diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2572-01Z-00-DX1.a89d5edf-1466-40b8-929f-d8b5554f31b8__f0a1be6d8d61.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2572-01Z-00-DX1.a89d5edf-1466-40b8-929f-d8b5554f31b8__f0a1be6d8d61.json new file mode 100644 index 0000000000000000000000000000000000000000..952ee5536b230e02e47b859dab60197b82864926 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2572-01Z-00-DX1.a89d5edf-1466-40b8-929f-d8b5554f31b8__f0a1be6d8d61.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:15:46+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_52/TCGA-41-2572-01Z-00-DX1.a89d5edf-1466-40b8-929f-d8b5554f31b8.svs", + "ext": ".svs", + "id": "TCGA-41-2572-01Z-00-DX1.a89d5edf-1466-40b8-929f-d8b5554f31b8.svs__f0a1be6d8d61", + "name": 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"reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "62f27ecf5bf3", + "duration_s": 14.073333978652954, + "error": null, + "finished_at": "2026-08-28T22:06:26+0200", + "finished_epoch": 1787947586.8438327, + "result": "completed", + "started_at": "2026-08-28T22:06:12+0200", + "started_epoch": 1787947572.7704988 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 11128, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-41-2572-01Z-00-DX1.a89d5edf-1466-40b8-929f-d8b5554f31b8_patches.h5" + }, + "features_path": { + "bytes": 91208, + "exists": true, + "path": 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b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__2d499d34f46f.json new file mode 100644 index 0000000000000000000000000000000000000000..b874d8eabbc75205990db6b54cf772b14ca67d47 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__2d499d34f46f.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 127579, + 68403 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T22:56:30+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_52/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.svs", + "ext": ".svs", + "id": "TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.svs__2d499d34f46f", + "name": "TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 56816, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "0d9add7b93b4", + "duration_s": 112.0071632862091, + "error": null, + "finished_at": "2026-08-28T22:51:13+0200", + "finished_epoch": 1787950273.9371276, + "result": "completed", + "started_at": "2026-08-28T22:49:21+0200", + "started_epoch": 1787950161.9299643 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 56816, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11_patches.h5" + }, + "features_path": { + "bytes": 2264984, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 200119, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "57713f6d9220", + "duration_s": 0.14353346824645996, + "error": null, + "finished_at": "2026-08-28T22:56:30+0200", + "finished_epoch": 1787950590.989868, + "result": "completed", + "started_at": "2026-08-28T22:56:30+0200", + "started_epoch": 1787950590.8463345 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 2264984, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.h5" + }, + "slide_features_path": { + "bytes": 89992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:56:30+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__3c11d9a5fe63.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__3c11d9a5fe63.json index 6d0868a3d5553bcf89860d93b5f1c83981dbe362..d1c5b6373a921102afe31d26267772adff1a1e5f 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__3c11d9a5fe63.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__3c11d9a5fe63.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:15+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:51+0200", "started_epoch": 1787718411.8352325 + }, + { + "attempt_id": "a24b6b961436", + "duration_s": 0.8743236064910889, + "error": null, + "finished_at": "2026-08-28T15:09:57+0200", + "finished_epoch": 1787922597.519303, + "result": "completed", + "started_at": "2026-08-28T15:09:56+0200", + "started_epoch": 1787922596.6449795 + }, + { + "attempt_id": "868cf6128afe", + "duration_s": 0.6672306060791016, + "error": null, + "finished_at": "2026-08-28T15:17:31+0200", + "finished_epoch": 1787923051.8021562, + "result": "completed", + "started_at": "2026-08-28T15:17:31+0200", + "started_epoch": 1787923051.1349256 + }, + { + "attempt_id": "b4a57dfe5be8", + "duration_s": 0.6707124710083008, + "error": null, + "finished_at": "2026-08-28T15:24:50+0200", + "finished_epoch": 1787923490.09496, + "result": "completed", + "started_at": "2026-08-28T15:24:49+0200", + "started_epoch": 1787923489.4242475 + }, + { + "attempt_id": "9682827f5157", + "duration_s": 0.6986112594604492, + "error": null, + "finished_at": "2026-08-28T15:32:48+0200", + "finished_epoch": 1787923968.1966124, + "result": "completed", + "started_at": "2026-08-28T15:32:47+0200", + "started_epoch": 1787923967.498001 + }, + { + "attempt_id": "2ab7f36434ee", + "duration_s": 0.670701265335083, + "error": null, + "finished_at": "2026-08-28T15:40:15+0200", + "finished_epoch": 1787924415.4983363, + "result": "completed", + "started_at": "2026-08-28T15:40:14+0200", + "started_epoch": 1787924414.827635 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 794232, + "bytes": 25080, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11_patches.h5" }, "coords_viz": { - "bytes": 102922, + "bytes": 103455, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:15+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__4465f427c3e6.