Auto-discovery idea: Lamina-proximal local compaction across chromosome traces

Rationale

Lamina-associated chromatin is expected to be locally compacted near the nuclear periphery.

Data used

Use spot coordinates, chromosome/start order, trace identity, cell identity, LaminB1 intensity, and nuclear-periphery distance.

Analysis sketch

Within each trace and chromosome, sort spots by genomic start and compute adjacent-bin 3D distances. Assign each adjacent pair the mean n_per_dist(um) of its two spots, then estimate one global Spearman correlation between adjacent distance and periphery distance.

Expected result

If lamina-proximal chromatin is compacted, adjacent 3D distances should be shorter close to the periphery, giving a positive correlation between adjacent distance and n_per_dist(um).

Validation checks

Require all fields, enough cells and adjacent spot pairs, finite correlation, a permutation p-value from shuffling periphery distance within trace, runtime under budget, and identical output on deterministic rerun.

Graphical abstract

Generated after notebook exploration with Pantheon file_manager.generate_image.

from pathlib import Path
import json
import os
os.environ.setdefault('MPLBACKEND', 'Agg')
import numpy as np
import pandas as pd
import matplotlib
matplotlib.use('Agg', force=True)
import matplotlib.pyplot as plt
from uchrom import ChromData
from uchrom.auto_discovery import DiscoveryIdea, review_idea_against_schema

IDEA = DiscoveryIdea.from_dict({'idea_title': 'Lamina-proximal local compaction across chromosome traces', 'biological_hypothesis': 'Chromatin segments closer to the nuclear lamina are more locally compacted than segments farther from the lamina.', 'computable_parameter': 'Spearman rho between adjacent-bin 3D distance and mean tracks.n_per_dist(um) across within-trace, within-chromosome adjacent spot pairs.', 'analysis_plan': 'Filter spots with finite coords and tracks.n_per_dist(um). For each spots.trace_id and spots.chrom, sort by spots.start, compute Euclidean distances between consecutive coords, and assign each pair the average tracks.n_per_dist(um). Pool pairs across cells and chromosomes, compute Spearman rho, and test against a null generated by permuting tracks.n_per_dist(um) within each trace_id before pair averaging.', 'modalities': ['chromatin_tracing', 'if_tracks', 'cell_metadata'], 'idea_markdown': '### Rationale\nLamina-associated chromatin is expected to be locally compacted near the nuclear periphery.\n\n### Data used\nUse spot coordinates, chromosome/start order, trace identity, cell identity, LaminB1 intensity, and nuclear-periphery distance.\n\n### Analysis sketch\nWithin each trace and chromosome, sort spots by genomic start and compute adjacent-bin 3D distances. Assign each adjacent pair the mean `n_per_dist(um)` of its two spots, then estimate one global Spearman correlation between adjacent distance and periphery distance.\n\n### Expected result\nIf lamina-proximal chromatin is compacted, adjacent 3D distances should be shorter close to the periphery, giving a positive correlation between adjacent distance and `n_per_dist(um)`.\n\n### Validation checks\nRequire all fields, enough cells and adjacent spot pairs, finite correlation, a permutation p-value from shuffling periphery distance within trace, runtime under budget, and identical output on deterministic rerun.', 'cell_types': ['Granule', 'Bergmann', 'Purkinje'], 'required_fields': ['coords', 'spots.chrom', 'spots.start', 'spots.trace_id', 'spots.cell_id', 'tracks.n_per_dist(um)', 'tracks.LaminB1', 'cells.cell_type'], 'validation_checks': ['required_fields_exist', 'minimum_cell_count_at_least_9_total_and_at_least_3_per_cell_type', 'minimum_spot_or_trace_count_at_least_1000_adjacent_pairs', 'finite_numeric_output', 'statistical_hypothesis_test_spearman_permutation_p_value', 'runtime_under_budget_5_minutes', 'deterministic_rerun_fixed_seed', 'negative_control_or_permutation_shuffle_n_per_dist_within_trace'], 'expected_direction': 'Positive rho: larger distance from the periphery corresponds to larger adjacent-bin 3D distances, consistent with lamina-proximal compaction.', 'complexity': 3, 'idea_id': 'lamina-proximal-local-compaction-across-chromoso-ee45672874', 'metadata': {}})
_workspace = Path('/Users/weizexu/Projects/U-Chrom')
H5CD_PATH = str(_workspace / 'tmp/takei_auto_discovery_doc/takei_doc_auto_subset.h5cd')
RUN_OUTPUT_DIR = _workspace / 'tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg'
RUN_OUTPUT_DIR.mkdir(parents=True, exist_ok=True)
cdata = ChromData.read(H5CD_PATH) if H5CD_PATH else None
schema = cdata.discovery_schema if cdata is not None else None
adata = cdata.linked_adata if cdata is not None else None
print(IDEA.idea_id)
if cdata is not None:
    print(cdata)
    print(cdata.describe_for_agent(max_items=20))

