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Adding sankey as plotting option #4

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Adding sankey as plotting option #4

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c569ac5
start working on sankey plot for pyclustree
harryhaller001 Apr 28, 2025
da002f4
working on sankey pyclustree implentation
harryhaller001 May 15, 2025
53e5323
adding typed marker file, working on gene expression overlay
harryhaller001 May 31, 2025
a736181
integrating sankey pyclustree in package code, updating docs
harryhaller001 Jun 1, 2025
13bc57f
working on sankey plots for pyclustree, increase python version
harryhaller001 Feb 22, 2026
3c7d531
update testing
harryhaller001 Feb 22, 2026
827e5ae
update pre commit config, remove testing noteboon, format code
harryhaller001 Feb 22, 2026
a12adf2
Merge branch 'main' into sankey
harryhaller001 Feb 22, 2026
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4 changes: 2 additions & 2 deletions .github/workflows/build.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -15,10 +15,10 @@ jobs:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: Set up Python 3.10
- name: Set up Python 3.11
uses: actions/setup-python@v5
with:
python-version: "3.10"
python-version: "3.11"
cache: "pip"
cache-dependency-path: "**/pyproject.toml"
- name: Install build dependencies
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14 changes: 5 additions & 9 deletions .github/workflows/test.yaml
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Expand Up @@ -23,22 +23,18 @@ jobs:
fail-fast: false
matrix:
include:
- os: ubuntu-latest
python: "3.10"
- os: ubuntu-latest
python: "3.11"
- os: ubuntu-latest
python: "3.12"
- os: ubuntu-latest
python: "3.12"
python: "3.13"
- os: ubuntu-latest
python: "3.14"
- os: ubuntu-latest
python: "3.14"
pip-flags: "--pre"
name: PRE-RELEASE DEPENDENCIES
# - os: ubuntu-latest
# python: "3.13"
# - os: ubuntu-latest
# python: "3.13"
# pip-flags: "--pre"
# name: PRE-RELEASE DEPENDENCIES

name: ${{ matrix.name }} Python ${{ matrix.python }}

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6 changes: 3 additions & 3 deletions .pre-commit-config.yaml
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Expand Up @@ -11,19 +11,19 @@ repos:
hooks:
- id: prettier
- repo: https://github.com/tox-dev/pyproject-fmt
rev: "2.2.3"
rev: "v2.16.1"
hooks:
- id: pyproject-fmt
- repo: https://github.com/astral-sh/ruff-pre-commit
rev: v0.6.5
rev: v0.15.0
hooks:
- id: ruff
types_or: [python, pyi, jupyter]
args: [--fix, --exit-non-zero-on-fix]
- id: ruff-format
types_or: [python, pyi, jupyter]
- repo: https://github.com/pre-commit/pre-commit-hooks
rev: v4.6.0
rev: v6.0.0
hooks:
- id: detect-private-key
- id: check-ast
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2 changes: 1 addition & 1 deletion .python-version
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@@ -1 +1 @@
3.12
Python 3.11.13
7 changes: 6 additions & 1 deletion .vscode/settings.json
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Expand Up @@ -28,7 +28,12 @@
"notebook.cellFocusIndicator": "gutter",
"notebook.lineNumbers": "on",
"files.watcherExclude": {
"**/.venv/**": true
"**/.venv/**": true,
"**/__pycache__/**": true,
"**/.pytest_cache/**": true,
"**/.ruffle_cache/**": true,
"**/data/**": true,
"**/dist/**": true
},
"githubPullRequests.ignoredPullRequestBranches": ["main"]
}
69 changes: 62 additions & 7 deletions docs/source/example.ipynb
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@maltekuehl maltekuehl Feb 23, 2026

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python-igraph is deprecated, should now use igraph

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