-    tox
-    toml
-    pyyaml
-skip_install = true
-commands =
-    python ci/update.py --no-env
-
 [tox]
 envlist =
     clean,
@@ -30,6 +19,9 @@ basepython =
 setenv =
     PYTHONPATH={toxinidir}/tests
     PYTHONUNBUFFERED=yes
+    # fix wrong cp1252 on Windows when loading a notebook with dash (or other unicode symbols)
+    # since locale.getpreferredencoding can't be changed easily
+    PYTHONUTF8=1
 deps =
     pytest
     pytest-cov
@@ -82,7 +74,7 @@ commands =
 deps =
     coverage
 skip_install = true
-allowlist_externals=/bin/rm,/usr/bin/rm,rm
+allowlist_externals=/bin/rm,/usr/bin/rm
 commands =
     coverage erase
     rm -Rf dist build htmlcov src/jupyter_analysis_tools.egg-info
@@ -122,7 +114,10 @@ testpaths =
     notebooks
 # Idea from: https://til.simonwillison.net/pytest/treat-warnings-as-errors
 filterwarnings =
-    ignore::DeprecationWarning:distutils|notebook|_pytest|xarray|nbclient|pytest_notebook|debugpy|pkg_resources
+    ignore::DeprecationWarning:distutils|notebook|_pytest|xarray|nbclient|pytest_notebook|debugpy
+    ignore::DeprecationWarning:pkg_resources|openpyxl|zmq
+    # ignore warnings about unknown pytest-notebook options below
+    ignore::Warning:_pytest
 nb_test_files = True
 nb_coverage = False
 nb_post_processors =
@@ -139,10 +134,10 @@ nb_diff_ignore =
 [coverage:paths]
 src =
    src
-   */jupyter_analysis_tools/jupyter_analysis_tools/src
+   */jupyter-analysis-tools/jupyter-analysis-tools/src
 tests =
    tests
-   */jupyter_analysis_tools/jupyter_analysis_tools/tests
+   */jupyter-analysis-tools/jupyter-analysis-tools/tests
 
 [coverage:run]
 branch = true

jupyter_analysis_tools-1.3.0/.cookiecutterrc

@@ -1,27 +0,0 @@
-# This file exists so you can easily regenerate your project.
-# run:
-#
-#    cookiecutter --overwrite-if-exists --config-file=.cookiecutterrc gh:BAMresearch/yapy-cookiecutter
-
-default_context:
-    full_name:                 'Ingo Breßler'
-    email:                     'dev@ingobressler.net'
-    website:                   'https://github.com/ibressler'
-    project_name:              'Jupyter Analysis Tools'
-    repo_name:                 'jupyter-analysis-tools'
-    repo_hosting:              'github.com'
-    repo_hosting_domain:       'github.com'
-    repo_userorg:              'BAMresearch'
-    docs_url:                  'https://BAMresearch.github.io/jupyter-analysis-tools'
-    repo_main_branch:          'main'
-    package_name:              'jupyter_analysis_tools'
-    distribution_name:         'jupyter-analysis-tools'
-    project_short_description: 'Yet another Python library with helpers and utilities for data analysis and processing.'
-    release_date:              'today'
-    year_from:                 '2018'
-    year_to:                   '2023'
-    version:                   '1.3.0'
-    pypi_host:                 'pypi.org'
-    license:                   'MIT license'
-    sphinx_theme:              'furo'
-    extra_context:             {'exclude_existing': "['AUTHORS.rst', 'CHANGELOG.md', 'src/jupyter_analysis_tools/__init__.py']"}

jupyter_analysis_tools-1.3.0/AUTHORS.rst

@@ -1,6 +0,0 @@
-
-Authors
-=======
-
-* Ingo Breßler - dev <at> ingobressler.net
-* Brian R. Pauw - brian <at> stack.nl

