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[pre-commit.ci] pre-commit autoupdate #350

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87a1403
[pre-commit.ci] pre-commit autoupdate
pre-commit-ci[bot] Oct 20, 2025
115cf05
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Oct 20, 2025
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8 changes: 4 additions & 4 deletions .pre-commit-config.yaml
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@@ -1,18 +1,18 @@
repos:
- repo: https://github.com/pre-commit/pre-commit-hooks
rev: v4.5.0
rev: v6.0.0
hooks:
- id: check-docstring-first
- id: end-of-file-fixer
- id: trailing-whitespace
exclude: ^\.napari-hub/.*
- id: check-yaml # checks for correct yaml syntax for github actions ex.
- repo: https://github.com/astral-sh/ruff-pre-commit
rev: v0.3.4
rev: v0.14.1
hooks:
- id: ruff
- repo: https://github.com/psf/black
rev: 24.3.0
- repo: https://github.com/psf/black-pre-commit-mirror
rev: 25.9.0
hooks:
- id: black
- repo: https://github.com/tlambert03/napari-plugin-checks
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9 changes: 2 additions & 7 deletions notebooks/demo_biological_data.ipynb
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Expand Up @@ -6,15 +6,10 @@
"metadata": {},
"outputs": [],
"source": [
"import glob\n",
"import pandas as pd\n",
"from pathlib import Path\n",
"import numpy as np\n",
"from skimage import io, measure\n",
"\n",
"import napari\n",
"import napari_clusters_plotter as ncp\n",
"import napari_segment_blobs_and_things_with_membranes as nsbatwm"
"\n",
"import napari_clusters_plotter as ncp"
]
},
{
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7 changes: 5 additions & 2 deletions notebooks/demo_cluster_export.ipynb
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Expand Up @@ -8,9 +8,12 @@
"outputs": [],
"source": [
"import napari\n",
"from napari.layers import Points\n",
"import numpy as np\n",
"from napari_clusters_plotter._new_plotter_widget import _export_cluster_to_layer, PlotterWidget"
"from napari.layers import Points\n",
"\n",
"from napari_clusters_plotter._new_plotter_widget import (\n",
" PlotterWidget,\n",
")"
]
},
{
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8 changes: 4 additions & 4 deletions notebooks/demo_new_plotter.ipynb
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Expand Up @@ -7,11 +7,11 @@
"outputs": [],
"source": [
"import napari\n",
"from napari_clusters_plotter._new_plotter_widget import PlotterWidget\n",
"\n",
"from skimage import morphology, measure, data\n",
"import numpy as np\n",
"import pandas as pd"
"import pandas as pd\n",
"from skimage import data, measure\n",
"\n",
"from napari_clusters_plotter._new_plotter_widget import PlotterWidget"
]
},
{
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12 changes: 6 additions & 6 deletions notebooks/demo_new_reduction.ipynb
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Expand Up @@ -6,16 +6,16 @@
"metadata": {},
"outputs": [],
"source": [
"from napari_clusters_plotter._new_plotter_widget import PlotterWidget\n",
"from napari_clusters_plotter._dim_reduction_and_clustering import DimensionalityReductionWidget, ClusteringWidget\n",
"from napari_clusters_plotter._algorithms import reduce_pca\n",
"import napari\n",
"import numpy as np\n",
"import pandas as pd\n",
"from napari.layers import Points\n",
"\n",
"from skimage import data, measure\n",
"\n",
"import pandas as pd"
"from napari_clusters_plotter._dim_reduction_and_clustering import (\n",
" ClusteringWidget,\n",
" DimensionalityReductionWidget,\n",
")\n",
"from napari_clusters_plotter._new_plotter_widget import PlotterWidget"
]
},
{
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14 changes: 5 additions & 9 deletions notebooks/demo_shapes_clustering.ipynb
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Expand Up @@ -6,15 +6,11 @@
"metadata": {},
"outputs": [],
"source": [
"import glob\n",
"import pandas as pd\n",
"from pathlib import Path\n",
"import napari\n",
"import numpy as np\n",
"from skimage import io, measure\n",
"import pandas as pd\n",
"\n",
"import napari\n",
"import napari_clusters_plotter as ncp\n",
"import napari_segment_blobs_and_things_with_membranes as nsbatwm"
"import napari_clusters_plotter as ncp"
]
},
{
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"source": [
"# random centers\n",
"box_centers = np.random.random((20, 2)) * 1000\n",
"box_widths = np.random.random((20)) * 100\n",
"box_heights = np.random.random((20)) * 100\n",
"box_widths = np.random.random(20) * 100\n",
"box_heights = np.random.random(20) * 100\n",
"features = pd.DataFrame({'box_widths': box_widths, 'box_heights': box_heights})\n",
"features['area'] = features['box_widths'] * features['box_heights']\n",
"\n",
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