lamina-proximal-local-compaction-across-chromoso-ee45672874
ChromData: n_spots=56036, n_traces=213, n_cells=9
  spots:   ['chrom', 'start', 'end', 'trace_id', 'cell_id', 'name']
  cells:   ['leiden', 'cell_type', 'x_centroid', 'y_centroid', 'z_centroid', 'nuc_volume_um3', 'doublet', 'batch', 'n_transcripts', 'n_genes_by_counts'] (9 cells)
  cellm:   {'umap': (9, 2)}
  tracks:  ['CPSF6', 'ATRX', 'H4K8ac', 'HDAC2', 'H3K9ac', 'H3K9me3', 'H3K9me2', 'RNAPIISer2-P', 'H3', 'H3K36me2', 'UBTF', 'LaminB1', 'RNAPIISer5-P', 'RYBP', 'HP1beta', 'RING1B', 'H2A.X', 'H3K4me1', 'H4K20me2', 'H3K27me2', 'JARID2', 'SF3A66', 'CBP', 'H2AK119u1', 'EZH2', 'H3K4me2', 'BRG1', 'HP1alpha', 'Fibrillarin', 'KAP1', 'H3K27ac', 'H3K4me3', 'H3K36ac', 'H3K14ac', 'H4K20me1', 'HP1gamma', 'H4K20me3', 'H3K27me3', 'mH2A1', 'CHD4', 'KAT3B_p300', 'H3K56ac', 'H3K36me3', 'HDAC1', 'SUZ12', 'H4K16ac', 'BRD4', 'SOX2', 'rDNA', 'MajSat', 'LINE1', 'SINEB1', 'Telomere', 'MinSat', 'Xist_RNA', 'ITS1_RNA', 'Rnu2_RNA', 'polyA_RNA', 'Malat1_RNA', 'dot_int', 'n_rad_score', 'n_per_dist(um)']
  traces:  ['dbscan_allele', 'dbscan_ldp_allele'] (213 traces)
  uns:     ['allele_col', 'genome_assembly', 'keep_unclustered', 'source', 'voxel_xy_nm', 'voxel_z_nm', 'xyz_unit', 'zenodo_record', 'auto_discovery_schema', 'leiden_to_cell_type', 'linked_anndata']
  linked_adata: (9, 60)
# ChromData discovery schema

dataset: takei2025_doc_subset_pantheon_20
genome: mm10
xyz_unit: um
shape: 56036 spots, 213 traces, 9 cells

modalities:
- cell_metadata: present; operations: cell_type_stratification, embedding_visualization
- chromatin_tracing: present; operations: chromosome_subset, cell_subset, trace_subset, pairwise_3d_distance, intra_chromatin_distance, inter_chromatin_distance
- if_tracks: present; operations: marker_high_low_bin_selection, marker_stratified_distance, per_cell_marker_summary, per_cell_type_marker_summary
- rna_expression: present; operations: gene_expression_lookup, expression_stratification, gene_marker_correlation, chromatin_expression_association

chroms: 20 [chr1, chr10, chr11, chr12, chr13, chr14, chr15, chr16, chr17, chr18, chr19, chr2, chr3, chr4, chr5, chr6, chr7, chr8, chr9, chrX]
cell_types: 3 [Bergmann=3, Granule=3, Purkinje=3]
tracks: 62 [CPSF6, ATRX, H4K8ac, HDAC2, H3K9ac, H3K9me3, H3K9me2, RNAPIISer2-P, H3, H3K36me2, UBTF, LaminB1, RNAPIISer5-P, RYBP, HP1beta, RING1B, H2A.X, H3K4me1, H4K20me2, H3K27me2 ...]
linked_adata: shape=[9, 60], X=csr_matrix
genes: 60 [Aldoc, Calb1, Cdh22, Drd3, Eomes, Ephb2, Foxj1, Gabra6, Gpr176, Grm1, Hspb1, Mrc1, Nefh, Npas3, Nptn, Olig1, Pcp2, Pcp4, Plcb3, Plcb4 ...]

known_missing:
- cellm['if_mean'] per-cell IF mean matrix
- raw RNA seqFISH spot geometry as a first-class ChromData component
- scRNA reference matrix for external expression comparison
- gene annotation cache for gene-neighborhood analyses

verification_required:
- required_fields_exist
- minimum_cell_count
- minimum_spot_or_trace_count
- finite_numeric_output
- statistical_hypothesis_test
- runtime_under_budget
- deterministic_rerun
- negative_control_or_permutation
- redundancy_against_existing_parameters

Required data checks

review = review_idea_against_schema(IDEA, schema) if schema is not None else None
print(None if review is None else review.to_dict())
assert review is None or review.accepted, review.to_dict()

{'accepted': True, 'errors': [], 'warnings': ['multi-modal idea should include a cell_id_alignment validation check'], 'missing_fields': []}

Exploration

The code agent can freely add cells below this point.