jupyter_analysis_tools-1.3.0/ci/templates/.github/workflows/build.yml

@@ -1,61 +0,0 @@
-name: Build
-
-# Controls when the action will run.
-on:
-  workflow_call:
-
-{% import '.github/workflows/ci-cd.yml' as ci with context %}{# Use some Jinja macros -#}
-
-jobs:
-  build:
-    # convert this to a matrix if builds differ between platforms
-    runs-on: {{'${{ matrix.os }}'}}
-    strategy:
-      matrix:
-        os: ['ubuntu-latest']
-    steps:
-
-      {{ ci.checkout() }}
-        with:
-          ref: main
-
-      {{ ci.setup_python() }}
-
-      {{ ci.pip_install_req() }}
-
-      - name: Build
-        run: tox -e build -v
-
-      - name: Upload packages for publishing job
-        uses: actions/upload-artifact@v4
-        with:
-          name: {{"packages-${{ matrix.os }}"}}
-          path: |
-              dist/*.whl
-              dist/*.tar.gz
-
-  publish:
-    needs: [build]
-    runs-on: 'ubuntu-latest'
-    steps:
-
-      {{ ci.checkout() }}
-
-      {{ ci.pip_install_req() }}
-
-      - name: Download package artifacts
-        uses: actions/download-artifact@v4
-        with:
-          pattern: packages-*
-          merge-multiple: true
-          path: dist
-
-      - name: Check generated packages
-        run: twine check dist/*.*
-
-      - name: Upload packages
-        env:
-          TWINE_PASSWORD: {{'"${{ secrets.'+pypi_token+' }}"'}}
-          TWINE_NON_INTERACTIVE: 1
-        run: |
-          twine upload --disable-progress-bar --skip-existing -u __token__ -r {{ pypi_repo }} dist/*.*

jupyter_analysis_tools-1.3.0/ci/templates/.github/workflows/ci-cd.yml

@@ -1,69 +0,0 @@
-name: CI-CD
-
-# Controls when the action will run.
-on:
-  # Triggers the workflow on push or pull request events but only for the main branch
-  push:
-    branches: [main]
-  pull_request:
-    branches: [main]
-
-  # Allows you to run this workflow manually from the Actions tab
-  workflow_dispatch:
-
-jobs:
-  # check if everything works first
-  tests:
-    uses: ./.github/workflows/tests.yml
-
-  # make a new version next, release or prerelease
-  release:
-    needs: [tests]
-    uses: ./.github/workflows/release.yml
-
-  build:
-    needs: [release, tests]  # build only if all tests are successful
-    uses: ./.github/workflows/build.yml
-    secrets: inherit
-
-  docs:
-    needs: [release]  # get (release) version number first
-    uses: ./.github/workflows/docs.yml
-
-  coverage:
-    needs: [tests, docs]  # coverage report is added to the docs webpage
-    uses: ./.github/workflows/coverage.yml
-
-{#- Some Jinja macros for reusing recurring workflow job steps -#}
-
-{%- macro checkout(depth=1) -%}
-      - name: Checking out the repo
-        uses: actions/checkout@v4
-        {%- if depth != 1 +%}
-        with:
-          fetch-depth: {{ depth }}
-        {%- endif -%}
-{%- endmacro -%}
-
-{%- macro setup_python(arch, py=py_ver, req=['ci/requirements.txt']) -%}
-      # see *py_ver* in ci/update.py
-      - name: Setting up Python {{ py }}
-        uses: actions/setup-python@v5
-        with:
-          python-version: '{{ py }}'
-          {% if arch %}
-          architecture: '{{ arch }}'
-          {% endif %}
-          cache: pip
-          cache-dependency-path: |
-          {%- for fn in req +%}
-            {{ fn }}
-          {%- endfor -%}
-{%- endmacro -%}
-
-{% macro pip_install_req() -%}
-      - name: Install dependencies
-        run: |
-          python -m pip install --upgrade pip
-          python -m pip install --progress-bar=off -r ci/requirements.txt
-{%- endmacro +%}

