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Donglai Weiclaude
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tutorials/neuron_nisb: richer base_banis_crop_waterz waterz sweep (25 trials, aff_threshold_high, branch_merge)
Take the expanded tuning sweep from the tune-output-decoder-name branch; the branch's output_naming changes are superseded by master and dropped. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
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Lines changed: 20 additions & 8 deletions

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tutorials/neuron_nisb/base_banis_crop_waterz.yaml

Lines changed: 20 additions & 8 deletions
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@@ -29,6 +29,12 @@ default:
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dust_merge_size: 800
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dust_merge_affinity: 0.3
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dust_remove_size: 600
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branch_merge: false
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iou_threshold: 0.5
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best_buddy: true
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one_sided_threshold: 0.8
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one_sided_min_size: 100
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affinity_threshold: 0.0
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postprocessing:
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enabled: true
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@@ -39,32 +45,38 @@ default:
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# ============================================================================
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tune:
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profile: tune_waterz
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n_trials: 6
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trial_timeout: 600
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study_name: nisb_base_banis_crop_waterz_tuning_v2
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n_trials: 25
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trial_timeout: 900
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study_name: nisb_base_banis_crop_waterz_tuning
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load_if_exists: true
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parameter_space:
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decoding:
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function_name: decode_waterz
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defaults:
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thresholds: 0.5
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merge_function: aff50_his256
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aff_threshold: [0.4, 0.7]
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merge_function: aff85_his256
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aff_threshold: [0.1, 0.999]
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edge_offset: 0
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spatial_transpose: [2, 1, 0]
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use_aff_uint8: true
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parameters:
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merge_function:
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type: categorical
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choices: [aff75_his256, aff50_his256]
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choices: [aff85_his256, aff75_his256, aff50_his256, aff25_his256, aff15_his256]
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description: "Agglomeration scoring function (quantile via histogram)"
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thresholds:
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type: float
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range: [0.3, 0.9]
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range: [0.1, 0.9]
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step: 0.1
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aff_threshold_low:
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type: float
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range: [0.3, 0.5]
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range: [0, 0.5]
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step: 0.1
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param_group: aff_threshold
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tuple_index: 0
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aff_threshold_high:
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type: float
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range: [0.7, 1]
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step: 0.1
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param_group: aff_threshold
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tuple_index: 1

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