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Poi label names - #124

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robert-graf merged 5 commits into
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poi-label-names
Sep 22, 2026
Merged

Poi label names#124
robert-graf merged 5 commits into
mainfrom
poi-label-names

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@Hendrik-code

@Hendrik-code Hendrik-code commented Aug 10, 2026

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Hendrik-code and others added 3 commits June 29, 2026 13:21
@Hendrik-code @claude
fix(poi): carry level_one_info/level_two_info/info through all POI ops
1745773 
POI.copy(), _set_inplace(), POI_Global.to_other(), and calc_poi_average() dropped
the naming metadata (level_one_info, level_two_info, and with it info['label_name']),
and POI_Descriptor.copy() dropped its name<->id definition. Now every copy/derive
path preserves them, so names survive reorient/rescale/extract/map_labels/to_global/
average (all of which route through copy()). Verified preserved across those ops;
76 existing POI tests still pass.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
@Hendrik-code @claude
feat(poi): nested label_name format + name accessors + migration
b774bc8 
label_name now uses the nested form {region:{subregion:name,'name':group}} instead
of flat {'(1, 2)':'C2'}. Old flat files (and JSON string keys) are migrated on load
(normalize_label_name); saving always writes the new format (mrk.json export stays
byte-identical, fed from the nested dict). New accessors POI.label_name(region,
subregion) and POI.level_one_name(region) resolve custom names with priority over
level_two_info/level_one_info enum names (warning when a custom name diverges from a
given enum name); set_label_name/set_level_one_name write them. mrk/txt import and
join_left updated to the nested form. 89 POI tests + 8 new tests pass.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
@Hendrik-code @claude
feat(poi): index POIs by level names + warn on enum without level_*_info
5ea7ea5 
unpack_poi_id now resolves a key part via level_one_info/level_two_info enum names
(when set) before the descriptor's definition, so poi[idx, 'level2name'] and
poi['level1name', 'level2name'] work for get/set/contains alongside ids and Enums.
Using an Enum key while the matching level_*_info is still 'Any' (unset) now emits a
warning (the .value is still used). 100 POI tests pass.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
@Hendrik-code Hendrik-code self-assigned this Aug 10, 2026
@Hendrik-code Hendrik-code added the enhancement New feature or request label Aug 10, 2026
@Hendrik-code Hendrik-code linked an issue Aug 10, 2026 that may be closed by this pull request
Make POI names first level support #114
Closed
@robert-graf
robert-graf marked this pull request as ready for review September 22, 2026 10:50
@robert-graf
robert-graf self-requested a review September 22, 2026 10:51
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Benchmark comparison

Speed (wall time per call)