Critique and compact analysis plan

This idea is directly testable with the available tracing coordinates and tracks.n_per_dist(um). I will restrict the main computation to finite spots, construct only adjacent genomic pairs within each (trace_id, chrom) group, and test whether adjacent 3D distance increases with mean nuclear-periphery distance. The null hypothesis is no positive association beyond trace-specific distance-label structure; the negative-control null will permute n_per_dist(um) labels within each trace before adjacent-pair averaging. Because adjacent pairs are not fully independent, the result is interpreted as an exploratory global association rather than a per-cell causal estimate.

# Lightweight data inspection: available columns, finite coverage, and grouping counts.
import numpy as np
import pandas as pd

spots_preview = cdata.spots.head(5).copy()
coords_preview = pd.DataFrame(np.asarray(cdata.coords[:5]), columns=['x_um', 'y_um', 'z_um'])
track_names = list(cdata.tracks.keys()) if hasattr(cdata.tracks, 'keys') else list(getattr(cdata, 'track_names', []))
required_track = np.asarray(cdata.tracks['n_per_dist(um)'])
coords = np.asarray(cdata.coords)
finite_coords = np.isfinite(coords).all(axis=1)
finite_nper = np.isfinite(required_track)
inspection_summary = {
    'n_spots': int(len(cdata.spots)),
    'spot_columns': list(cdata.spots.columns),
    'coord_shape': tuple(coords.shape),
    'n_tracks': int(len(track_names)),
    'has_n_per_dist_um': 'n_per_dist(um)' in track_names,
    'has_LaminB1': 'LaminB1' in track_names,
    'finite_coords': int(finite_coords.sum()),
    'finite_n_per_dist': int(finite_nper.sum()),
    'finite_both': int((finite_coords & finite_nper).sum()),
    'n_cells': int(cdata.n_cells),
    'cell_type_counts': cdata.cells['cell_type'].value_counts().to_dict(),
    'n_traces': int(cdata.n_traces),
    'n_chroms': int(cdata.spots['chrom'].nunique()),
}
print(json.dumps(inspection_summary, indent=2, default=str))
display(pd.concat([spots_preview.reset_index(drop=True), coords_preview], axis=1))

{
  "n_spots": 56036,
  "spot_columns": [
    "chrom",
    "start",
    "end",
    "trace_id",
    "cell_id",
    "name"
  ],
  "coord_shape": [
    56036,
    3
  ],
  "n_tracks": 62,
  "has_n_per_dist_um": true,
  "has_LaminB1": true,
  "finite_coords": 56036,
  "finite_n_per_dist": 56036,
  "finite_both": 56036,
  "n_cells": 9,
  "cell_type_counts": {
    "Granule": 3,
    "Bergmann": 3,
    "Purkinje": 3
  },
  "n_traces": 213,
  "n_chroms": 20
}
   chrom      start        end  ...        x_um        y_um     z_um
0  chr14   30425000   30450000  ...  127.399876  100.729674  1.62050
1   chr2   99725000   99750000  ...  124.070401  104.650369  1.61500
2  chr14   39625000   39650000  ...  125.011100  104.504933  1.56525
3   chr2   99950000   99975000  ...  124.328004  104.750176  1.57875
4  chr14  108450000  108475000  ...  124.519378  104.306864  1.57325

[5 rows x 9 columns]

# Main exploration: adjacent-pair compaction versus nuclear-periphery distance.
import os
os.environ.setdefault('MPLBACKEND', 'Agg')
import matplotlib
matplotlib.use('Agg', force=True)
import matplotlib.pyplot as plt
from IPython.display import display, Image
from scipy.stats import rankdata
import numpy as np
import pandas as pd
import json

rng = np.random.default_rng(20250220)
n_perms = 500
result_path = RUN_OUTPUT_DIR / 'lamina-proximal-local-compaction-across-chromoso-ee45672874_result.csv'
figure_path = RUN_OUTPUT_DIR / 'lamina-proximal-local-compaction-across-chromoso-ee45672874_statistical_summary.png'

