Record verified TCGA slide batch upload

Update the upload ledger after SLURM job 8375671.

metadata/upload_status.json

@@ -1,7 +1,7 @@
 {
   "schema_version": 1,
   "manifest_type": "tcga_atlas_upload_status_partial",
-  "generated_utc": "2026-09-29T21:15:45.833682+00:00",
+  "generated_utc": "2026-09-29T21:32:13.821274+00:00",
   "dataset_root": "/N/project/hancock/tcga_upload_stage_slide_v0_1",
   "hub_target": "IUCompPath/TRACE",
   "omitted_models": {
@@ -9,7 +9,7 @@
     "resnet50": "Removed from this upload plan; local completion is not trusted."
   },
   "upload_policy": {
-    "upload_performed": false,
+    "upload_performed": true,
     "unit": "one SLURM upload job per batch of model/project/magnification groups",
     "recommended_batching": "model-first; group cancer projects only when needed",
     "status_values": [
@@ -78,7 +78,7 @@
       "local_ready": 64
     },
     "local_ready_groups": 64,
-    "uploaded_groups": 0,
+    "uploaded_groups": 64,
     "failed_groups": 0,
     "excluded_groups": 0,
     "not_available_groups": 0,
@@ -88,7 +88,9 @@
     "local_ready_slide_count_unique": 11668,
     "local_ready_compressed_file_size_bytes": 152218294,
     "local_ready_estimated_uncompressed_bytes": 113224230,
-    "validation_non_ok": 0
+    "validation_non_ok": 0,
+    "pending_upload_groups": 0,
+    "upload_failed_groups": 0
   },
   "statistics": {
     "by_model": {
@@ -308,7 +310,90 @@
       }
     }
   },
-  "upload_jobs": [],
+  "upload_jobs": [
+    {
+      "job_id": "8375671",
+      "state": "completed",
+      "submitted_utc": null,
+      "completed_utc": "2026-09-29T21:32:13.821274+00:00",
+      "revision": "main",
+      "commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "models": [
+        "gigapath_slide",
+        "titan"
+      ],
+      "groups": [
+        "TCGA-ACC/gigapath_slide/20x",
+        "TCGA-ACC/titan/20x",
+        "TCGA-BLCA/gigapath_slide/20x",
+        "TCGA-BLCA/titan/20x",
+        "TCGA-BRCA/gigapath_slide/20x",
+        "TCGA-BRCA/titan/20x",
+        "TCGA-CESC/gigapath_slide/20x",
+        "TCGA-CESC/titan/20x",
+        "TCGA-CHOL/gigapath_slide/20x",
+        "TCGA-CHOL/titan/20x",
+        "TCGA-COAD/gigapath_slide/20x",
+        "TCGA-COAD/titan/20x",
+        "TCGA-DLBC/gigapath_slide/20x",
+        "TCGA-DLBC/titan/20x",
+        "TCGA-ESCA/gigapath_slide/20x",
+        "TCGA-ESCA/titan/20x",
+        "TCGA-GBM/gigapath_slide/20x",
+        "TCGA-GBM/titan/20x",
+        "TCGA-HNSC/gigapath_slide/20x",
+        "TCGA-HNSC/titan/20x",
+        "TCGA-KICH/gigapath_slide/20x",
+        "TCGA-KICH/titan/20x",
+        "TCGA-KIRC/gigapath_slide/20x",
+        "TCGA-KIRC/titan/20x",
+        "TCGA-KIRP/gigapath_slide/20x",
+        "TCGA-KIRP/titan/20x",
+        "TCGA-LGG/gigapath_slide/20x",
+        "TCGA-LGG/titan/20x",
+        "TCGA-LIHC/gigapath_slide/20x",
+        "TCGA-LIHC/titan/20x",
+        "TCGA-LUAD/gigapath_slide/20x",
+        "TCGA-LUAD/titan/20x",
+        "TCGA-LUSC/gigapath_slide/20x",
+        "TCGA-LUSC/titan/20x",
+        "TCGA-MESO/gigapath_slide/20x",
+        "TCGA-MESO/titan/20x",
+        "TCGA-OV/gigapath_slide/20x",
+        "TCGA-OV/titan/20x",
+        "TCGA-PAAD/gigapath_slide/20x",
+        "TCGA-PAAD/titan/20x",
+        "TCGA-PCPG/gigapath_slide/20x",
+        "TCGA-PCPG/titan/20x",
+        "TCGA-PRAD/gigapath_slide/20x",
+        "TCGA-PRAD/titan/20x",
+        "TCGA-READ/gigapath_slide/20x",
+        "TCGA-READ/titan/20x",
+        "TCGA-SARC/gigapath_slide/20x",
+        "TCGA-SARC/titan/20x",
+        "TCGA-SKCM/gigapath_slide/20x",
+        "TCGA-SKCM/titan/20x",
+        "TCGA-STAD/gigapath_slide/20x",
+        "TCGA-STAD/titan/20x",
+        "TCGA-TGCT/gigapath_slide/20x",
+        "TCGA-TGCT/titan/20x",
+        "TCGA-THCA/gigapath_slide/20x",
+        "TCGA-THCA/titan/20x",
+        "TCGA-THYM/gigapath_slide/20x",
+        "TCGA-THYM/titan/20x",