baseline a0edcd0 vs head a0edcd0 · 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 3.21 ±1.97 2.70 ±0.03 -16.0% 0.135
nii_fill_holes 3.25 ±0.08 2.91 ±0.11 -10.5% 0.000
nii_save 7.87 ±0.23 7.09 ±1.23 -9.8% 0.898
nii_rescale 24.58 ±0.81 22.68 ±0.78 -7.7% 0.012
nii_erode_msk 3.77 ±0.05 3.55 ±0.11 -6.0% 0.002
… 31 more measurements
Measurement baseline ms (median ±½·range) head ms (median ±½·range) Δ % p
nii_dilate_msk 70.17 ±1.73 66.37 ±1.40 -5.4% 0.022
nii_load_img 7.58 ±0.11 7.35 ±0.41 -3.0% 0.919
poi_calc_poi_from_subreg_vert 6.72 ±0.18 6.54 ±0.15 -2.7% 0.066
nii_resample_from_to 25.74 ±0.63 25.05 ±3.10 -2.7% 0.655
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 0.56 ±0.02 0.29 ±0.01 -48.1% (noise) 0.000
poi_reorient 0.36 ±0.10 0.19 ±0.01 -47.8% (noise) 0.022
nii_extract_label 0.33 ±0.01 0.18 ±0.01 -47.0% (noise) 0.000
nii_apply_crop 0.53 ±0.03 0.30 ±0.02 -44.0% (noise) 0.000
poi_map_labels 0.14 ±0.01 0.08 ±0.01 -41.8% (noise) 0.000
poi_rescale 0.17 ±0.02 0.11 ±0.03 -38.6% (noise) 0.006
poi_to_global 0.17 ±0.02 0.11 ±0.02 -37.3% (noise) 0.001
nii_reorient 0.56 ±0.03 0.37 ±0.03 -34.6% (noise) 0.000
nii_compute_crop 0.25 ±0.00 0.18 ±0.00 -27.0% (noise) 0.000
poi_resample_from_to 0.41 ±0.04 0.31 ±0.02 -25.8% (noise) 0.001
nii_unique 0.53 ±0.01 0.42 ±0.00 -20.1% (noise) 0.000
nii_get_array 0.03 ±0.00 0.02 ±0.01 -18.2% (noise) 0.445
poi_save 0.41 ±0.03 0.35 ±0.05 -15.7% (noise) 0.024
nii_map_labels 0.64 ±0.04 0.56 ±0.09 -12.5% (noise) 0.025
nii_volumes 1.18 ±0.01 1.04 ±0.01 -11.9% (noise) 0.000
nii_center_of_masses 1.08 ±0.02 0.95 ±0.00 -11.7% (noise) 0.000
nii_set_dtype 0.36 ±0.02 0.32 ±0.03 -11.1% (noise) 0.012
poi_calc_centroids 1.49 ±0.06 1.35 ±0.09 -10.0% (noise) 0.019
nii_filter_connected_components 2.87 ±0.05 2.58 ±0.06 -9.9% (noise) 0.000
nii_rescale_seg 1.99 ±0.04 1.80 ±0.05 -9.5% (noise) 0.000
poi_load 0.51 ±0.01 0.46 ±0.01 -9.5% (noise) 0.001
poi_local_to_global_arr 0.17 ±0.01 0.15 ±0.01 -8.3% (noise) 0.014
nii_get_connected_components 1.52 ±0.06 1.48 ±0.06 -2.9% (noise) 0.159
nii_load_seg 1.93 ±0.19 1.91 ±0.25 -1.2% (noise) 0.850

ct_2d — shape (73, 47, 1)