jupyter_analysis_tools-1.3.0/ci/templates/.github/workflows/coverage.yml

@@ -1,132 +0,0 @@
-name: Coverage
-
-# Controls when the action will run.
-on:
-  workflow_call:
-
-{% import '.github/workflows/ci-cd.yml' as ci with context %}{# Use some Jinja macros -#}
-
-env:
-  DOCS_URL: {{ docs_url }}
-  COV_REPORT_BASE_DIR: {{ cov_report_path }}
-
-jobs:
-  combine:
-    name: Combine coverage data
-    runs-on: ubuntu-latest
-    outputs:
-      total: {{ '${{ steps.total.outputs.total }}' }}
-    steps:
-
-      {{ ci.checkout() }}
-
-      {{ ci.setup_python() }}
-
-      {{ ci.pip_install_req() }}
-
-      - name: Download coverage data
-        uses: actions/download-artifact@v4
-        with:
-          name: coverage
-
-      - name: Combine and report
-        id: combine
-        run: |
-          set -x
-          pwd && ls -la
-          coverage combine coverage.*
-          python3 -c 'import coverage,pprint; cov=coverage.Coverage(); cov.load();pprint.pprint(list(cov.get_data()._file_map.keys()))'
-          coverage html --debug=pathmap
-
-      - name: Upload HTML report
-        uses: actions/upload-artifact@v4
-        with:
-          name: html_report
-          path: htmlcov
-
-      - name: Get total
-        id: total
-        run: |
-          echo "total=$(coverage report --format=total)" >> $GITHUB_OUTPUT
-
-  publish:
-    name: Publish coverage report
-    needs: combine
-    runs-on: ubuntu-latest
-
-    steps:
-      - name: Compute info for later steps
-        id: info
-        run: |
-          set -xe
-          export SHA10=$(echo {{ '${{ github.sha }}' }} | cut -c 1-10)
-          export SLUG=$(date +'%Y%m%d')_$SHA10
-          export REPORT_DIR=$COV_REPORT_BASE_DIR/$SLUG
-          export REF={{'"${{ github.ref }}"'}}
-          echo "total={{'${{ needs.combine.outputs.total }}'}}" >> $GITHUB_ENV
-          echo "sha10=$SHA10" >> $GITHUB_ENV
-          echo "slug=$SLUG" >> $GITHUB_ENV
-          echo "report_dir=$REPORT_DIR" >> $GITHUB_ENV
-          echo "branch=${REF#refs/heads/}" >> $GITHUB_ENV
-
-      - name: Summarize
-        run: |
-          echo '### Total coverage: {{'${{ env.total }}'}}%' >> $GITHUB_STEP_SUMMARY
-
-      - name: Checkout documentation pages branch
-        if: {{"${{ github.ref == 'refs/heads/main' }}"}}
-        uses: actions/checkout@v4
-        with:
-          ref: gh-pages
-          path: pages