# Assemble spot-level table from schema-approved fields.
coords = np.asarray(cdata.coords, dtype=float)
spot_df = cdata.spots[['chrom', 'start', 'trace_id', 'cell_id']].copy().reset_index(drop=True)
spot_df['x_um'] = coords[:, 0]
spot_df['y_um'] = coords[:, 1]
spot_df['z_um'] = coords[:, 2]
spot_df['n_per_dist_um'] = np.asarray(cdata.tracks['n_per_dist(um)'], dtype=float)
cell_type_map = cdata.cells['cell_type'].astype(str).to_dict()
spot_df['cell_type'] = spot_df['cell_id'].astype(str).map(cell_type_map)
finite_mask = np.isfinite(spot_df[['x_um', 'y_um', 'z_um', 'n_per_dist_um']].to_numpy()).all(axis=1)
spot_df = spot_df.loc[finite_mask].copy()

# Adjacent-pair construction within trace and chromosome after genomic sorting.
def make_adjacent_pairs(df, nper_column='n_per_dist_um'):
    rows = []
    use_cols = ['trace_id', 'chrom', 'cell_id', 'cell_type', 'start', 'x_um', 'y_um', 'z_um', nper_column]
    work = df[use_cols].sort_values(['trace_id', 'chrom', 'start'], kind='mergesort')
    for (trace_id, chrom), g in work.groupby(['trace_id', 'chrom'], sort=False):
        if len(g) < 2:
            continue
        xyz = g[['x_um', 'y_um', 'z_um']].to_numpy(float)
        starts = g['start'].to_numpy()
        nper = g[nper_column].to_numpy(float)
        d = np.linalg.norm(np.diff(xyz, axis=0), axis=1)
        pair_nper = (nper[:-1] + nper[1:]) / 2.0
        rows.append(pd.DataFrame({
            'trace_id': trace_id,
            'chrom': chrom,
            'cell_id': g['cell_id'].iloc[0],
            'cell_type': g['cell_type'].iloc[0],
            'start_left': starts[:-1],
            'start_right': starts[1:],
            'adjacent_distance_um': d,
            'mean_n_per_dist_um': pair_nper,
        }))
    if not rows:
        return pd.DataFrame(columns=['trace_id','chrom','cell_id','cell_type','start_left','start_right','adjacent_distance_um','mean_n_per_dist_um'])
    return pd.concat(rows, ignore_index=True)

pair_df = make_adjacent_pairs(spot_df)
pair_df = pair_df[np.isfinite(pair_df[['adjacent_distance_um', 'mean_n_per_dist_um']].to_numpy()).all(axis=1)].reset_index(drop=True)

def spearman_rho(x, y):
    x = np.asarray(x, dtype=float)
    y = np.asarray(y, dtype=float)
    ok = np.isfinite(x) & np.isfinite(y)
    if ok.sum() < 3:
        return np.nan
    rx = rankdata(x[ok], method='average')
    ry = rankdata(y[ok], method='average')
    sx = rx.std(ddof=0)
    sy = ry.std(ddof=0)
    if sx == 0 or sy == 0:
        return np.nan
    return float(np.corrcoef(rx, ry)[0, 1])

observed_rho = spearman_rho(pair_df['mean_n_per_dist_um'], pair_df['adjacent_distance_um'])

# Negative-control null: permute n_per_dist labels within each trace, recompute pair means and rho.
null_rhos = np.empty(n_perms, dtype=float)
spot_perm_base = spot_df.copy()
trace_groups = list(spot_perm_base.groupby('trace_id', sort=False).indices.items())
for i in range(n_perms):
    perm_values = spot_perm_base['n_per_dist_um'].to_numpy().copy()
    for trace_id, idx in trace_groups:
        if len(idx) > 1:
            perm_values[np.asarray(idx)] = rng.permutation(perm_values[np.asarray(idx)])
    spot_perm_base['n_per_dist_perm'] = perm_values
    perm_pairs = make_adjacent_pairs(spot_perm_base, nper_column='n_per_dist_perm')
    null_rhos[i] = spearman_rho(perm_pairs['mean_n_per_dist_um'], perm_pairs['adjacent_distance_um'])

# One-sided p-value for expected positive association; also record two-sided descriptive p.
p_value = float((1 + np.sum(null_rhos >= observed_rho)) / (n_perms + 1)) if np.isfinite(observed_rho) else float('nan')
p_value_two_sided = float((1 + np.sum(np.abs(null_rhos) >= abs(observed_rho))) / (n_perms + 1)) if np.isfinite(observed_rho) else float('nan')
effect_size = float(observed_rho - np.nanmean(null_rhos))
status = 'pass' if len(pair_df) >= 1000 and np.isfinite(observed_rho) and np.isfinite(p_value) else 'insufficient_data'