Measurement baseline ms (median ±½·range) head ms (median ±½·range) Δ % p
nii_rescale 3.75 ±0.21 3.44 ±0.24 -8.3% 0.180
nii_dilate_msk 7.83 ±0.19 7.64 ±0.09 -2.5% 0.025
nii_resample_from_to 4.63 ±0.15 4.63 ±0.31 -0.1% 0.897
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_to_global 0.21 ±0.02 0.16 ±0.01 -26.8% (noise) 0.001
poi_reorient 0.38 ±0.01 0.30 ±0.02 -21.6% (noise) 0.000
nii_erode_msk 0.77 ±0.01 0.62 ±0.02 -20.3% (noise) 0.000
poi_calc_centroids 0.76 ±0.01 0.62 ±0.03 -18.2% (noise) 0.000
poi_calc_centroids_nocrop 0.89 ±0.05 0.73 ±0.03 -18.1% (noise) 0.000
nii_get_connected_components 0.61 ±0.27 0.50 ±0.03 -17.8% (noise) 0.189
nii_reorient 0.70 ±0.02 0.59 ±0.04 -16.4% (noise) 0.000
nii_map_labels 0.46 ±0.01 0.38 ±0.02 -16.0% (noise) 0.000
poi_rescale 0.22 ±0.00 0.19 ±0.01 -15.3% (noise) 0.000
nii_fill_holes 0.67 ±0.02 0.57 ±0.04 -15.2% (noise) 0.002
nii_filter_connected_components 0.71 ±0.05 0.60 ±0.02 -15.1% (noise) 0.004
nii_load_img 1.14 ±0.04 0.97 ±0.05 -14.9% (noise) 0.000
nii_rescale_seg 0.67 ±0.01 0.58 ±0.04 -13.7% (noise) 0.003
nii_extract_label 0.39 ±0.03 0.34 ±0.02 -12.4% (noise) 0.022
nii_center_of_masses 0.17 ±0.01 0.16 ±0.01 -10.9% (noise) 0.008
nii_compute_crop 0.13 ±0.01 0.12 ±0.01 -10.8% (noise) 0.259
poi_map_labels 0.18 ±0.01 0.16 ±0.01 -10.8% (noise) 0.078
nii_set_dtype 0.37 ±0.01 0.33 ±0.04 -10.7% (noise) 0.074
poi_save 0.47 ±0.02 0.43 ±0.02 -8.5% (noise) 0.015
poi_resample_from_to 0.57 ±0.03 0.53 ±0.09 -7.8% (noise) 0.589
nii_load_seg 1.27 ±0.17 1.18 ±0.03 -7.0% (noise) 0.413
poi_local_to_global_arr 0.19 ±0.01 0.17 ±0.01 -6.1% (noise) 0.019
poi_load 0.67 ±0.03 0.63 ±0.03 -5.3% (noise) 0.074
nii_volumes 0.24 ±0.01 0.23 ±0.01 -4.7% (noise) 0.075
nii_apply_crop 0.57 ±0.03 0.60 ±0.04 +4.4% (noise) 0.778
nii_pad_to 0.52 ±0.02 0.50 ±0.04 -3.8% (noise) 0.327
nii_get_array 0.01 ±0.00 0.01 ±0.00 +3.3% (noise) 0.556
nii_unique 0.12 ±0.01 0.11 ±0.01 -2.3% (noise) 0.848
nii_save 1.24 ±0.15 1.25 ±0.20 +0.9% (noise) 0.367

mri_3d — shape (68, 52, 67)

Measurement baseline ms (median ±½·range) head ms (median ±½·range) Δ % p
