*.pyc
*.egg-info/*
.vscode/*
.coverage
*.code-workspace
*.log
scratch/test_image.tif
*.zarr/*

fibsem/wandb/*

*.json
fibsem/segmentation/wandb/*
fibsem/segmentation/models/*.pt*
wandb/*

build/*
fibsem/segmentation/training/*
scratch/training/*
fibsem/testing.ipynb
fibsem/_version.py
demo_*/*
scratch/figure/wd*/*
fibsem/log/data/*
test_images/test.tif

fibsem/detection/notebook.ipynb

media/*
.DS_Store
fibsem/segmentation/models/**/*.pt*
fibsem/segmentation/models/*
example/**/*.tif
example/demo/*
fibsem/chat/secret.txt

dist/*
scratch/tile-images/*
fibsem/log/*
fibsem/db/fibsem.db
fibsem/notebook.ipynb
scratch/health-monitor/*
example/notebook.ipynb
fibsem/segmentation/*config*.y*ml
!fibsem/segmentation/segementation_config.yaml

fibsem/config/*.yaml
!fibsem/config/microscope-configuration.yaml
!fibsem/config/tescan_manipulator.yaml
!fibsem/config/tfs*.yaml
!fibsem/config/odemis*.yaml
!fibsem/config/tescan-*.yaml
!fibsem/config/sim-*.yaml
!fibsem/config/sample-holder.yaml
!fibsem/config/default-sample-holder.yaml

**/wandb/*
tests/notebook.ipynb
fibsem/db/v2/notebook.ipynb
scripts/segformer-*/*
*.onnx
scripts/**/*.jpeg
scripts/**/*.png
fibsem/ui/test_qt.py
scripts/dev-notebook2.ipynb
scripts/launch-autolamella.sh
fibsem/applications/autolamella/log/*
fibsem/fm/*.ome.tiff
notes.md
fibsem/ui/test-ndv.py
scripts/reporting-notebook.ipynb
fibsem/applications/autolamella/protocol/protocol-on-grid-trench-horizontal.yaml
scripts/Test-Experiment/*
fibsem/applications/autolamella/autolamella_architecture.md
projects/*
tmp/*
recommendations/*

fibsem/applications/test-data/*
database_migration.md
fibsem/ui/OFFLINE_ICONS.md
fibsem/correlation/scaling_factor_lookup_table.csv
fibsem/correlation/slice_scaling_factor_LUT.ipynb
sashimi/*
fibsem/applications/sashimi/log/*
# Refractive-index LUT (downloaded on demand from the data release)
fibsem/correlation/data/
# Belt-and-braces: a path built from an unset (None) save path lands here
None/
publications/*
# Real acquisition images used to generate the metadata fixtures. The images stay
# local: they embed the acquiring site's directory layout, hostname and instrument
# serial number, and this remote is public. Only the scrubbed metadata is committed
# -- see tests/fixtures/metadata/README.md.
tests/data/
# Those scrubbed fixtures are the committed artifact, so they have to be re-included
# against the blanket `*.json` above.
!tests/fixtures/metadata/*.json

# Overview runs started without a save directory fall back to the working directory
# (`FibsemOverviewWidget.acquire`), so running the app from a checkout writes tilesets
# into it. 11 MB of them reached a commit once.
overview-image-*.tif
overview-image-*/
