Debug

[robert-graf]

Requires feat(registration): DeepALI closed-form point reg + template pre-registration hook - #139 to be merged.

adds nan handling.
speed up stitching by skipping non-overlapping images.
DICOM export creates a file to remember what was already exported, so we can safely rerun it independently.

[github-actions]

Benchmark comparison

Speed (wall time per call)

baseline 8479ec9 vs head 8479ec9 · python 3.11.16 · 5 repeats + 1 warmup

Showing the 5 most-changed measurements per case; the rest are collapsed. Rows with a baseline below 3 ms are tagged (noise) — runner jitter on those swamps any real change.

ct_3d — shape (73, 47, 73)

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
poi_calc_centroids_nocrop	4.49 ±0.07	4.69 ±0.08	+4.3%	0.002
nii_filter_connected_components	4.41 ±0.06	4.28 ±0.05	-2.8%	0.004
nii_erode_msk	6.17 ±0.07	6.33 ±0.07	+2.7%	0.001
nii_dilate_msk	120.29 ±0.34	121.54 ±0.64	+1.0%	0.002
poi_calc_poi_from_subreg_vert	11.72 ±0.24	11.61 ±0.22	-1.0%	0.730

… 31 more measurements

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
nii_fill_holes	4.66 ±0.02	4.70 ±0.06	+0.9%	0.202
nii_rescale_seg	3.26 ±0.04	3.28 ±0.04	+0.7%	0.624
nii_save	11.72 ±0.14	11.79 ±0.16	+0.6%	0.272
nii_resample_from_to	41.62 ±0.16	41.82 ±0.36	+0.5%	0.352
nii_load_img	12.15 ±0.15	12.11 ±0.12	-0.3%	0.415
nii_rescale	39.99 ±0.29	40.12 ±0.23	+0.3%	0.957
metric_voxels	250463.00 ±0.00	250463.00 ±0.00	+0.0%	—
metric_labels	3.00 ±0.00	3.00 ±0.00	+0.0%	—
metric_foreground_pct	14.51 ±0.00	14.51 ±0.00	+0.0%	—
nii_pad_to	0.62 ±0.01	0.79 ±0.03	+26.3% (noise)	0.000
poi_to_global	0.23 ±0.02	0.17 ±0.01	-26.0% (noise)	0.000
poi_resample_from_to	0.61 ±0.07	0.72 ±0.01	+17.3% (noise)	0.034
nii_get_array	0.05 ±0.00	0.05 ±0.01	-12.9% (noise)	0.016
poi_map_labels	0.19 ±0.02	0.21 ±0.01	+11.3% (noise)	0.175
poi_rescale	0.20 ±0.01	0.18 ±0.01	-8.8% (noise)	0.046
nii_load_seg	2.80 ±0.06	3.03 ±0.04	+8.2% (noise)	0.000
nii_set_dtype	0.54 ±0.03	0.50 ±0.02	-7.5% (noise)	0.054
nii_reorient	0.86 ±0.04	0.92 ±0.01	+6.9% (noise)	0.007
nii_apply_crop	0.72 ±0.05	0.76 ±0.01	+6.4% (noise)	0.033
nii_map_labels	0.94 ±0.01	1.00 ±0.01	+6.0% (noise)	0.000
poi_local_to_global_arr	0.28 ±0.01	0.26 ±0.02	-5.4% (noise)	0.341
nii_volumes	1.94 ±0.02	1.88 ±0.02	-3.2% (noise)	0.001
nii_get_connected_components	2.13 ±0.04	2.07 ±0.26	-2.7% (noise)	0.648
poi_reorient	0.38 ±0.02	0.38 ±0.04	-1.8% (noise)	0.531
poi_calc_centroids	2.63 ±0.03	2.58 ±0.04	-1.8% (noise)	0.033
nii_center_of_masses	1.88 ±0.01	1.84 ±0.02	-1.7% (noise)	0.019
nii_compute_crop	0.34 ±0.02	0.35 ±0.02	+1.5% (noise)	0.919
nii_extract_label	0.45 ±0.02	0.46 ±0.02	+1.4% (noise)	0.821
nii_unique	0.59 ±0.01	0.60 ±0.02	+1.0% (noise)	0.304
poi_save	0.52 ±0.01	0.52 ±0.02	+0.5% (noise)	0.553
poi_load	0.91 ±0.01	0.91 ±0.01	-0.3% (noise)	0.448

ct_2d — shape (73, 47, 1)