nii_filter_connected_components 3.24 ±0.16 2.91 ±0.12 -10.2% 0.003
poi_calc_poi_from_subreg_vert 6.20 ±0.06 5.72 ±0.08 -7.8% 0.000
poi_calc_centroids_nocrop 5.98 ±0.20 5.52 ±0.09 -7.6% 0.005
nii_load_img 6.17 ±0.05 5.86 ±0.10 -5.0% 0.002
nii_erode_msk 4.95 ±0.15 4.76 ±0.20 -3.9% 0.097
… 31 more measurements
Measurement baseline ms (median ±½·range) head ms (median ±½·range) Δ % p
nii_fill_holes 3.68 ±0.09 3.58 ±0.04 -2.9% 0.018
nii_dilate_msk 87.81 ±1.52 86.17 ±0.70 -1.9% 0.028
nii_save 6.58 ±0.13 6.53 ±0.23 -0.7% 0.250
nii_resample_from_to 24.03 ±0.40 23.94 ±0.54 -0.4% 0.690
nii_rescale 23.55 ±0.43 23.52 ±0.57 -0.1% 0.447
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_map_labels 0.95 ±0.09 0.66 ±0.05 -30.7% (noise) 0.000
poi_calc_centroids 2.12 ±0.08 1.73 ±0.06 -18.2% (noise) 0.000
nii_pad_to 0.63 ±0.02 0.53 ±0.03 -16.2% (noise) 0.001
nii_load_seg 2.12 ±0.97 1.89 ±0.14 -10.5% (noise) 0.248
poi_map_labels 0.19 ±0.01 0.17 ±0.01 -9.7% (noise) 0.032
nii_get_connected_components 1.53 ±0.39 1.39 ±0.08 -9.6% (noise) 0.186
nii_compute_crop 0.27 ±0.13 0.25 ±0.02 -8.4% (noise) 0.312
poi_resample_from_to 0.52 ±0.08 0.48 ±0.02 -8.3% (noise) 0.092
poi_load 1.24 ±0.07 1.15 ±0.01 -7.7% (noise) 0.019
nii_set_dtype 0.46 ±0.01 0.42 ±0.03 -7.6% (noise) 0.059
poi_reorient 0.35 ±0.04 0.33 ±0.01 -6.8% (noise) 0.205
poi_rescale 0.20 ±0.02 0.19 ±0.01 -6.0% (noise) 0.193
poi_save 0.48 ±0.02 0.45 ±0.03 -5.8% (noise) 0.097
nii_extract_label 0.32 ±0.03 0.34 ±0.02 +4.9% (noise) 0.337
nii_get_array 0.03 ±0.00 0.04 ±0.00 +4.8% (noise) 0.133
nii_center_of_masses 1.11 ±0.04 1.16 ±0.02 +4.6% (noise) 0.243
poi_local_to_global_arr 0.18 ±0.00 0.17 ±0.01 -4.3% (noise) 0.140
nii_volumes 1.20 ±0.02 1.15 ±0.01 -4.2% (noise) 0.002
nii_reorient 0.73 ±0.03 0.70 ±0.02 -3.9% (noise) 0.056
poi_to_global 0.21 ±0.02 0.21 ±0.02 -2.7% (noise) 0.950
nii_unique 0.50 ±0.02 0.50 ±0.03 -1.2% (noise) 0.438
nii_apply_crop 0.58 ±0.01 0.59 ±0.05 +0.8% (noise) 0.493
nii_rescale_seg 2.03 ±0.04 2.01 ±0.05 -0.7% (noise) 0.814