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__4465f427c3e6.json new file mode 100644 index 0000000000000000000000000000000000000000..4a6de9f01000bbf7973367cb9a0224847d8392ed --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2573-01Z-00-DX1.aaa4085e-c7e0-4c03-8033-780f407b0d11__4465f427c3e6.json @@ -0,0 +1,86 @@ +{ + 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"/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e_patches.h5" + }, + "features_path": { + "bytes": 1804872, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 246307, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + 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+ }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:56:31+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__c99e2bc87037.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__c99e2bc87037.json index 54397f935b5212b1d320cfd31517ddc06807457a..59670c4e6124be0441bb75254d3008dfe4a80bbe 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__c99e2bc87037.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__c99e2bc87037.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:16+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:52+0200", "started_epoch": 1787718412.8367612 + }, + { + "attempt_id": "a5d5e7397f03", + "duration_s": 0.9039590358734131, + "error": null, + "finished_at": "2026-08-28T15:09:58+0200", + "finished_epoch": 1787922598.4950001, + "result": "completed", + "started_at": "2026-08-28T15:09:57+0200", + "started_epoch": 1787922597.591041 + }, + { + "attempt_id": "8eaa8cf00186", + "duration_s": 0.5574424266815186, + "error": null, + "finished_at": "2026-08-28T15:17:32+0200", + "finished_epoch": 1787923052.4068959, + "result": "completed", + "started_at": "2026-08-28T15:17:31+0200", + "started_epoch": 1787923051.8494534 + }, + { + "attempt_id": "9792d09cb1dd", + "duration_s": 0.542222261428833, + "error": null, + "finished_at": "2026-08-28T15:24:50+0200", + "finished_epoch": 1787923490.6804774, + "result": "completed", + "started_at": "2026-08-28T15:24:50+0200", + "started_epoch": 1787923490.1382551 + }, + { + "attempt_id": "ed6ed6e466d8", + "duration_s": 0.6140375137329102, + "error": null, + "finished_at": "2026-08-28T15:32:48+0200", + "finished_epoch": 1787923968.861055, + "result": "completed", + "started_at": "2026-08-28T15:32:48+0200", + "started_epoch": 1787923968.2470174 + }, + { + "attempt_id": "e0493ca81bab", + "duration_s": 0.5626621246337891, + "error": null, + "finished_at": "2026-08-28T15:40:16+0200", + "finished_epoch": 1787924416.1123717, + "result": "completed", + "started_at": "2026-08-28T15:40:15+0200", + "started_epoch": 1787924415.5497096 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 564800, + "bytes": 25080, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e_patches.h5" }, "coords_viz": { - "bytes": 133823, + "bytes": 129352, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:16+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__e547f8ffce01.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__e547f8ffce01.json new file mode 100644 index 0000000000000000000000000000000000000000..9754f405bdcac7926f5185ef22f82092c3842baa --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e__e547f8ffce01.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 97843, + 68917 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:40:20+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": 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+ "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "5a7d83103b6e", + "duration_s": 55.03545641899109, + "error": null, + "finished_at": "2026-08-28T21:38:22+0200", + "finished_epoch": 1787945902.0940914, + "result": "completed", + "started_at": "2026-08-28T21:37:27+0200", + "started_epoch": 1787945847.058635 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e_patches.h5" + }, + "features_path": { + "bytes": 587688, + "exists": true, + "path": 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"2026-08-28T21:40:20+0200", + "started_epoch": 1787946020.7741086 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 587688, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e.h5" + }, + "slide_features_path": { + "bytes": 58208, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-41-2575-01Z-00-DX1.cdce8f65-3ac2-4e03-a655-9176ea272f7e.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:40:20+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__2728d3889d58.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__2728d3889d58.json new file mode 100644 index 0000000000000000000000000000000000000000..374bf0063e67fb0335dc37487b61485c2a925f1a --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__2728d3889d58.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T23:20:38+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_52/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs", + "ext": ".svs", + "id": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs__2728d3889d58", + "name": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 434338, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:20:38+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__45a39da695d2.