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
nii_rescale	5.61 ±0.18	5.79 ±0.08	+3.3%	0.018
nii_dilate_msk	13.88 ±0.12	14.01 ±0.06	+0.9%	0.027
nii_resample_from_to	7.55 ±0.21	7.61 ±0.23	+0.8%	0.418
metric_voxels	3431.00 ±0.00	3431.00 ±0.00	+0.0%	—
metric_labels	3.00 ±0.00	3.00 ±0.00	+0.0%	—

… 30 more measurements

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
metric_foreground_pct	37.60 ±0.00	37.60 ±0.00	+0.0%	—
poi_save	0.50 ±0.02	0.57 ±0.02	+14.1% (noise)	0.003
poi_rescale	0.27 ±0.02	0.30 ±0.01	+9.6% (noise)	0.005
poi_to_global	0.26 ±0.03	0.28 ±0.01	+8.5% (noise)	0.522
nii_map_labels	0.52 ±0.02	0.56 ±0.07	+7.1% (noise)	0.245
nii_center_of_masses	0.22 ±0.01	0.23 ±0.01	+6.3% (noise)	0.067
nii_fill_holes	0.84 ±0.02	0.90 ±0.04	+6.3% (noise)	0.168
nii_load_seg	1.72 ±0.03	1.82 ±0.07	+5.9% (noise)	0.088
poi_calc_centroids	0.95 ±0.02	1.00 ±0.06	+5.0% (noise)	0.195
nii_reorient	0.95 ±0.06	0.90 ±0.02	-4.5% (noise)	0.139
poi_resample_from_to	0.74 ±0.02	0.78 ±0.02	+4.4% (noise)	0.029
nii_save	1.44 ±0.04	1.50 ±0.01	+3.9% (noise)	0.004
nii_load_img	1.60 ±0.08	1.54 ±0.09	-3.8% (noise)	0.926
nii_get_connected_components	0.67 ±0.02	0.70 ±0.02	+3.7% (noise)	0.068
nii_extract_label	0.47 ±0.02	0.46 ±0.03	-3.4% (noise)	0.885
nii_apply_crop	0.74 ±0.09	0.77 ±0.02	+3.1% (noise)	0.615
poi_load	1.00 ±0.03	1.03 ±0.05	+3.0% (noise)	0.336
poi_calc_centroids_nocrop	1.14 ±0.04	1.17 ±0.07	+2.9% (noise)	0.363
nii_compute_crop	0.17 ±0.01	0.17 ±0.01	+2.6% (noise)	0.654
nii_rescale_seg	0.84 ±0.03	0.86 ±0.02	+2.1% (noise)	0.079
nii_erode_msk	0.98 ±0.04	0.96 ±0.04	-1.8% (noise)	0.822
nii_unique	0.15 ±0.01	0.15 ±0.01	-1.4% (noise)	0.852
nii_filter_connected_components	0.87 ±0.03	0.88 ±0.03	+1.3% (noise)	0.387
nii_get_array	0.02 ±0.00	0.02 ±0.00	+1.1% (noise)	0.272
nii_volumes	0.32 ±0.01	0.32 ±0.01	+1.0% (noise)	0.513
poi_reorient	0.48 ±0.02	0.47 ±0.01	-0.9% (noise)	0.465
poi_map_labels	0.23 ±0.01	0.23 ±0.01	+0.9% (noise)	0.773
nii_set_dtype	0.46 ±0.22	0.47 ±0.02	+0.5% (noise)	0.338
nii_pad_to	0.62 ±0.03	0.62 ±0.02	+0.4% (noise)	0.491
poi_local_to_global_arr	0.29 ±0.00	0.29 ±0.01	+0.0% (noise)	0.402

mri_3d — shape (68, 52, 67)

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
nii_fill_holes	5.49 ±0.04	5.63 ±0.15	+2.6%	0.087
nii_filter_connected_components	4.75 ±0.05	4.66 ±0.02	-1.9%	0.026
nii_load_img	9.61 ±0.11	9.73 ±0.23	+1.2%	0.085
nii_dilate_msk	154.81 ±1.33	156.36 ±0.74	+1.0%	0.378
nii_save	9.68 ±0.03	9.58 ±0.16	-1.0%	0.367