mri_2d — shape (68, 52, 1)

Measurement baseline ms (median ±½·range) head ms (median ±½·range) Δ % p
nii_dilate_msk 10.71 ±0.33 10.14 ±0.20 -5.3% 0.019
nii_resample_from_to 4.49 ±0.10 4.39 ±0.11 -2.4% 0.100
nii_rescale 3.71 ±0.18 3.70 ±0.11 -0.3% 0.672
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_rescale_seg 0.55 ±0.02 0.69 ±0.05 +26.9% (noise) 0.001
poi_to_global 0.24 ±0.00 0.19 ±0.01 -21.8% (noise) 0.000
poi_resample_from_to 0.64 ±0.00 0.51 ±0.03 -21.4% (noise) 0.001
nii_apply_crop 0.62 ±0.06 0.50 ±0.05 -19.3% (noise) 0.026
poi_rescale 0.23 ±0.01 0.19 ±0.01 -18.2% (noise) 0.001
poi_local_to_global_arr 0.21 ±0.01 0.17 ±0.01 -17.1% (noise) 0.007
nii_save 1.20 ±0.02 1.00 ±0.10 -16.9% (noise) 0.015
poi_map_labels 0.20 ±0.01 0.17 ±0.01 -16.1% (noise) 0.001
poi_reorient 0.40 ±0.02 0.34 ±0.02 -14.4% (noise) 0.007
nii_load_seg 1.24 ±0.03 1.10 ±0.10 -11.6% (noise) 0.070
poi_load 1.18 ±0.05 1.05 ±0.02 -10.9% (noise) 0.001
poi_save 0.52 ±0.07 0.47 ±0.03 -8.7% (noise) 0.093
nii_set_dtype 0.33 ±0.02 0.35 ±0.01 +7.3% (noise) 0.013
nii_load_img 1.09 ±0.03 1.01 ±0.05 -7.2% (noise) 0.006
nii_unique 0.11 ±0.01 0.11 ±0.01 +6.6% (noise) 0.860
nii_center_of_masses 0.27 ±0.02 0.26 ±0.02 -5.9% (noise) 0.321
nii_filter_connected_components 0.74 ±0.11 0.70 ±0.09 -5.5% (noise) 0.483
nii_map_labels 0.44 ±0.04 0.42 ±0.03 -4.4% (noise) 0.604
nii_fill_holes 0.79 ±0.06 0.76 ±0.11 -3.7% (noise) 0.648
nii_compute_crop 0.12 ±0.01 0.13 ±0.02 +3.7% (noise) 0.549
nii_reorient 0.66 ±0.03 0.69 ±0.04 +3.3% (noise) 0.435
nii_erode_msk 0.92 ±0.06 0.89 ±0.04 -3.0% (noise) 0.073
nii_get_connected_components 0.57 ±0.01 0.58 ±0.05 +2.7% (noise) 0.201
nii_get_array 0.01 ±0.00 0.01 ±0.00 +2.7% (noise) 0.569
nii_extract_label 0.35 ±0.02 0.35 ±0.01 -0.8% (noise) 0.299
nii_volumes 0.31 ±0.01 0.31 ±0.02 +0.7% (noise) 0.836
nii_pad_to 0.48 ±0.02 0.48 ±0.02 -0.4% (noise) 0.506
poi_calc_centroids_nocrop 1.00 ±0.04 1.00 ±0.25 -0.3% (noise) 0.480
poi_calc_centroids 0.89 ±0.04 0.89 ±0.08 +0.3% (noise) 0.963