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__45a39da695d2.json new file mode 100644 index 0000000000000000000000000000000000000000..b67fa7cd76b539e648e2738cb6eaf9d9f3ade5a1 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__45a39da695d2.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:07:57+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_52/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs", + "ext": ".svs", + "id": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs__45a39da695d2", + "name": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "771ac1ef336c", + "duration_s": 28.16663646697998, + "error": null, + "finished_at": "2026-08-28T22:07:57+0200", + "finished_epoch": 1787947677.1475027, + "result": "completed", + "started_at": "2026-08-28T22:07:28+0200", + "started_epoch": 1787947648.9808662 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + }, + "features_path": { + "bytes": 236232, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/features_conch_v1/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 434338, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:07:57+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__4f3bbf667e63.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__4f3bbf667e63.json new file mode 100644 index 0000000000000000000000000000000000000000..90ca6f9fb0bef0af2ce22b8a851f20730f540172 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__4f3bbf667e63.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 47003, + 51259 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:40:20+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579310/wsi-cache-15579310/gpu_0/batch_52/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs", + "ext": ".svs", + "id": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs__4f3bbf667e63", + "name": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "399cce2d91f7", + "duration_s": 31.545335292816162, + "error": null, + "finished_at": "2026-08-28T21:38:53+0200", + "finished_epoch": 1787945933.6571722, + "result": "completed", + "started_at": "2026-08-28T21:38:22+0200", + "started_epoch": 1787945902.111837 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + }, + 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1787946020.865937, + "result": "completed", + "started_at": "2026-08-28T21:40:20+0200", + "started_epoch": 1787946020.8310645 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 338632, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.h5" + }, + "slide_features_path": { + "bytes": 52976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:40:20+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__5168fabe45f9.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__5168fabe45f9.json new file mode 100644 index 0000000000000000000000000000000000000000..7d6cc875650a620815bcc4b302b4d98a8629fb13 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__5168fabe45f9.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T23:08:39+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_52/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs", + "ext": ".svs", + "id": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs__5168fabe45f9", + "name": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 11016, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 434338, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:08:39+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__62887015f091.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__62887015f091.json new file mode 100644 index 0000000000000000000000000000000000000000..5c3c5ae08cecbbdd19f57e347787e84d7046e9ba --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__62887015f091.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 47003, + 51259 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T22:56:31+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_52/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs", + "ext": ".svs", + "id": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs__62887015f091", + "name": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 34976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "c1a041f8fe7f", + "duration_s": 74.4266722202301, + "error": null, + "finished_at": "2026-08-28T22:54:01+0200", + "finished_epoch": 1787950441.840498, + "result": "completed", + "started_at": "2026-08-28T22:52:47+0200", + "started_epoch": 1787950367.4138258 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 34976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + }, + "features_path": { + "bytes": 1161464, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 434338, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "90251958a9d0", + "duration_s": 0.09552264213562012, + "error": null, + "finished_at": "2026-08-28T22:56:31+0200", + "finished_epoch": 1787950591.2389357, + "result": "completed", + "started_at": "2026-08-28T22:56:31+0200", + "started_epoch": 1787950591.143413 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 1161464, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.h5" + }, + "slide_features_path": { + "bytes": 70152, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:56:31+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__a75d0b504ce8.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__a75d0b504ce8.json index 4e25458fb2fdb4184998b7e440510d13f3343ab0..7c5cdf2627144af5af3b1fe26bc4c93a51882112 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__a75d0b504ce8.