… 31 more measurements

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
poi_calc_centroids_nocrop	9.17 ±0.20	9.11 ±0.10	-0.7%	0.777
nii_rescale	37.86 ±0.31	38.07 ±0.32	+0.6%	0.500
nii_resample_from_to	39.74 ±0.80	39.55 ±0.54	-0.5%	0.609
nii_erode_msk	7.67 ±0.14	7.70 ±0.12	+0.4%	0.391
nii_rescale_seg	3.13 ±0.03	3.14 ±0.06	+0.3%	0.358
poi_calc_poi_from_subreg_vert	10.94 ±0.22	10.92 ±0.16	-0.1%	0.538
metric_voxels	236912.00 ±0.00	236912.00 ±0.00	+0.0%	—
metric_labels	8.00 ±0.00	8.00 ±0.00	+0.0%	—
metric_foreground_pct	18.21 ±0.00	18.21 ±0.00	+0.0%	—
poi_rescale	0.30 ±0.01	0.33 ±0.03	+11.5% (noise)	0.029
poi_save	0.58 ±0.02	0.63 ±0.01	+9.6% (noise)	0.000
nii_map_labels	1.00 ±0.03	1.06 ±0.03	+6.8% (noise)	0.023
nii_extract_label	0.48 ±0.02	0.45 ±0.04	-5.6% (noise)	0.802
poi_local_to_global_arr	0.31 ±0.01	0.30 ±0.01	-5.1% (noise)	0.036
nii_apply_crop	0.75 ±0.35	0.79 ±0.07	+4.7% (noise)	0.560
poi_resample_from_to	0.80 ±0.05	0.84 ±0.06	+4.5% (noise)	0.787
nii_reorient	0.95 ±0.03	0.91 ±0.06	-3.7% (noise)	0.524
poi_map_labels	0.27 ±0.01	0.27 ±0.01	+3.2% (noise)	0.314
nii_set_dtype	0.55 ±0.02	0.57 ±0.01	+3.2% (noise)	0.030
poi_reorient	0.51 ±0.02	0.53 ±0.03	+2.8% (noise)	0.315
poi_to_global	0.30 ±0.01	0.31 ±0.01	+2.5% (noise)	0.333
nii_load_seg	2.93 ±0.08	3.00 ±0.14	+2.4% (noise)	0.319
nii_pad_to	0.75 ±0.03	0.76 ±0.23	+1.7% (noise)	0.359
poi_calc_centroids	2.86 ±0.05	2.91 ±0.05	+1.5% (noise)	0.513
poi_load	2.16 ±0.01	2.19 ±0.02	+1.5% (noise)	0.014
nii_volumes	2.03 ±0.03	2.06 ±0.08	+1.4% (noise)	0.271
nii_compute_crop	0.36 ±0.01	0.36 ±0.02	-1.3% (noise)	0.954
nii_get_connected_components	2.12 ±0.05	2.14 ±0.03	+1.0% (noise)	0.385
nii_center_of_masses	2.10 ±0.02	2.08 ±0.02	-0.7% (noise)	0.886
nii_get_array	0.06 ±0.00	0.06 ±0.00	+0.4% (noise)	0.272
nii_unique	0.63 ±0.01	0.63 ±0.02	-0.3% (noise)	0.940

mri_2d — shape (68, 52, 1)

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
nii_rescale	5.67 ±0.04	5.52 ±0.13	-2.8%	0.049
nii_dilate_msk	18.25 ±0.20	18.40 ±0.14	+0.9%	0.108
nii_resample_from_to	7.46 ±0.08	7.43 ±0.13	-0.3%	0.870
metric_voxels	3536.00 ±0.00	3536.00 ±0.00	+0.0%	—
metric_labels	7.00 ±0.00	7.00 ±0.00	+0.0%	—