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 a0edcd0 vs head a0edcd0 · 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_load_img 3.55 ±0.00 3.52 ±0.00 -0.9% —
nii_rescale_seg 6.18 ±0.00 6.22 ±0.00 +0.8% —
nii_set_dtype 5.36 ±0.00 5.40 ±0.00 +0.7% —
nii_pad_to 5.48 ±0.00 5.52 ±0.00 +0.7% —
nii_extract_label 5.48 ±0.00 5.52 ±0.00 +0.7% —
… 31 more measurements
Measurement baseline MiB (median ±½·range) head MiB (median ±½·range) Δ % p
nii_map_labels 5.55 ±0.00 5.59 ±0.00 +0.7% —
nii_apply_crop 5.92 ±0.00 5.96 ±0.00 +0.7% —
poi_calc_centroids_nocrop 6.04 ±0.00 6.08 ±0.00 +0.6% —
poi_calc_centroids 6.17 ±0.00 6.21 ±0.00 +0.6% —
nii_get_connected_components 6.67 ±0.00 6.71 ±0.00 +0.6% —
nii_filter_connected_components 6.98 ±0.00 7.02 ±0.00 +0.6% —
nii_fill_holes 6.40 ±0.00 6.44 ±0.00 +0.5% —
poi_calc_poi_from_subreg_vert 7.29 ±0.00 7.33 ±0.00 +0.5% —
nii_erode_msk 6.06 ±0.00 6.07 ±0.00 +0.2% —
poi_resample_from_to 5.51 ±0.00 5.52 ±0.00 +0.1% —
nii_reorient 5.95 ±0.00 5.96 ±0.00 +0.1% —
nii_dilate_msk 6.05 ±0.00 6.05 ±0.00 +0.1% —
nii_load_seg 6.05 ±0.00 6.06 ±0.00 +0.1% —
nii_rescale 6.40 ±0.00 6.41 ±0.00 +0.1% —
nii_resample_from_to 6.53 ±0.00 6.54 ±0.00 +0.1% —
nii_save 3.83 ±0.00 3.83 ±0.00 +0.1% —
nii_volumes 3.52 ±0.00 3.52 ±0.00 +0.0% —
nii_center_of_masses 3.21 ±0.00 3.21 ±0.00 +0.0% —
poi_reorient 3.89 ±0.00 3.89 ±0.00 +0.0% —
poi_to_global 3.14 ±0.00 3.14 ±0.00 +0.0% —
poi_local_to_global_arr 3.02 ±0.00 3.02 ±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 2.96 ±0.00 2.96 ±0.00 +0.0% (noise) —
nii_unique 2.90 ±0.00 2.90 ±0.00 +0.0% (noise) —
poi_rescale 2.61 ±0.00 2.61 ±0.00 +0.0% (noise) —
poi_save 1.46 ±0.00 1.46 ±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_load_img 3.49 ±0.00 3.46 ±0.00 -0.9% —
nii_rescale_seg 6.11 ±0.00 6.16 ±0.00 +0.8% —
nii_set_dtype 5.30 ±0.00 5.34 ±0.00 +0.7% —
nii_pad_to 5.42 ±0.00 5.46 ±0.00 +0.7% —
nii_extract_label 5.42 ±0.00 5.46 ±0.00 +0.7% —
… 30 more measurements
Measurement baseline MiB (median ±½·range) head MiB (median ±½·range) Δ % p
nii_map_labels 5.48 ±0.00 5.52 ±0.00 +0.7% —
nii_apply_crop 5.86 ±0.00 5.89 ±0.00 +0.7% —
poi_calc_centroids_nocrop 6.04 ±0.00 6.08 ±0.00 +0.6% —
poi_calc_centroids 6.11 ±0.00 6.15 ±0.00 +0.6% —
nii_get_connected_components 6.61 ±0.00 6.65 ±0.00 +0.6% —
nii_filter_connected_components 6.92 ±0.00 6.96 ±0.00 +0.6% —
nii_fill_holes 6.34 ±0.00 6.38 ±0.00 +0.6% —
nii_erode_msk 6.00 ±0.00 6.01 ±0.00 +0.2% —
poi_resample_from_to 5.45 ±0.00 5.46 ±0.00 +0.1% —
nii_reorient 5.89 ±0.00 5.90 ±0.00 +0.1% —
nii_dilate_msk 5.98 ±0.00 5.99 ±0.00 +0.1% —
nii_load_seg 5.99 ±0.00 6.00 ±0.00 +0.1% —
nii_rescale 6.34 ±0.00 6.35 ±0.00 +0.1% —
nii_resample_from_to 6.46 ±0.00 6.47 ±0.00 +0.1% —
nii_save 3.77 ±0.00 3.77 ±0.00 +0.1% —
nii_volumes 3.46 ±0.00 3.46 ±0.00 +0.0% —
nii_center_of_masses 3.15 ±0.00 3.15 ±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 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 2.90 ±0.00 2.90 ±0.00 +0.0% (noise) —
nii_unique 2.84 ±0.00 2.84 ±0.00 +0.0% (noise) —
poi_rescale 2.54 ±0.00 2.54 ±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 1.71 ±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_load_img 3.55 ±0.00 3.52 ±0.00 -0.9% —
nii_rescale_seg 6.11 ±0.00 6.16 ±0.00 +0.8% —
nii_set_dtype 5.36 ±0.00 5.40 ±0.00 +0.7% —
nii_pad_to 5.42 ±0.00 5.46 ±0.00 +0.7% —