+        "TCGA-UCEC/gigapath_slide/20x",
+        "TCGA-UCEC/titan/20x",
+        "TCGA-UCS/gigapath_slide/20x",
+        "TCGA-UCS/titan/20x",
+        "TCGA-UVM/gigapath_slide/20x",
+        "TCGA-UVM/titan/20x"
+      ],
+      "group_count": 64,
+      "shard_count": 64,
+      "row_count": 23336,
+      "compressed_file_size_bytes": 152218294
+    }
+  ],
   "cells": [
     {
       "project_id": "TCGA-ACC",
@@ -316,11 +401,11 @@
       "magnification": "20x",
       "group": "TCGA-ACC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -345,11 +430,11 @@
       "magnification": "20x",
       "group": "TCGA-BLCA/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -374,11 +459,11 @@
       "magnification": "20x",
       "group": "TCGA-BRCA/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -403,11 +488,11 @@
       "magnification": "20x",
       "group": "TCGA-CESC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -432,11 +517,11 @@
       "magnification": "20x",
       "group": "TCGA-CHOL/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -461,11 +546,11 @@
       "magnification": "20x",
       "group": "TCGA-COAD/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -490,11 +575,11 @@
       "magnification": "20x",
       "group": "TCGA-DLBC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -519,11 +604,11 @@
       "magnification": "20x",
       "group": "TCGA-ESCA/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -548,11 +633,11 @@
       "magnification": "20x",
       "group": "TCGA-GBM/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -577,11 +662,11 @@
       "magnification": "20x",
       "group": "TCGA-HNSC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -606,11 +691,11 @@
       "magnification": "20x",
       "group": "TCGA-KICH/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -635,11 +720,11 @@
       "magnification": "20x",
       "group": "TCGA-KIRC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -664,11 +749,11 @@
       "magnification": "20x",
       "group": "TCGA-KIRP/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -693,11 +778,11 @@
       "magnification": "20x",
       "group": "TCGA-LGG/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -722,11 +807,11 @@
       "magnification": "20x",
       "group": "TCGA-LIHC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -751,11 +836,11 @@
       "magnification": "20x",
       "group": "TCGA-LUAD/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -780,11 +865,11 @@
       "magnification": "20x",
       "group": "TCGA-LUSC/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -809,11 +894,11 @@
       "magnification": "20x",
       "group": "TCGA-MESO/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -838,11 +923,11 @@
       "magnification": "20x",
       "group": "TCGA-OV/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -867,11 +952,11 @@
       "magnification": "20x",
       "group": "TCGA-PAAD/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -896,11 +981,11 @@
       "magnification": "20x",
       "group": "TCGA-PCPG/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -925,11 +1010,11 @@
       "magnification": "20x",
       "group": "TCGA-PRAD/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -954,11 +1039,11 @@
       "magnification": "20x",
       "group": "TCGA-READ/gigapath_slide/20x",
       "status": "local_ready",
-      "uploaded": false,
-      "upload_job_id": null,
-      "uploaded_revision": null,
-      "uploaded_commit": null,
-      "last_upload_attempt_utc": null,
+      "uploaded": true,
+      "upload_job_id": "8375671",
+      "uploaded_revision": "main",
+      "uploaded_commit": "c22054d69263ae2e7359751f0eaccf909b18e0c6",
+      "last_upload_attempt_utc": "2026-09-29T21:32:13.821274+00:00",
       "exclusion_reason": null,
       "quarantine": null,
       "feature_types": [
@@ -983,11 +1068,11 @@
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