7ROI_outputs / a1_bootstrap /bootstrap_summary.json
Mohith202's picture
Add files using upload-large-folder tool
29742ab verified
Raw
History Blame Contribute Delete
8.7 kB
{
"alignment_config": {
"alignment_subjects": [],
"hrf_model": "glover",
"overwrite": true,
"run_alignment": true,
"trim_end_tr": 0,
"trim_start_tr": 0
},
"alignment_qc": {
"alignment_subjects": [
"sub-01",
"sub-02",
"sub-04",
"sub-05",
"sub-06",
"sub-07",
"sub-08",
"sub-09",
"sub-10",
"sub-11",
"sub-12",
"sub-13",
"sub-14",
"sub-15",
"sub-16",
"sub-17",
"sub-19",
"sub-20",
"sub-21",
"sub-22",
"sub-23",
"sub-24",
"sub-25",
"sub-26"
],
"analysis_mask_path": "/home/mohith/ds005345/outputs/a1_bootstrap/analysis_mask.nii.gz",
"bold_n_tr_max": 608,
"bold_n_tr_min": 608,
"bold_n_voxels_max": 509764,
"bold_n_voxels_min": 509764,
"hrf_model": "glover",
"n_bold_rows": 96,
"n_regressor_rows": 316,
"regressor_n_features_max": 4096,
"regressor_n_features_min": 2048,
"regressor_n_tr_max": 608,
"regressor_n_tr_min": 608,
"trim_end_tr": 0,
"trim_start_tr": 0
},
"allowed_runs": [
1,
2,
3,
4
],
"analysis_mask_qc": {
"intersection_voxels": 548786,
"left_hemisphere_voxels": 251575,
"n_manifest_rows": 96,
"n_resampled_run_masks": 0,
"n_run_masks": 96,
"reference_orientation": "RAS",
"reference_shape": [
97,
115,
97
],
"right_hemisphere_voxels": 251575,
"run_mask_method": "first_volume_nonzero",
"run_mask_voxels_max": 933608,
"run_mask_voxels_min": 797667,
"symmetric_mask_voxels": 509764
},
"annotation_dir": "/home/mohith/ds005345/data/annotation",
"annotation_qc": {
"annotation_dir": "/home/mohith/ds005345/data/annotation",
"duration_s_max": 4.279999999999973,
"duration_s_min": 0.05999999999994543,
"enable_mixed_fallback": true,
"n_manifest_rows": 96,
"n_run_templates": 4,
"n_unified_rows": 156816,
"run_word_counts": {
"1": 1753,
"2": 1514,
"3": 1753,
"4": 1514
},
"source_resolution": [
{
"annotation_used_mixed_fallback": false,
"provenance": "fixed_run_source:single_female_word_information.csv",
"run": 1,
"source_word_table": "single_female_word_information.csv"
},
{
"annotation_used_mixed_fallback": false,
"provenance": "fixed_run_source:single_male_word_information.csv",
"run": 2,
"source_word_table": "single_male_word_information.csv"
},
{
"annotation_used_mixed_fallback": true,
"provenance": "mixed_run_fallback_source:single_female_word_information.csv",
"run": 3,
"source_word_table": "single_female_word_information.csv"
},
{
"annotation_used_mixed_fallback": true,
"provenance": "mixed_run_fallback_source:single_male_word_information.csv",
"run": 4,
"source_word_table": "single_male_word_information.csv"
}
],
"time_scale_seconds": 0.01
},
"artifacts": {
"accepted_manifest": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/accepted_manifest.csv",
"alignment_bold_summary": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/alignment_bold_summary.csv",
"alignment_output_dir": "/home/mohith/ds005345/outputs/a1_bootstrap/alignment_inputs",
"alignment_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/alignment_qc.json",
"alignment_regressor_summary": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/alignment_regressor_summary.csv",
"analysis_mask": "/home/mohith/ds005345/outputs/a1_bootstrap/analysis_mask.nii.gz",
"analysis_mask_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/analysis_mask_qc.json",
"annotation_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/annotation_qc.json",
"annotation_source_resolution": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/annotation_source_resolution.csv",
"core_roi_coverage": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/core_roi_coverage.csv",
"core_roi_failures": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/core_roi_failures.csv",
"core_roi_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/core_roi_qc.json",
"csv_output_dir": "/home/mohith/ds005345/outputs/a1_bootstrap/csv",