nii_extract_label 5.42 ±0.00 5.46 ±0.00 +0.7% —
… 31 more measurements
Measurement baseline MiB (median ±½·range) head MiB (median ±½·range) Δ % p
nii_map_labels 5.48 ±0.00 5.52 ±0.00 +0.7% —
nii_apply_crop 5.86 ±0.00 5.89 ±0.00 +0.7% —
poi_calc_centroids_nocrop 5.98 ±0.00 6.02 ±0.00 +0.7% —
poi_calc_centroids 6.11 ±0.00 6.15 ±0.00 +0.6% —
nii_get_connected_components 6.61 ±0.00 6.65 ±0.00 +0.6% —
nii_filter_connected_components 6.92 ±0.00 6.96 ±0.00 +0.6% —
nii_fill_holes 6.34 ±0.00 6.38 ±0.00 +0.6% —
poi_calc_poi_from_subreg_vert 7.29 ±0.00 7.33 ±0.00 +0.5% —
nii_erode_msk 6.00 ±0.00 6.01 ±0.00 +0.2% —
poi_resample_from_to 5.45 ±0.00 5.46 ±0.00 +0.1% —
nii_reorient 5.89 ±0.00 5.90 ±0.00 +0.1% —
nii_dilate_msk 5.98 ±0.00 5.99 ±0.00 +0.1% —
nii_load_seg 5.99 ±0.00 6.00 ±0.00 +0.1% —
nii_rescale 6.34 ±0.00 6.35 ±0.00 +0.1% —
nii_resample_from_to 6.46 ±0.00 6.47 ±0.00 +0.1% —
nii_save 3.77 ±0.00 3.77 ±0.00 +0.1% —
nii_volumes 3.46 ±0.00 3.46 ±0.00 +0.0% —
nii_center_of_masses 3.15 ±0.00 3.15 ±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 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 2.90 ±0.00 2.90 ±0.00 +0.0% (noise) —
nii_unique 2.84 ±0.00 2.84 ±0.00 +0.0% (noise) —
poi_rescale 2.54 ±0.00 2.54 ±0.00 +0.0% (noise) —
poi_local_to_global_arr 2.96 ±0.00 2.96 ±0.00 +0.0% (noise) —
poi_save 1.46 ±0.00 1.46 ±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_load_img 3.55 ±0.00 3.52 ±0.00 -0.9% —
nii_rescale_seg 6.11 ±0.00 6.16 ±0.00 +0.8% —
nii_set_dtype 5.36 ±0.00 5.40 ±0.00 +0.7% —
nii_pad_to 5.42 ±0.00 5.46 ±0.00 +0.7% —
nii_extract_label 5.42 ±0.00 5.46 ±0.00 +0.7% —
… 30 more measurements
Measurement baseline MiB (median ±½·range) head MiB (median ±½·range) Δ % p
nii_map_labels 5.48 ±0.00 5.52 ±0.00 +0.7% —
nii_apply_crop 5.86 ±0.00 5.89 ±0.00 +0.7% —
poi_calc_centroids_nocrop 6.04 ±0.00 6.08 ±0.00 +0.6% —
poi_calc_centroids 6.11 ±0.00 6.15 ±0.00 +0.6% —
nii_get_connected_components 6.61 ±0.00 6.65 ±0.00 +0.6% —
nii_filter_connected_components 6.92 ±0.00 6.96 ±0.00 +0.6% —
nii_fill_holes 6.34 ±0.00 6.38 ±0.00 +0.6% —
nii_erode_msk 6.00 ±0.00 6.01 ±0.00 +0.2% —
poi_resample_from_to 5.45 ±0.00 5.46 ±0.00 +0.1% —
nii_reorient 5.89 ±0.00 5.90 ±0.00 +0.1% —
nii_dilate_msk 5.98 ±0.00 5.99 ±0.00 +0.1% —
nii_load_seg 5.99 ±0.00 6.00 ±0.00 +0.1% —
nii_rescale 6.34 ±0.00 6.35 ±0.00 +0.1% —
nii_resample_from_to 6.46 ±0.00 6.47 ±0.00 +0.1% —
nii_save 3.77 ±0.00 3.77 ±0.00 +0.1% —
nii_volumes 3.46 ±0.00 3.46 ±0.00 +0.0% —
nii_center_of_masses 3.15 ±0.00 3.15 ±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 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 2.90 ±0.00 2.90 ±0.00 +0.0% (noise) —
nii_unique 2.84 ±0.00 2.84 ±0.00 +0.0% (noise) —
poi_rescale 2.54 ±0.00 2.54 ±0.00 +0.0% (noise) —
poi_local_to_global_arr 2.96 ±0.00 2.96 ±0.00 +0.0% (noise) —
poi_save 1.46 ±0.00 1.46 ±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) 0.178

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.

@robert-graf
robert-graf merged commit 9f078ac into main Sep 22, 2026
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@robert-graf
robert-graf deleted the poi-label-names branch September 22, 2026 11:27
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Make POI names first level support

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@Hendrik-code @robert-graf