… 30 more measurements

Measurement	baseline ms (median ±½·range)	head ms (median ±½·range)	Δ %	p
metric_foreground_pct	50.17 ±0.00	50.17 ±0.00	+0.0%	—
nii_get_array	0.02 ±0.00	0.02 ±0.00	+22.9% (noise)	0.247
poi_save	0.60 ±0.02	0.67 ±0.34	+12.6% (noise)	0.287
poi_to_global	0.28 ±0.02	0.32 ±0.01	+12.5% (noise)	0.024
nii_extract_label	0.43 ±0.02	0.49 ±0.03	+12.4% (noise)	0.020
nii_save	1.39 ±0.03	1.50 ±0.05	+8.0% (noise)	0.008
nii_get_connected_components	0.67 ±0.01	0.72 ±0.03	+7.8% (noise)	0.014
nii_pad_to	0.60 ±0.02	0.64 ±0.02	+6.8% (noise)	0.078
nii_filter_connected_components	0.86 ±0.03	0.92 ±0.02	+6.4% (noise)	0.006
poi_reorient	0.49 ±0.01	0.52 ±0.03	+5.8% (noise)	0.133
nii_fill_holes	1.07 ±0.03	1.13 ±0.13	+5.6% (noise)	0.136
nii_set_dtype	0.45 ±0.02	0.43 ±0.05	-5.1% (noise)	0.739
nii_reorient	0.84 ±0.03	0.88 ±0.06	+5.1% (noise)	0.370
nii_load_img	1.55 ±0.06	1.47 ±0.05	-4.9% (noise)	0.128
nii_erode_msk	1.17 ±0.02	1.23 ±0.04	+4.6% (noise)	0.029
nii_apply_crop	0.69 ±0.03	0.72 ±0.04	+4.4% (noise)	0.118
poi_rescale	0.30 ±0.01	0.32 ±0.02	+4.3% (noise)	0.137
poi_local_to_global_arr	0.29 ±0.01	0.30 ±0.01	+4.2% (noise)	0.143
nii_center_of_masses	0.41 ±0.01	0.42 ±0.01	+3.4% (noise)	0.177
poi_resample_from_to	0.79 ±0.03	0.82 ±0.02	+3.3% (noise)	0.427
nii_load_seg	1.69 ±0.04	1.75 ±0.08	+3.1% (noise)	0.262
nii_unique	0.14 ±0.01	0.14 ±0.01	-3.0% (noise)	0.724
poi_map_labels	0.26 ±0.01	0.26 ±0.01	-2.5% (noise)	0.919
nii_map_labels	0.55 ±0.03	0.56 ±0.02	+2.5% (noise)	0.620
poi_calc_centroids	1.17 ±0.03	1.19 ±0.06	+2.1% (noise)	0.445
poi_load	1.92 ±0.03	1.88 ±0.45	-1.8% (noise)	0.379
poi_calc_centroids_nocrop	1.41 ±0.07	1.43 ±0.05	+1.7% (noise)	0.153
nii_compute_crop	0.15 ±0.01	0.16 ±0.01	+0.9% (noise)	0.517
nii_volumes	0.48 ±0.01	0.47 ±0.02	-0.5% (noise)	0.675
nii_rescale_seg	0.84 ±0.04	0.85 ±0.04	+0.1% (noise)	0.986

Gate: a measurement fails when the baseline is ≥ 1 ms, the median grows by ≥ 50%, and Welch's t-test gives p < 0.05. metric_* rows are context only.

Memory (peak RSS growth per call)

baseline 8479ec9 vs head 8479ec9 · python 3.11.16 · 5 repeats + 1 warmup · sampler proc-status, isolation fork · measurement floor ≈ 0.90 MiB

Showing the 5 most-changed measurements per case; the rest are collapsed. Rows with a baseline below 3 MiB are tagged (noise) — runner jitter on those swamps any real change.

ct_3d — shape (73, 47, 73)

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
nii_rescale_seg	5.95 ±0.00	5.92 ±0.00	-0.4%	—
nii_rescale	6.17 ±0.00	6.15 ±0.00	-0.4%	—
nii_resample_from_to	6.30 ±0.00	6.27 ±0.00	-0.4%	—
nii_erode_msk	5.91 ±0.00	5.93 ±0.00	+0.3%	—
nii_set_dtype	5.21 ±0.00	5.23 ±0.00	+0.3%	—