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__a75d0b504ce8.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:16+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:53+0200", "started_epoch": 1787718413.6685636 + }, + { + "attempt_id": "902de43c7005", + "duration_s": 0.35708045959472656, + "error": null, + "finished_at": "2026-08-28T15:09:58+0200", + "finished_epoch": 1787922598.8988457, + "result": "completed", + "started_at": "2026-08-28T15:09:58+0200", + "started_epoch": 1787922598.5417652 + }, + { + "attempt_id": "0ce27c212570", + "duration_s": 0.2653627395629883, + "error": null, + "finished_at": "2026-08-28T15:17:32+0200", + "finished_epoch": 1787923052.7039633, + "result": "completed", + "started_at": "2026-08-28T15:17:32+0200", + "started_epoch": 1787923052.4386005 + }, + { + "attempt_id": "1ccba2b328f2", + "duration_s": 0.2581489086151123, + "error": null, + "finished_at": "2026-08-28T15:24:50+0200", + "finished_epoch": 1787923490.9664435, + "result": "completed", + "started_at": "2026-08-28T15:24:50+0200", + "started_epoch": 1787923490.7082946 + }, + { + "attempt_id": "2c44b9af62a2", + "duration_s": 0.2876760959625244, + "error": null, + "finished_at": "2026-08-28T15:32:49+0200", + "finished_epoch": 1787923969.2130427, + "result": "completed", + "started_at": "2026-08-28T15:32:48+0200", + "started_epoch": 1787923968.9253666 + }, + { + "attempt_id": "942b53c223db", + "duration_s": 0.26851987838745117, + "error": null, + "finished_at": "2026-08-28T15:40:16+0200", + "finished_epoch": 1787924416.415197, + "result": "completed", + "started_at": "2026-08-28T15:40:16+0200", + "started_epoch": 1787924416.146677 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 421376, + "bytes": 17800, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b_patches.h5" }, "coords_viz": { - "bytes": 236661, + "bytes": 214983, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:16+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__bbb1bc36f7ae.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__bbb1bc36f7ae.json new file mode 100644 index 0000000000000000000000000000000000000000..5db8838f5e8b7e60fba8d30eeb8fc5af4f753fe8 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b__bbb1bc36f7ae.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T22:13:06+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_52/TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs", + "ext": ".svs", + "id": "TCGA-41-3392-01Z-00-DX1.2d3dba82-f1cb-4589-bad1-f27ca388049b.svs__bbb1bc36f7ae", + "name": 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b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__b2aad8dfa73f.json new file mode 100644 index 0000000000000000000000000000000000000000..fbab631e55f229ded92dd2e0b9d8d549a13f1936 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__b2aad8dfa73f.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T23:20:38+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_52/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47.svs", + "ext": ".svs", + "id": "TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47.svs__b2aad8dfa73f", + "name": "TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 173078, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:20:38+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__c594b8bff688.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__c594b8bff688.json index 07687cf8905f3f2ba27db7f411e8026b5ebd6155..4ecfeeb5aa0b3897ef5d62f74dc6b042f8ad5949 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__c594b8bff688.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__c594b8bff688.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:16+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:54+0200", "started_epoch": 1787718414.1514006 + }, + { + "attempt_id": "e4b4dda2c1b9", + "duration_s": 0.36687302589416504, + "error": null, + "finished_at": "2026-08-28T15:09:59+0200", + "finished_epoch": 1787922599.316663, + "result": "completed", + "started_at": "2026-08-28T15:09:58+0200", + "started_epoch": 1787922598.94979 + }, + { + "attempt_id": "7f735e62072b", + "duration_s": 0.30052685737609863, + "error": null, + "finished_at": "2026-08-28T15:17:33+0200", + "finished_epoch": 1787923053.043151, + "result": "completed", + "started_at": "2026-08-28T15:17:32+0200", + "started_epoch": 1787923052.742624 + }, + { + "attempt_id": "3437287a81f1", + "duration_s": 0.26282620429992676, + "error": null, + "finished_at": "2026-08-28T15:24:51+0200", + "finished_epoch": 1787923491.259291, + "result": "completed", + "started_at": "2026-08-28T15:24:50+0200", + "started_epoch": 1787923490.9964647 + }, + { + "attempt_id": "b24b42b66a5d", + "duration_s": 0.28627610206604004, + "error": null, + "finished_at": "2026-08-28T15:32:49+0200", + "finished_epoch": 1787923969.5563996, + "result": "completed", + "started_at": "2026-08-28T15:32:49+0200", + "started_epoch": 1787923969.2701235 + }, + { + "attempt_id": "fe81337b1250", + "duration_s": 0.2718667984008789, + "error": null, + "finished_at": "2026-08-28T15:40:16+0200", + "finished_epoch": 1787924416.7216156, + "result": "completed", + "started_at": "2026-08-28T15:40:16+0200", + "started_epoch": 1787924416.4497488 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 262808, + "bytes": 17800, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47_patches.h5" }, "coords_viz": { - "bytes": 93321, + "bytes": 92318, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:16+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__da20db957278.