-
-      - name: Purge old documentation files
-        run: cd pages && git rm -rf . || true
-
-      - name: Download previously generated documentation
-        if: {{"${{ github.ref == 'refs/heads/main' }}"}}
-        uses: actions/download-artifact@v4
-        with:
-          name: docs
-          path: pages
-
-      - name: Download coverage HTML report
-        if: {{"${{ github.ref == 'refs/heads/main' }}"}}
-        uses: actions/download-artifact@v4
-        with:
-          name: html_report
-          path: {{"pages/${{ env.report_dir }}"}}
-
-      - name: Push to report repo
-        if: {{"${{ github.ref == 'refs/heads/main' }}"}}
-        env:
-          COMMIT_MESSAGE: {{'${{ github.event.head_commit.message }}'}}
-          REDIR_HTML: {{'"pages/${{ env.COV_REPORT_BASE_DIR }}/index.html"'}}
-          BADGE_JSON: {{'"pages/${{ env.COV_REPORT_BASE_DIR }}/cov.json"'}}
-          REPORT_URL: {{'"${{ env.DOCS_URL }}/${{ env.report_dir }}"'}}
-        run: |
-          set -xe
-          # Make the redirect to the latest report.
-          echo "<html><head>" > "$REDIR_HTML"
-          echo "<meta http-equiv='refresh' content={{"'0;url=$REPORT_URL'"}} />" >> "$REDIR_HTML"
-          echo "<body>Coverage report redirect..." >> "$REDIR_HTML"
-          # Make the commit message.
-          echo {{'"${{ env.total }}% - $COMMIT_MESSAGE"'}} > commit.txt
-          echo "" >> commit.txt
-          echo "$REPORT_URL" >> commit.txt
-          echo {{'"${{ env.sha10 }}: ${{ env.branch }}"'}} >> commit.txt
-          # Make badge json
-          COL_MIN=10; COL_MAX=95;
-          HUE=$(python3 -c "print(int(({{'${{ env.total }}'}} - $COL_MIN)/($COL_MAX - $COL_MIN) * 120))")
-          echo "{\"schemaVersion\":1,\"label\":\"Coverage\",\"message\":\"{{'${{ env.total }}'}}%\",\"color\":\"hsl($HUE, 100%, 40%)\"}" > "$BADGE_JSON"
-          # Commit.
-          cd ./pages
-          rm -f {{'${{ env.report_dir }}/.gitignore'}}
-          # ls -la {{'${{ env.report_dir }}'}} # for debugging
-          # {{"${{ env.report_dir }}"}}/* "${REDIR_HTML#*/}" "${BADGE_JSON#*/}"
-          git add -A
-          git config user.name "${GITHUB_ACTOR}"
-          git config user.email "${GITHUB_ACTOR}@users.noreply.github.com"
-          git commit --file=../commit.txt
-          git push
-          echo {{'"[$REPORT_URL]($REPORT_URL)"'}} >> $GITHUB_STEP_SUMMARY