"feature_output_dir": "/home/mohith/ds005345/outputs/a1_bootstrap/features",
"feature_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/feature_extraction_qc.json",
"feature_summary": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/feature_extraction_summary.csv",
"manifest_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/manifest_qc.json",
"protocol_b_within_run": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/protocol_b_within_run_splits.csv",
"protocol_b_within_run_skipped": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/protocol_b_within_run_skipped.csv",
"protocol_c_cross_subject": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/protocol_c_cross_subject_folds.csv",
"rejected_manifest": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/rejected_manifest.csv",
"run_event_templates": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/run_event_templates.csv",
"run_mask_qc": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/run_mask_qc.csv",
"unified_word_events": "/home/mohith/ds005345/outputs/a1_bootstrap/csv/unified_word_events.csv"
},
"base_dir": "/home/mohith/ds005345",
"core_roi_config": {
"allow_core_roi_failures": false,
"min_voxels_required": 20
},
"core_roi_gate_passed": true,
"core_roi_qc": {
"core_roi_pre_mask_voxels": {
"AG_TPJ": 448,
"BA44": 448,
"BA45": 424,
"BA47": 648,
"TP": 472,
"aSTS": 448,
"pSTS": 552
},
"min_voxels_required": 20,
"n_coverage_rows": 672,
"n_fail_rows": 0,
"n_subject_run_failures": 0,
"retention_ratio_max": 1.0,
"retention_ratio_min": 1.0
},
"cross_subject_protocol": {
"canonical_runs": [
1,
2,
3,
4
],
"condition_labels": [
"single_female",
"single_male",
"mixed_female",
"mixed_male"
],
"participant_run_info_path": "/home/mohith/ds005345/code/assets/participant_run_info.json",
"test_subject_count": 4
},
"csv_output_dir": "/home/mohith/ds005345/outputs/a1_bootstrap/csv",
"data_dir": "/home/mohith/ds005345/data",
"deep_nifti_integrity_check": false,
"derivatives_dir": "/home/mohith/ds005345/derivatives",
"excluded_subjects": [
"sub-03",
"sub-18"
],
"feature_extraction_config": {
"device": "auto",
"dry_run": false,
"dry_run_hidden_dim": 128,
"dry_run_n_layers": 3,
"layer_indices": null,
"local_files_only": false,
"max_words_per_chunk": 256,
"overwrite": true,
"run_feature_extraction": true
},
"feature_qc": {
"dry_run": false,
"hidden_dim_max": 4096,
"hidden_dim_min": 2048,
"max_words_per_chunk": 256,
"n_layers_max": 33,
"n_layers_min": 17,
"n_model_run_rows": 12,
"n_models": 3,
"unmatched_words_total": 0
},
"manifest_qc": {
"allowed_runs": [
1,
2,
3,
4
],
"deep_nifti_integrity_check": false,
"excluded_subjects": [
"sub-03",
"sub-18"
],
"mixed_fallback_enabled": true,
"n_accepted": 96,
"n_candidates": 141,
"n_rejected": 45,
"n_unique_subjects": 24,
"n_volumes_max": 608,
"n_volumes_min": 608,
"reject_counts": {
"excluded_subject": 8,
"filename_pattern_mismatch": 28,
"folder_filename_subject_mismatch": 8,
"run_not_in_whitelist": 1
},
"tr_seconds_max": 1.0,
"tr_seconds_min": 1.0,
"tr_seconds_unique": [
1.0
]
},
"mixed_fallback_enabled": true,
"model_selection": {
"config_path": "/home/mohith/ds005345/code/config/model_profiles.json",
"description": "Current A1 text model set (Qwen3 1.7B + Llama 3.2 1B + LLaDA 8B Instruct)",
"profile": "current",
"source": "model_config"
},
"models_locked": [
"Qwen/Qwen3-1.7B",
"meta-llama/Llama-3.2-1B",
"GSAI-ML/LLaDA-8B-Instruct"
],
"output_dir": "/home/mohith/ds005345/outputs/a1_bootstrap",
"roi_mask_dir": "/home/mohith/ds005345/code/assets/roi_masks",
"run_mask_config": {
"epsilon": 1e-06,
"method": "first_volume_nonzero"
},
"split_summary": {
"n_manifest_rows": 96,
"n_protocol_b_skipped": 0,
"n_protocol_b_splits": 96,
"n_protocol_c_folds": 24,
"n_subjects_manifest": 24
},
"time_scale_seconds": 0.01,
"within_protocol": {
"gap_tr": 8,
"min_test_volumes": 20,
"min_train_volumes": 40,
"test_fraction": 0.2
}
}