# Compact result table: global row plus per-cell-type descriptive rows using the same global test p-value.
rows = []
rows.append({
    'scope': 'global', 'cell_type': 'all', 'n_pairs': int(len(pair_df)),
    'n_cells': int(pair_df['cell_id'].nunique()), 'n_traces': int(pair_df['trace_id'].nunique()),
    'observed_statistic': observed_rho, 'effect_size': effect_size,
    'null_mean': float(np.nanmean(null_rhos)), 'null_sd': float(np.nanstd(null_rhos, ddof=1)),
    'p_value': p_value, 'p_value_two_sided': p_value_two_sided,
    'test_method': f'Spearman rho with {n_perms} within-trace n_per_dist permutation null',
})
for ct, g in pair_df.groupby('cell_type', dropna=False):
    rows.append({
        'scope': 'cell_type_descriptive', 'cell_type': str(ct), 'n_pairs': int(len(g)),
        'n_cells': int(g['cell_id'].nunique()), 'n_traces': int(g['trace_id'].nunique()),
        'observed_statistic': spearman_rho(g['mean_n_per_dist_um'], g['adjacent_distance_um']),
        'effect_size': np.nan, 'null_mean': np.nan, 'null_sd': np.nan,
        'p_value': p_value, 'p_value_two_sided': p_value_two_sided,
        'test_method': 'Descriptive subgroup rho; p_value copied from global permutation test',
    })
result_table = pd.DataFrame(rows)
result_table.to_csv(result_path, index=False)

analysis_summary = {
    'idea_id': IDEA.idea_id,
    'parameter_value': observed_rho,
    'observed_statistic': observed_rho,
    'effect_size': effect_size,
    'p_value': p_value,
    'p_value_two_sided': p_value_two_sided,
    'test_method': f'Spearman rank correlation; one-sided permutation test with {n_perms} shuffles of n_per_dist within each trace_id',
    'null_hypothesis': 'Adjacent 3D distance is not positively associated with mean nuclear-periphery distance; any rho is explained by trace-specific labels under within-trace permutation.',
    'alternative_hypothesis': 'Adjacent 3D distance is positively associated with mean nuclear-periphery distance, consistent with lamina-proximal local compaction.',
    'hypothesis_test_status': status,
    'n_rows': int(len(pair_df)),
    'n_adjacent_pairs': int(len(pair_df)),
    'n_selected_cells': int(pair_df['cell_id'].nunique()),
    'n_selected_traces': int(pair_df['trace_id'].nunique()),
    'n_permutations': int(n_perms),
    'null_distribution_mean': float(np.nanmean(null_rhos)),
    'null_distribution_sd': float(np.nanstd(null_rhos, ddof=1)),
    'expected_direction': IDEA.expected_direction,
    'result_path': str(result_path.relative_to(_workspace)),
    'statistical_figure_path': str(figure_path.relative_to(_workspace)),
    'notes': ['Permutation preserves trace membership while disrupting local pairing of n_per_dist labels.']
}

# Statistical figure: null distribution with observed rho and a binned data/control summary.
fig, axes = plt.subplots(1, 2, figsize=(11.5, 4.4), facecolor='white')
ax = axes[0]
ax.hist(null_rhos, bins=30, color='#b8c7dc', edgecolor='white', label='Within-trace permuted null')
ax.axvline(observed_rho, color='#b2182b', lw=2.5, label=f'Observed rho = {observed_rho:.3f}')
ax.axvline(np.nanmean(null_rhos), color='#2166ac', lw=1.8, ls='--', label=f'Null mean = {np.nanmean(null_rhos):.3f}')
ax.set_xlabel('Spearman rho: mean n_per_dist vs adjacent distance')
ax.set_ylabel('Permutation count')
ax.set_title('Hypothesis-test evidence')
ax.legend(frameon=False, fontsize=8)
ax.text(0.02, 0.95, f'one-sided p = {p_value:.4f}\neffect = {effect_size:.3f}\nn pairs = {len(pair_df):,}\nmethod: {n_perms} permutations',
        transform=ax.transAxes, va='top', ha='left', fontsize=9,
        bbox=dict(boxstyle='round', facecolor='white', alpha=0.85, edgecolor='0.8'))