jupyter_analysis_tools-1.3.0/ci/templates/.github/workflows/docs.yml

@@ -1,37 +0,0 @@
-name: Docs
-
-# Controls when the action will run.
-on:
-  workflow_call:
-
-{% import '.github/workflows/ci-cd.yml' as ci with context %}{# Use some Jinja macros -#}
-
-jobs:
-  docs:
-    # defining this job separately allows to refer to it later as job.needs dependency
-    runs-on: ubuntu-latest
-    steps:
-
-      {{ ci.checkout(depth=0) }}
-
-      {{ ci.setup_python() }}
-
-      {{ ci.pip_install_req() }}
-
-      - name: Check
-        run: tox -e check -v
-
-      - name: Generate documentation
-        run: tox -e docs -v
-
-      - name: Upload docs for finalization later
-        uses: actions/upload-artifact@v4
-        with:
-          name: docs
-          path: dist/docs
-
-      # - name: Upload generated documentation
-      #   uses: peaceiris/actions-gh-pages@v3
-      #   with:
-      #     github_token: {{'${{ secrets.GITHUB_TOKEN }}'}}
-      #     publish_dir: ./dist/docs

jupyter_analysis_tools-1.3.0/ci/templates/.github/workflows/release.yml

@@ -1,39 +0,0 @@
-name: Release
-
-# Controls when the action will run.
-on:
-  workflow_call:
-
-{% import '.github/workflows/ci-cd.yml' as ci with context %}{# Use some Jinja macros -#}
-
-jobs:
-  # make a new version first, release or prerelease
-  release:
-    # Only run this job if new work is pushed to "main"
-    if: github.event_name == 'push' && github.ref == 'refs/heads/main'
-    runs-on: ubuntu-latest
-    steps:
-
-      {{ ci.checkout(depth=0) }}
-
-      - name: Setup git user
-        run: |
-          git config user.name "${GITHUB_ACTOR}"
-          git config user.email "${GITHUB_ACTOR}@users.noreply.github.com"
-
-      {{ ci.setup_python() }}
-
-      {{ ci.pip_install_req() }}
-
-      - name: Determine a version number
-        env:
-          GH_TOKEN: {{'${{ secrets.GITHUB_TOKEN }}'}}
-        shell: sh
-        run: |
-          set -x
-          NEWVER=$(semantic-release version --print)
-          sed -i -e "s/v\([0-9]\+\.\)\{3\}/v$NEWVER./" README.rst
-          sed -i -e "s/\([0-9]\+\.\)\{2\}[0-9]\+/$NEWVER/" .cookiecutterrc
-          git add README.rst .cookiecutterrc
-          # creates a release only if there are relevant changes/commits starting with 'fix/feat()'
-          semantic-release version

jupyter_analysis_tools-1.3.0/ci/templates/.github/workflows/tests.yml

@@ -1,58 +0,0 @@
-name: Tests
-
-# Controls when the action will run.
-on:
-  # Allows you to run this workflow manually from the Actions tab
-  workflow_dispatch:
-
-  workflow_call:
-
-{% import '.github/workflows/ci-cd.yml' as ci %}{# Use some Jinja macros -#}
-
-jobs:
-  # defining this job separately allows to refer to it later as job.needs dependency
-  tests:
-    timeout-minutes: 30
-    strategy:
-      fail-fast: false
-      matrix:
-        python_arch: ['x64']
-        python:
-{% for env in tox_environments %}
-{% set prefix = env.split('-')[0] %}
-          - [{{prefix[2]}}, {{prefix[3:]}}]
-{% endfor %}
-        # os: ['ubuntu', 'windows', 'macos']
-        os: ['ubuntu']
-    env:
-      PYTHON: {{"${{ join(matrix.python, '.') }}"}}  # e.g. '3.11'
-      TOX_ENV: {{"${{ format('{0}{1}', 'py', join(matrix.python, '')) }}"}}  # e.g. 'py311'
-    runs-on: {{"${{ format('{0}-latest', matrix.os) }}"}}
-    name: {{'"Test py-${{ join(matrix.python, \'.\') }} (${{ matrix.os }})"'}}
-    steps:
-
-      {{ ci.checkout(depth=0) }}
-
-      {{ ci.setup_python(arch='${{ matrix.python_arch }}', py='${{ env.PYTHON }}',
-                         req=['ci/requirements.txt', 'tests/requirements.txt']) }}
-
-      {{ ci.pip_install_req() }}
-
-      - name: Show installed package details
-        run: |
-          virtualenv --version
-          pip --version
-          tox --version
-          pip list --format=freeze
-
-      - name: Run tests
-        run: tox -e {{'${{ env.TOX_ENV }}'}} -v
-
-      - name: Rename coverage data uniquely
-        run: {{ 'mv .coverage coverage.${{ env.TOX_ENV }}.${{ matrix.os }}' }}
-
-      - name: Upload coverage data for next step
-        uses: actions/upload-artifact@v4
-        with:
-          name: coverage
-          path: coverage.*