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__da20db957278.json new file mode 100644 index 0000000000000000000000000000000000000000..45e9112f06a8843534f795cc0324024e5ae89f0f --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3393-01Z-00-DX1.f3a44b0d-dad5-4e0a-ac85-fe2ac191ee47__da20db957278.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 40288, + 78841 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:40:20+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": 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"reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 21152, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "769e298323b7", + "duration_s": 58.647884368896484, + "error": null, + "finished_at": "2026-08-28T21:40:20+0200", + "finished_epoch": 1787946020.0830672, + 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"2026-08-28T23:20:38+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_52/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs", + "ext": ".svs", + "id": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs__1ad006136b2a", + "name": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 21152, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 180889, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:20:38+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__59431abb066b.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__59431abb066b.json index 7c25b429f7795b7111af8dd0642ef130d6ccf99f..08579309aee943436f771c36091546898f96a7fb 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__59431abb066b.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__59431abb066b.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:17+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:54+0200", "started_epoch": 1787718414.5975652 + }, + { + "attempt_id": "8bd652ac78fa", + "duration_s": 0.6353495121002197, + "error": null, + "finished_at": "2026-08-28T15:09:59+0200", + "finished_epoch": 1787922599.9980843, + "result": "completed", + "started_at": "2026-08-28T15:09:59+0200", + "started_epoch": 1787922599.3627348 + }, + { + "attempt_id": "dd002dfb8acb", + "duration_s": 0.49423885345458984, + "error": null, + "finished_at": "2026-08-28T15:17:33+0200", + "finished_epoch": 1787923053.575204, + "result": "completed", + "started_at": "2026-08-28T15:17:33+0200", + "started_epoch": 1787923053.080965 + }, + { + "attempt_id": "49d93a9842f0", + "duration_s": 0.4744069576263428, + "error": null, + "finished_at": "2026-08-28T15:24:51+0200", + "finished_epoch": 1787923491.7619805, + "result": "completed", + "started_at": "2026-08-28T15:24:51+0200", + "started_epoch": 1787923491.2875736 + }, + { + "attempt_id": "b17c6e2dc266", + "duration_s": 0.5379204750061035, + "error": null, + "finished_at": "2026-08-28T15:32:50+0200", + "finished_epoch": 1787923970.1309988, + "result": "completed", + "started_at": "2026-08-28T15:32:49+0200", + "started_epoch": 1787923969.5930784 + }, + { + "attempt_id": "9079576ff669", + "duration_s": 0.5878629684448242, + "error": null, + "finished_at": "2026-08-28T15:40:17+0200", + "finished_epoch": 1787924417.357225, + "result": "completed", + "started_at": "2026-08-28T15:40:16+0200", + "started_epoch": 1787924416.769362 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 706304, + "bytes": 21152, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33_patches.h5" }, "coords_viz": { - "bytes": 92477, + "bytes": 83019, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:17+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__5c56169a6b7b.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__5c56169a6b7b.json new file mode 100644 index 0000000000000000000000000000000000000000..89597fe0101aa98ec98fba7e07b2e2ee7818a4cf --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__5c56169a6b7b.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 117987, + 56660 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T22:56:31+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_52/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs", + "ext": ".svs", + "id": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs__5c56169a6b7b", + "name": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 49536, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "438569a721b9", + "duration_s": 108.54539585113525, + "error": null, + "finished_at": "2026-08-28T22:56:29+0200", + "finished_epoch": 1787950589.3062785, + "result": "completed", + "started_at": "2026-08-28T22:54:40+0200", + "started_epoch": 1787950480.7608826 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 49536, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33_patches.h5" + }, + "features_path": { + "bytes": 1951416, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 180889, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "a23558ec54a7", + "duration_s": 0.12293863296508789, + "error": null, + "finished_at": "2026-08-28T22:56:31+0200", + "finished_epoch": 1787950591.474768, + "result": "completed", + "started_at": "2026-08-28T22:56:31+0200", + "started_epoch": 1787950591.3518293 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 