ax2 = axes[1]
plot_df = pair_df.copy()
plot_df['nper_bin'] = pd.qcut(plot_df['mean_n_per_dist_um'], q=8, duplicates='drop')
bin_summary = plot_df.groupby('nper_bin', observed=True).agg(
    mean_nper=('mean_n_per_dist_um', 'mean'),
    mean_dist=('adjacent_distance_um', 'mean'),
    sem_dist=('adjacent_distance_um', lambda v: float(np.std(v, ddof=1) / np.sqrt(len(v))) if len(v) > 1 else 0.0),
    n=('adjacent_distance_um', 'size')
).reset_index(drop=True)
ax2.errorbar(bin_summary['mean_nper'], bin_summary['mean_dist'], yerr=bin_summary['sem_dist'],
             marker='o', lw=1.8, capsize=3, color='#1b7837', label='Observed adjacent pairs (binned mean ± SEM)')
ax2.set_xlabel('Mean nuclear-periphery distance of adjacent pair (um)')
ax2.set_ylabel('Adjacent-bin 3D distance (um)')
ax2.set_title('Group comparison across periphery-distance bins')
ax2.legend(frameon=False, fontsize=8)
ax2.grid(True, color='0.9', linewidth=0.8)
for a in axes:
    a.spines['top'].set_visible(False)
    a.spines['right'].set_visible(False)
fig.suptitle('Lamina-proximal local compaction across chromosome traces', fontsize=12)
fig.tight_layout()
fig.savefig(figure_path, dpi=180, bbox_inches='tight')
plt.close(fig)

display(result_table)
print(json.dumps(analysis_summary, indent=2))
display(Image(filename=str(figure_path)))

                   scope  ...                                        test_method
0                 global  ...  Spearman rho with 500 within-trace n_per_dist ...
1  cell_type_descriptive  ...  Descriptive subgroup rho; p_value copied from ...
2  cell_type_descriptive  ...  Descriptive subgroup rho; p_value copied from ...
3  cell_type_descriptive  ...  Descriptive subgroup rho; p_value copied from ...

[4 rows x 12 columns]
{
  "idea_id": "lamina-proximal-local-compaction-across-chromoso-ee45672874",
  "parameter_value": 0.08006287063797887,
  "observed_statistic": 0.08006287063797887,
  "effect_size": 0.023679662847897097,
  "p_value": 0.001996007984031936,
  "p_value_two_sided": 0.001996007984031936,
  "test_method": "Spearman rank correlation; one-sided permutation test with 500 shuffles of n_per_dist within each trace_id",
  "null_hypothesis": "Adjacent 3D distance is not positively associated with mean nuclear-periphery distance; any rho is explained by trace-specific labels under within-trace permutation.",
  "alternative_hypothesis": "Adjacent 3D distance is positively associated with mean nuclear-periphery distance, consistent with lamina-proximal local compaction.",
  "hypothesis_test_status": "pass",
  "n_rows": 55823,
  "n_adjacent_pairs": 55823,
  "n_selected_cells": 9,
  "n_selected_traces": 213,
  "n_permutations": 500,
  "null_distribution_mean": 0.056383207790081775,
  "null_distribution_sd": 0.0034470244845041607,
  "expected_direction": "Positive rho: larger distance from the periphery corresponds to larger adjacent-bin 3D distances, consistent with lamina-proximal compaction.",
  "result_path": "tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/lamina-proximal-local-compaction-across-chromoso-ee45672874_result.csv",
  "statistical_figure_path": "tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/lamina-proximal-local-compaction-across-chromoso-ee45672874_statistical_summary.png",
  "notes": [
    "Permutation preserves trace membership while disrupting local pairing of n_per_dist labels."
  ]
}
<IPython.core.display.Image object>

tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:79: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "- minimum_cell_count\n",
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"
tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/notebooks/lamina-proximal-local-compaction-across-chromoso-ee45672874.ipynb:35: FutureWarning: The default of observed=False is deprecated and will be changed to True in a future version of pandas. Pass observed=False to retain current behavior or observed=True to adopt the future default and silence this warning.
  "shell.execute_reply": "2026-06-09T05:20:52.389836+00:00"

Statistical figure

Agent-generated quantitative figure saved during exploration.

# Check generated artifact paths after main run.
print('RUN_OUTPUT_DIR =', RUN_OUTPUT_DIR)
print('result exists:', result_path, result_path.exists())
print('figure exists:', figure_path, figure_path.exists())
print('figure size:', figure_path.stat().st_size if figure_path.exists() else None)
print('summary p/effect:', analysis_summary.get('p_value'), analysis_summary.get('effect_size'))

RUN_OUTPUT_DIR = /Users/weizexu/Projects/U-Chrom/tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg
result exists: /Users/weizexu/Projects/U-Chrom/tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/lamina-proximal-local-compaction-across-chromoso-ee45672874_result.csv True
figure exists: /Users/weizexu/Projects/U-Chrom/tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/lamina-proximal-local-compaction-across-chromoso-ee45672874_statistical_summary.png True
figure size: 133461
summary p/effect: 0.001996007984031936 0.023679662847897097

Runner verification summary

This scaffolded section is generated by U-Chrom. The notebook agent executes it after exploration, and the runner re-executes it during final verification.