jupyter_analysis_tools-1.3.0/ci/update.py

@@ -1,125 +0,0 @@
-#!/usr/bin/env python
-# -*- coding: utf-8 -*-
-# Updates any files with templates in <project root>/ci/templates directory by
-# running 'python3 ci/update.py --no-env'
-# Typically, github workflow files are generated with the help of tox and its config.
-import os
-import pathlib
-import subprocess
-import sys
-
-import jinja2
-import toml
-import yaml
-
-base_path: pathlib.Path = pathlib.Path(__file__).resolve().parent.parent
-templates_path = base_path / "ci" / "templates"
-
-
-def check_call(args):
-    print("+", *args)
-    subprocess.check_call(args)
-
-
-def exec_in_env():
-    env_path = base_path / ".tox" / "bootstrap"
-    if sys.platform == "win32":
-        bin_path = env_path / "Scripts"
-    else:
-        bin_path = env_path / "bin"
-    if not env_path.exists():
-        import subprocess
-
-        print("Making bootstrap env in: {0} ...".format(env_path))
-        try:
-            check_call([sys.executable, "-m", "venv", env_path])
-        except subprocess.CalledProcessError:
-            try:
-                check_call([sys.executable, "-m", "virtualenv", env_path])
-            except subprocess.CalledProcessError:
-                check_call(["virtualenv", env_path])
-        print("Installing `jinja2` into bootstrap environment...")
-        check_call([bin_path / "pip", "install", "jinja2", "tox"])
-    python_executable = bin_path / "python"
-    if not python_executable.exists():
-        python_executable = python_executable.with_suffix(".exe")
-
-    print("Re-executing with: {0}".format(python_executable))
-    print("+ exec", python_executable, __file__, "--no-env")
-    os.execv(python_executable, [python_executable, __file__, "--no-env"])
-
-
-def loadYaml(filepath: pathlib.Path):
-    if not filepath.is_file():
-        return {}
-    with open(filepath, "r") as fh:
-        try:
-            return yaml.safe_load(fh)
-        except yaml.YAMLError as exc:
-            print(exc)
-            return {}
-
-
-def main():
-    print("Project path: {0}".format(base_path))
-    # use pyproject.toml as source for paths and urls
-    project_meta = toml.load(base_path / "pyproject.toml")
-    # use cookiecutter cfg to file template params not rendered yet
-    cc = loadYaml(base_path / ".cookiecutterrc")
-    pypi_host = cc.get("default_context", {}).get("pypi_host", "").split(".")[:-1]
-
-    jinja = jinja2.Environment(
-        loader=jinja2.FileSystemLoader(str(templates_path)),
-        trim_blocks=True,
-        lstrip_blocks=True,
-        keep_trailing_newline=True,
-    )
-
-    tox_environments = [
-        line.strip()
-        # 'tox' need not be installed globally, but must be importable
-        # by the Python that is running this script.
-        for line in subprocess.check_output(
-            [sys.executable, "-m", "tox", "--listenvs"], universal_newlines=True
-        ).splitlines()
-    ]
-    # add a version number to the generic Python3 name (just 'py') for templates to build ok
-    tox_environments = [
-        (line if len(line) > 2 else line + "".join(sys.version.split(".")[:2]))
-        for line in tox_environments
-        if line.startswith("py")
-    ]
-
-    for template in templates_path.rglob("*"):
-        if template.is_file() and template.name != ".DS_Store":
-            template_path = str(template.relative_to(templates_path))
-            destination = base_path / template_path
-            destination.parent.mkdir(parents=True, exist_ok=True)
-            destination.write_text(
-                jinja.get_template(template_path).render(
-                    tox_environments=tox_environments,
-                    docs_url=project_meta["project"]["urls"]["documentation"],
-                    cov_report_path=project_meta["tool"]["coverage"]["report"]["path"],
-                    # Python version to use for general tasks: docs (when tox did not set one)
-                    py_ver=".".join(sys.version.split(".")[:2]),
-                    pypi_token=(
-                        "_".join(pypi_host + ["token"]).upper()
-                        if len(pypi_host)
-                        else "TEST_PYPI_TOKEN"
-                    ),
-                    pypi_repo="".join(pypi_host) if len(pypi_host) else "testpypi",
-                )
-            )
-            print("Wrote {}".format(template_path))
-    print("DONE.")
-
-
-if __name__ == "__main__":
-    args = sys.argv[1:]
-    if args == ["--no-env"]:
-        main()
-    elif not args:
-        exec_in_env()
-    else:
-        print("Unexpected arguments {0}".format(args), file=sys.stderr)
-        sys.exit(1)