… 31 more measurements

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
poi_resample_from_to	5.25 ±0.00	5.26 ±0.00	+0.3%	—
nii_extract_label	5.34 ±0.00	5.35 ±0.00	+0.3%	—
nii_pad_to	5.39 ±0.00	5.41 ±0.00	+0.3%	—
nii_map_labels	5.46 ±0.00	5.48 ±0.00	+0.3%	—
nii_apply_crop	5.84 ±0.00	5.85 ±0.00	+0.3%	—
nii_reorient	5.88 ±0.00	5.89 ±0.00	+0.3%	—
poi_calc_centroids_nocrop	5.89 ±0.00	5.91 ±0.00	+0.3%	—
nii_dilate_msk	5.90 ±0.00	5.91 ±0.00	+0.3%	—
nii_load_seg	5.98 ±0.00	5.99 ±0.00	+0.3%	—
poi_calc_centroids	6.02 ±0.00	6.04 ±0.00	+0.3%	—
nii_get_connected_components	6.59 ±0.00	6.60 ±0.00	+0.2%	—
nii_filter_connected_components	6.84 ±0.00	6.85 ±0.00	+0.2%	—
nii_fill_holes	6.25 ±0.00	6.27 ±0.00	+0.2%	—
poi_calc_poi_from_subreg_vert	7.09 ±0.00	7.10 ±0.00	+0.2%	—
nii_load_img	3.56 ±0.00	3.56 ±0.00	+0.0%	—
nii_save	3.71 ±0.00	3.71 ±0.00	+0.0%	—
nii_volumes	3.52 ±0.00	3.52 ±0.00	+0.0%	—
nii_center_of_masses	3.27 ±0.00	3.27 ±0.00	+0.0%	—
poi_reorient	3.83 ±0.00	3.83 ±0.00	+0.0%	—
poi_to_global	3.08 ±0.00	3.08 ±0.00	+0.0%	—
metric_voxels	250463.00 ±0.00	250463.00 ±0.00	+0.0%	—
metric_labels	3.00 ±0.00	3.00 ±0.00	+0.0%	—
metric_foreground_pct	14.51 ±0.00	14.51 ±0.00	+0.0%	—
nii_get_array	1.65 ±0.00	1.65 ±0.00	+0.0% (noise)	—
nii_compute_crop	2.90 ±0.00	2.90 ±0.00	+0.0% (noise)	—
nii_unique	2.96 ±0.00	2.96 ±0.00	+0.0% (noise)	—
poi_rescale	2.61 ±0.00	2.61 ±0.00	+0.0% (noise)	—
poi_local_to_global_arr	2.96 ±0.00	2.96 ±0.00	+0.0% (noise)	—
poi_save	1.40 ±0.00	1.40 ±0.00	+0.0% (noise)	—
poi_map_labels	1.77 ±0.00	1.77 ±0.00	+0.0% (noise)	—
poi_load	1.61 ±0.00	1.61 ±0.00	+0.0% (noise)	—

ct_2d — shape (73, 47, 1)

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
nii_rescale_seg	5.88 ±0.00	5.86 ±0.00	-0.4%	—
nii_rescale	6.11 ±0.00	6.09 ±0.00	-0.4%	—
nii_resample_from_to	6.23 ±0.00	6.21 ±0.00	-0.4%	—
nii_erode_msk	5.85 ±0.00	5.87 ±0.00	+0.3%	—
nii_set_dtype	5.15 ±0.00	5.16 ±0.00	+0.3%	—