checks = {check: 'not_run' for check in IDEA.validation_checks}
notes = []
checks.setdefault('statistical_hypothesis_test', 'not_run')

def _check_keys(prefix):
    return [key for key in checks if key == prefix or key.startswith(prefix + ':')]

def _set_check(prefix, value):
    keys = _check_keys(prefix)
    if not keys:
        checks[prefix] = value
        return
    for key in keys:
        checks[key] = value

def _check_status(prefix):
    values = [checks[key] for key in _check_keys(prefix)]
    if not values:
        return None
    if 'fail' in values:
        return 'fail'
    if all(value == 'pass' for value in values):
        return 'pass'
    return values[0]

_set_check('required_fields_exist', 'pass' if review is not None and review.accepted else 'fail')
if _check_keys('cell_id_alignment'):
    aligned = True
    if cdata is not None and adata is not None and len(cdata.cells) == len(adata.obs_names):
        aligned = list(map(str, cdata.cells.index)) == list(map(str, adata.obs_names))
    _set_check('cell_id_alignment', 'pass' if aligned else 'fail')
if _check_keys('minimum_cell_count'):
    n_cells = analysis_summary.get('n_selected_cells')
    if n_cells is None and 'cell_type' in getattr(result_table, 'columns', []):
        n_cells = len(result_table)
    if n_cells is None:
        n_cells = len(cdata.cells) if cdata is not None and getattr(cdata, 'n_cells', 0) else 0
    _set_check('minimum_cell_count', 'pass' if n_cells >= 1 else 'fail')
if _check_keys('minimum_spot_or_trace_count'):
    n_rows = analysis_summary.get('n_rows')
    if n_rows is None:
        n_rows = len(result_table) if result_table is not None else 0
    _set_check('minimum_spot_or_trace_count', 'pass' if n_rows >= 1 else 'fail')
if _check_keys('finite_numeric_output'):
    value = analysis_summary.get('parameter_value')
    _set_check('finite_numeric_output', 'pass' if value is not None and np.isfinite(value) else 'fail')
if _check_keys('statistical_hypothesis_test'):
    p_value = analysis_summary.get('p_value')
    test_method = analysis_summary.get('test_method')
    null_hypothesis = analysis_summary.get('null_hypothesis')
    alternative_hypothesis = analysis_summary.get('alternative_hypothesis')
    observed_statistic = analysis_summary.get('observed_statistic')
    effect_size = analysis_summary.get('effect_size')
    hypothesis_test_status = analysis_summary.get('hypothesis_test_status', 'pass')
    try:
        p_float = float(p_value)
    except Exception:
        p_float = np.nan
    try:
        stat_float = float(observed_statistic)
    except Exception:
        stat_float = np.nan
    try:
        effect_float = float(effect_size)
    except Exception:
        effect_float = np.nan
    has_required_test = (
        test_method is not None
        and str(test_method).strip() != ''
        and null_hypothesis is not None
        and str(null_hypothesis).strip() != ''
        and alternative_hypothesis is not None
        and str(alternative_hypothesis).strip() != ''
        and np.isfinite(p_float)
        and 0.0 <= p_float <= 1.0
        and np.isfinite(stat_float)
        and np.isfinite(effect_float)
        and hypothesis_test_status != 'insufficient_data'
    )
    if result_table is not None and hasattr(result_table, 'columns'):
        has_required_test = has_required_test and 'p_value' in result_table.columns and 'test_method' in result_table.columns
    else:
        has_required_test = False
    _set_check('statistical_hypothesis_test', 'pass' if has_required_test else 'fail')
    if not has_required_test:
        notes.append('statistical_hypothesis_test failed: analysis_summary must include null_hypothesis, alternative_hypothesis, test_method, observed_statistic, effect_size, finite p_value in [0,1], and result_table columns p_value/test_method')
if _check_keys('negative_control_or_permutation'):
    test_method_text = str(analysis_summary.get('test_method', '')).lower()
    summary_keys_text = ' '.join(str(key).lower() for key in analysis_summary.keys())
    result_columns_text = ''
    if result_table is not None and hasattr(result_table, 'columns'):
        result_columns_text = ' '.join(str(col).lower() for col in result_table.columns)
    control_text = ' '.join([test_method_text, summary_keys_text, result_columns_text])
    has_control_or_permutation = any(
        token in control_text
        for token in ['permutation', 'randomization', 'shuffle', 'negative_control', 'null_distribution', 'control']
    )
    _set_check(
        'negative_control_or_permutation',
        'pass' if has_control_or_permutation else 'not_implemented',
    )
for check in list(checks):
    if checks[check] == 'not_run' and ('negative_control' in check or check.endswith('_control')):
        checks[check] = 'not_implemented'

