.gitignore
.pre-commit-config.yaml
CODE_OF_CONDUCT.md
CONTRIBUTING.md
LICENSE
README.md
USERGUIDE.md
pyproject.toml
uv.lock
.github/workflows/publish.yaml
.github/workflows/python-test.yml
.vscode/launch.json
images/userguide/acquisition_settings.png
images/userguide/adaptive_polishing_output_plot.png
images/userguide/adaptive_polishing_settings.png
images/userguide/add_milling_stage.png
images/userguide/autolamella_initial.png
images/userguide/create_new_experiment.png
images/userguide/experiment_buttons.png
images/userguide/fiducial_settings.png
images/userguide/header.jpeg
images/userguide/lamella_position_marker.png
images/userguide/mill_fiducial_task.png
images/userguide/movement_preferences.png
images/userguide/overview_tab.png
images/userguide/protocol_tab.png
images/userguide/workflow_tab.png
images/userguide/workflow_tab_ready.png
src/adaptive_milling/__init__.py
src/adaptive_milling/_dataclasses.py
src/adaptive_milling/_version.py
src/adaptive_milling/enums.py
src/adaptive_milling/exceptions.py
src/adaptive_milling/patterns.py
src/adaptive_milling/plot.py
src/adaptive_milling/utils.py
src/adaptive_milling.egg-info/PKG-INFO
src/adaptive_milling.egg-info/SOURCES.txt
src/adaptive_milling.egg-info/dependency_links.txt
src/adaptive_milling.egg-info/entry_points.txt
src/adaptive_milling.egg-info/requires.txt
src/adaptive_milling.egg-info/scm_file_list.json
src/adaptive_milling.egg-info/scm_version.json
src/adaptive_milling.egg-info/top_level.txt
src/adaptive_milling/cli/__init__.py
src/adaptive_milling/cli/segment.py
src/adaptive_milling/config/__init__.py
src/adaptive_milling/config/adaptive_polish.py
src/adaptive_milling/models/__init__.py
src/adaptive_milling/models/abstract.py
src/adaptive_milling/models/gen1.py
src/adaptive_milling/processing/__init__.py
src/adaptive_milling/processing/conversion.py
src/adaptive_milling/processing/image.py
src/adaptive_milling/processing/segmentation.py
src/adaptive_milling/strategy/__init__.py
src/adaptive_milling/strategy/adaptive_polish.py
src/example_configs/protocol-on-grid-ap.yaml
src/example_configs/protocol_argon_ap_v1.yaml
src/scripts/adaptive_polishing_success_rates.ipynb
src/scripts/create_test_bitmaps.ipynb
src/scripts/experiment_milling_times.py
src/scripts/gis_thickness_plotting.ipynb
src/scripts/pattern_centring.py
src/scripts/pattern_placement.ipynb
src/scripts/reporting_notebook.ipynb
tests/__init__.py
tests/ap_strategy_test.py
tests/conftest.py
tests/integration_test.py
tests/model_resizing_test.py
tests/models_test.py
tests/setup.py
tests/utils.py
tests/data/experiment.yaml
tests/data/protocol.yaml
tests/data/images/fib/14B_FIB_stop.tif
tests/data/images/sem/14B_SEM_stop.tif
tests/test_processing/__init__.py
tests/test_processing/image_test.py
tests/test_processing/segmentation_test.py