… 30 more measurements

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
poi_resample_from_to	5.18 ±0.00	5.20 ±0.00	+0.3%	—
nii_extract_label	5.27 ±0.00	5.29 ±0.00	+0.3%	—
nii_pad_to	5.33 ±0.00	5.35 ±0.00	+0.3%	—
nii_map_labels	5.40 ±0.00	5.41 ±0.00	+0.3%	—
nii_apply_crop	5.77 ±0.00	5.79 ±0.00	+0.3%	—
nii_reorient	5.81 ±0.00	5.83 ±0.00	+0.3%	—
nii_dilate_msk	5.84 ±0.00	5.85 ±0.00	+0.3%	—
poi_calc_centroids_nocrop	5.89 ±0.00	5.91 ±0.00	+0.3%	—
nii_load_seg	5.91 ±0.00	5.93 ±0.00	+0.3%	—
poi_calc_centroids	5.96 ±0.00	5.98 ±0.00	+0.3%	—
nii_get_connected_components	6.52 ±0.00	6.54 ±0.00	+0.2%	—
nii_filter_connected_components	6.77 ±0.00	6.79 ±0.00	+0.2%	—
nii_fill_holes	6.19 ±0.00	6.20 ±0.00	+0.2%	—
nii_load_img	3.50 ±0.00	3.50 ±0.00	+0.0%	—
nii_save	3.65 ±0.00	3.65 ±0.00	+0.0%	—
nii_volumes	3.46 ±0.00	3.46 ±0.00	+0.0%	—
nii_center_of_masses	3.21 ±0.00	3.21 ±0.00	+0.0%	—
poi_reorient	3.77 ±0.00	3.77 ±0.00	+0.0%	—
poi_to_global	3.02 ±0.00	3.02 ±0.00	+0.0%	—
metric_voxels	3431.00 ±0.00	3431.00 ±0.00	+0.0%	—
metric_labels	3.00 ±0.00	3.00 ±0.00	+0.0%	—
metric_foreground_pct	37.60 ±0.00	37.60 ±0.00	+0.0%	—
nii_get_array	1.59 ±0.00	1.59 ±0.00	+0.0% (noise)	—
nii_compute_crop	2.84 ±0.00	2.84 ±0.00	+0.0% (noise)	—
nii_unique	2.90 ±0.00	2.90 ±0.00	+0.0% (noise)	—
poi_rescale	2.54 ±0.00	2.54 ±0.00	+0.0% (noise)	—
poi_local_to_global_arr	2.89 ±0.00	2.89 ±0.00	+0.0% (noise)	—
poi_save	1.34 ±0.00	1.34 ±0.00	+0.0% (noise)	—
poi_map_labels	1.71 ±0.00	1.71 ±0.00	+0.0% (noise)	—
poi_load	1.55 ±0.00	1.55 ±0.00	+0.0% (noise)	—

mri_3d — shape (68, 52, 67)

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
nii_rescale_seg	5.88 ±0.00	5.86 ±0.00	-0.4%	—
nii_rescale	6.11 ±0.00	6.09 ±0.00	-0.4%	—
nii_resample_from_to	6.23 ±0.00	6.21 ±0.00	-0.4%	—
nii_erode_msk	5.85 ±0.00	5.87 ±0.00	+0.3%	—
poi_resample_from_to	5.18 ±0.00	5.20 ±0.00	+0.3%	—

… 31 more measurements

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
nii_set_dtype	5.21 ±0.00	5.23 ±0.00	+0.3%	—
nii_extract_label	5.27 ±0.00	5.29 ±0.00	+0.3%	—
nii_pad_to	5.33 ±0.00	5.35 ±0.00	+0.3%	—
nii_map_labels	5.40 ±0.00	5.41 ±0.00	+0.3%	—
nii_apply_crop	5.77 ±0.00	5.79 ±0.00	+0.3%	—
nii_reorient	5.81 ±0.00	5.83 ±0.00	+0.3%	—
poi_calc_centroids_nocrop	5.83 ±0.00	5.85 ±0.00	+0.3%	—
nii_dilate_msk	5.84 ±0.00	5.85 ±0.00	+0.3%	—
nii_load_seg	5.91 ±0.00	5.93 ±0.00	+0.3%	—
poi_calc_centroids	5.96 ±0.00	5.98 ±0.00	+0.3%	—
nii_get_connected_components	6.52 ±0.00	6.54 ±0.00	+0.2%	—
nii_filter_connected_components	6.77 ±0.00	6.79 ±0.00	+0.2%	—
poi_calc_poi_from_subreg_vert	7.08 ±0.00	7.10 ±0.00	+0.2%	—
nii_fill_holes	6.19 ±0.00	6.20 ±0.00	+0.2%	—
nii_load_img	3.56 ±0.00	3.56 ±0.00	+0.0%	—
nii_save	3.65 ±0.00	3.65 ±0.00	+0.0%	—
nii_volumes	3.46 ±0.00	3.46 ±0.00	+0.0%	—
nii_center_of_masses	3.21 ±0.00	3.21 ±0.00	+0.0%	—
poi_reorient	3.77 ±0.00	3.77 ±0.00	+0.0%	—
poi_to_global	3.02 ±0.00	3.02 ±0.00	+0.0%	—
metric_voxels	236912.00 ±0.00	236912.00 ±0.00	+0.0%	—
metric_labels	8.00 ±0.00	8.00 ±0.00	+0.0%	—
metric_foreground_pct	18.21 ±0.00	18.21 ±0.00	+0.0%	—
nii_get_array	1.59 ±0.00	1.59 ±0.00	+0.0% (noise)	—
nii_compute_crop	2.84 ±0.00	2.84 ±0.00	+0.0% (noise)	—
nii_unique	2.90 ±0.00	2.90 ±0.00	+0.0% (noise)	—
poi_rescale	2.54 ±0.00	2.54 ±0.00	+0.0% (noise)	—
poi_local_to_global_arr	2.89 ±0.00	2.89 ±0.00	+0.0% (noise)	—
poi_save	1.40 ±0.00	1.40 ±0.00	+0.0% (noise)	—
poi_map_labels	1.71 ±0.00	1.71 ±0.00	+0.0% (noise)	—
poi_load	1.55 ±0.00	1.55 ±0.00	+0.0% (noise)	—