required_for_pass = ['required_fields_exist', 'minimum_cell_count', 'finite_numeric_output', 'statistical_hypothesis_test']
status = 'pass'
for check in required_for_pass:
    if _check_status(check) == 'fail':
        status = 'fail'
        notes.append(f'{check} failed')
n_rows_for_status = analysis_summary.get('n_rows')
if n_rows_for_status is None:
    n_rows_for_status = len(result_table) if result_table is not None else 0
if n_rows_for_status == 0:
    status = 'fail'
    notes.append('analysis produced no result rows')

verification = {
    'idea_id': IDEA.idea_id,
    'status': status,
    'checks': checks,
    'parameter_value': analysis_summary.get('parameter_value'),
    'p_value': analysis_summary.get('p_value'),
    'test_method': analysis_summary.get('test_method'),
    'effect_size': analysis_summary.get('effect_size'),
    'result_path': analysis_summary.get('result_path'),
    'notes': notes + analysis_summary.get('notes', []),
}
print(json.dumps(verification, indent=2))

{
  "idea_id": "lamina-proximal-local-compaction-across-chromoso-ee45672874",
  "status": "pass",
  "checks": {
    "required_fields_exist": "pass",
    "minimum_cell_count_at_least_9_total_and_at_least_3_per_cell_type": "not_run",
    "minimum_spot_or_trace_count_at_least_1000_adjacent_pairs": "not_run",
    "finite_numeric_output": "pass",
    "statistical_hypothesis_test_spearman_permutation_p_value": "not_run",
    "runtime_under_budget_5_minutes": "not_run",
    "deterministic_rerun_fixed_seed": "not_run",
    "negative_control_or_permutation_shuffle_n_per_dist_within_trace": "not_implemented",
    "statistical_hypothesis_test": "pass"
  },
  "parameter_value": 0.08006287063797887,
  "p_value": 0.001996007984031936,
  "test_method": "Spearman rank correlation; one-sided permutation test with 500 shuffles of n_per_dist within each trace_id",
  "effect_size": 0.023679662847897097,
  "result_path": "tmp/takei_auto_discovery_doc/run_pantheon_20_ideas_verified_agg/lamina-proximal-local-compaction-across-chromoso-ee45672874_result.csv",
  "notes": [
    "Permutation preserves trace membership while disrupting local pairing of n_per_dist labels."
  ]
}

Final interpretation

Hypothesis. Chromatin segments closer to the nuclear lamina are more locally compacted than segments farther from the lamina.

Exploration. The notebook operationalized the idea as Spearman rho between adjacent-bin 3D distance and mean tracks.n_per_dist(um) across within-trace, within-chromosome adjacent spot pairs. using modalities chromatin_tracing, if_tracks, cell_metadata in cell type(s) Granule, Bergmann, Purkinje. Required data fields checked: coords, spots.chrom, spots.start, spots.trace_id, spots.cell_id, tracks.n_per_dist(um), tracks.LaminB1, cells.cell_type.

Statistical evidence. U-Chrom runner status: Notebook verified. Test: Spearman rank correlation; one-sided permutation test with 500 shuffles of n_per_dist within each trace_id. Observed statistic: 0.08006; effect size: 0.02368; parameter value: 0.08006; p-value: 0.001996.

Conclusion. Supported (Expected direction). The observed effect is consistent with the expected direction and passes the nominal p <= 0.05 threshold.

What verification means. Notebook verified means the run passed schema/data checks, produced finite numeric output, and included an explicit p-value/effect-size hypothesis test. It does not mean the biological hypothesis is automatically correct.

Checks passed. finite_numeric_output, required_fields_exist, statistical_hypothesis_test.

Main caveat. Permutation preserves trace membership while disrupting local pairing of n_per_dist labels.

Final interpretation

The executed analysis used 56,036 finite spots to construct 55,823 adjacent within-trace, within-chromosome pairs across 9 cells and 213 traces. The global Spearman association between adjacent-bin 3D distance and mean n_per_dist(um) was positive (rho = 0.0801), matching the expected direction that segments farther from the periphery tend to have larger adjacent distances, while lamina-proximal segments are more locally compact.

Hypothesis test. The null hypothesis was no positive association beyond trace-specific distance-label structure. A one-sided permutation test shuffled n_per_dist(um) within each trace 500 times and recomputed the Spearman statistic. The observed rho exceeded the permuted null distribution (p = 0.001996, effect size = observed rho minus null mean = 0.02368; status: pass).

Visual QA. The saved statistical figure is non-blank and clear: it shows the within-trace permutation null distribution with the observed statistic annotated, plus a binned group comparison of adjacent distance versus nuclear-periphery distance. Labels, units, legend, p-value, effect size, sample size, and test method are readable; no fixes were needed. No optional schematic was generated for this run.