1951416, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.h5" + }, + "slide_features_path": { + "bytes": 84712, + "exists": true, + "path": 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"2026-08-28T22:15:30+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_52/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs", + "ext": ".svs", + "id": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs__872a800470ed", + "name": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "keep": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 49536, + "exists": true, + "path": 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"exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_keep/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 180889, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:15:30+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__9cf6cc008026.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__9cf6cc008026.json new file mode 100644 index 0000000000000000000000000000000000000000..5bea4e0725ee467c3d038236e1cb73e2d5e8280d --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33__9cf6cc008026.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:08:52+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_52/TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs", + "ext": ".svs", + "id": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33.svs__9cf6cc008026", + "name": "TCGA-41-3915-01Z-00-DX1.0f98e7eb-cdb0-49c2-967c-242268cfbd33", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped 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b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__4dc84cb550b3.json new file mode 100644 index 0000000000000000000000000000000000000000..ef29fae9f111b89b2fbe590e8b1f646313f81a56 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__4dc84cb550b3.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T22:16:03+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.svs", + "ext": ".svs", + "id": "TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.svs__4dc84cb550b3", + "name": "TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped 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"features_path": { + "bytes": 390856, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 112050, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "bc3a605eec6f", + "duration_s": 0.2546346187591553, + "error": null, + "finished_at": "2026-08-28T23:12:25+0200", + "finished_epoch": 1787951545.9423363, + "result": "completed", + "started_at": "2026-08-28T23:12:25+0200", + "started_epoch": 1787951545.6877017 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 390856, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.h5" + }, + "slide_features_path": { + "bytes": 52976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:25+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c7410773cff7.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c7410773cff7.json index 017f86e5a7bde07dae88f658545b6350ecd3a9d5..0c9efb76af686de3967434cb70c15c812bf8f5b7 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c7410773cff7.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c7410773cff7.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:17+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:55+0200", "started_epoch": 1787718415.4037814 + }, + { + "attempt_id": "02e41e805dcb", + "duration_s": 0.22529363632202148, + "error": null, + "finished_at": "2026-08-28T15:10:00+0200", + "finished_epoch": 1787922600.266382, + "result": "completed", + "started_at": "2026-08-28T15:10:00+0200", + "started_epoch": 1787922600.0410883 + }, + { + "attempt_id": "150bb95dffda", + "duration_s": 0.19496965408325195, + "error": null, + "finished_at": "2026-08-28T15:17:33+0200", + "finished_epoch": 1787923053.8081634, + "result": "completed", + "started_at": "2026-08-28T15:17:33+0200", + "started_epoch": 1787923053.6131938 + }, + { + "attempt_id": "e58859264d0c", + "duration_s": 0.16519975662231445, + "error": null, + "finished_at": "2026-08-28T15:24:51+0200", + "finished_epoch": 1787923491.9560509, + "result": "completed", + "started_at": "2026-08-28T15:24:51+0200", + "started_epoch": 1787923491.790851 + }, + { + "attempt_id": "a8afded0a191", + "duration_s": 0.18497586250305176, + "error": null, + "finished_at": "2026-08-28T15:32:50+0200", + "finished_epoch": 1787923970.3575187, + "result": "completed", + "started_at": "2026-08-28T15:32:50+0200", + "started_epoch": 1787923970.1725428 + }, + { + "attempt_id": "da6e65296639", + "duration_s": 0.20359468460083008, + "error": null, + "finished_at": "2026-08-28T15:40:17+0200", + "finished_epoch": 1787924417.6057317, + "result": "completed", + "started_at": "2026-08-28T15:40:17+0200", + "started_epoch": 1787924417.402137 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 127568, + "bytes": 11160, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c_patches.h5" }, "coords_viz": { - "bytes": 56329, + "bytes": 55699, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:17+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c88129e7b0a5.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c88129e7b0a5.json new file mode 100644 index 0000000000000000000000000000000000000000..f3c53f220e2f25c0d3c0627c3188b15264257c8a --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__c88129e7b0a5.