mri_2d — shape (68, 52, 1)

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
nii_rescale_seg	5.88 ±0.00	5.86 ±0.00	-0.4%	—
nii_rescale	6.11 ±0.00	6.09 ±0.00	-0.4%	—
nii_resample_from_to	6.23 ±0.00	6.21 ±0.00	-0.4%	—
nii_erode_msk	5.85 ±0.00	5.87 ±0.00	+0.3%	—
poi_resample_from_to	5.18 ±0.00	5.20 ±0.00	+0.3%	—

… 30 more measurements

Measurement	baseline MiB (median ±½·range)	head MiB (median ±½·range)	Δ %	p
nii_set_dtype	5.21 ±0.00	5.23 ±0.00	+0.3%	—
nii_extract_label	5.27 ±0.00	5.29 ±0.00	+0.3%	—
nii_pad_to	5.33 ±0.00	5.35 ±0.00	+0.3%	—
nii_map_labels	5.40 ±0.00	5.41 ±0.00	+0.3%	—
nii_apply_crop	5.77 ±0.00	5.79 ±0.00	+0.3%	—
nii_reorient	5.81 ±0.00	5.83 ±0.00	+0.3%	—
nii_dilate_msk	5.84 ±0.00	5.85 ±0.00	+0.3%	—
poi_calc_centroids_nocrop	5.89 ±0.00	5.91 ±0.00	+0.3%	—
nii_load_seg	5.91 ±0.00	5.93 ±0.00	+0.3%	—
poi_calc_centroids	5.96 ±0.00	5.98 ±0.00	+0.3%	—
nii_get_connected_components	6.52 ±0.00	6.54 ±0.00	+0.2%	—
nii_filter_connected_components	6.77 ±0.00	6.79 ±0.00	+0.2%	—
nii_fill_holes	6.19 ±0.00	6.20 ±0.00	+0.2%	—
nii_load_img	3.56 ±0.00	3.56 ±0.00	+0.0%	—
nii_save	3.65 ±0.00	3.65 ±0.00	+0.0%	—
nii_volumes	3.46 ±0.00	3.46 ±0.00	+0.0%	—
nii_center_of_masses	3.21 ±0.00	3.21 ±0.00	+0.0%	—
poi_reorient	3.77 ±0.00	3.77 ±0.00	+0.0%	—
poi_to_global	3.02 ±0.00	3.02 ±0.00	+0.0%	—
metric_voxels	3536.00 ±0.00	3536.00 ±0.00	+0.0%	—
metric_labels	7.00 ±0.00	7.00 ±0.00	+0.0%	—
metric_foreground_pct	50.17 ±0.00	50.17 ±0.00	+0.0%	—
nii_get_array	1.59 ±0.00	1.59 ±0.00	+0.0% (noise)	—
nii_compute_crop	2.84 ±0.00	2.84 ±0.00	+0.0% (noise)	—
nii_unique	2.90 ±0.00	2.90 ±0.00	+0.0% (noise)	—
poi_rescale	2.54 ±0.00	2.54 ±0.00	+0.0% (noise)	—
poi_local_to_global_arr	2.89 ±0.00	2.89 ±0.00	+0.0% (noise)	—
poi_save	1.40 ±0.00	1.40 ±0.00	+0.0% (noise)	—
poi_map_labels	1.71 ±0.00	1.71 ±0.00	+0.0% (noise)	—
poi_load	1.55 ±0.00	1.55 ±0.00	+0.0% (noise)	—

Gate: a measurement fails when the baseline is ≥ 1 MiB, the median grows by ≥ 50%, and Welch's t-test gives p < 0.05. metric_* rows are context only.