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T23:29:18+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": 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+ }, + "patch_features:keep": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "edc76d693cbf", + "duration_s": 25.42369556427002, + "error": null, + "finished_at": "2026-08-28T23:29:18+0200", + "finished_epoch": 1787952558.5059698, + "result": "completed", + "started_at": "2026-08-28T23:28:53+0200", + "started_epoch": 1787952533.0822742 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 11160, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c_patches.h5" + }, + "features_path": { + "bytes": 136296, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_keep/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.h5" + } + }, + "reason": null, + "status": 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b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c__df4fe7cddf79.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:19:43+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_53/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.svs", + "ext": ".svs", + "id": "TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c.svs__df4fe7cddf79", + "name": "TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 10744, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/patches/TCGA-41-4097-01Z-00-DX1.9d34ecf6-35db-4b8f-b7f8-f5ae4183a49c_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "d9a369fd40ab", + "duration_s": 14.967867136001587, + "error": null, + "finished_at": "2026-08-28T23:19:43+0200", + "finished_epoch": 1787951983.5325665, + "result": "completed", + "started_at": "2026-08-28T23:19:28+0200", + "started_epoch": 1787951968.5646994 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 10744, + "exists": true, + "path": 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"updated_at": "2026-08-28T23:19:43+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__346147e35b98.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__346147e35b98.json new file mode 100644 index 0000000000000000000000000000000000000000..33804c428f01c81d6da8beaa98084c62e9a58bbd --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__346147e35b98.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 141009, + 62428 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T23:12:26+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_53/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.svs", + 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+ "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:48:13+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__ef043db41882.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__ef043db41882.json index 9d884130b72fa728ceb791a36ee8779d3a93d29c..925a98fddb95bf5495086363ff4dd61ba4da40ee 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__ef043db41882.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__ef043db41882.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:17+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:55+0200", "started_epoch": 1787718415.748148 + }, + { + "attempt_id": "f5e673433d9e", + "duration_s": 0.4350597858428955, + "error": null, + "finished_at": "2026-08-28T15:10:00+0200", + "finished_epoch": 1787922600.7652025, + "result": "completed", + "started_at": "2026-08-28T15:10:00+0200", + "started_epoch": 1787922600.3301427 + }, + { + "attempt_id": "85d8b542a95a", + "duration_s": 0.2840285301208496, + "error": null, + "finished_at": "2026-08-28T15:17:34+0200", + "finished_epoch": 1787923054.1442988, + "result": "completed", + "started_at": "2026-08-28T15:17:33+0200", + "started_epoch": 1787923053.8602703 + }, + { + "attempt_id": "53c54e452482", + "duration_s": 0.2693197727203369, + "error": null, + "finished_at": "2026-08-28T15:24:52+0200", + "finished_epoch": 1787923492.2671492, + "result": "completed", + "started_at": "2026-08-28T15:24:51+0200", + "started_epoch": 1787923491.9978294 + }, + { + "attempt_id": "61030462aa33", + "duration_s": 0.32486510276794434, + "error": null, + "finished_at": "2026-08-28T15:32:50+0200", + "finished_epoch": 1787923970.7348068, + "result": "completed", + "started_at": "2026-08-28T15:32:50+0200", + "started_epoch": 1787923970.4099417 + }, + { + "attempt_id": "f2b3a7fc4b7b", + "duration_s": 0.27901506423950195, + "error": null, + "finished_at": "2026-08-28T15:40:17+0200", + "finished_epoch": 1787924417.9320252, + "result": "completed", + "started_at": "2026-08-28T15:40:17+0200", + "started_epoch": 1787924417.6530101 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 642832, + "bytes": 25080, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926_patches.h5" }, "coords_viz": { - "bytes": 89670, + "bytes": 84214, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:17+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__f2d9990f90e5.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__f2d9990f90e5.json new file mode 100644 index 0000000000000000000000000000000000000000..983777e42a9eef7787bff29eb762943a81129894 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926__f2d9990f90e5.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:09:46+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.svs", + "ext": ".svs", + "id": "TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.svs__f2d9990f90e5", + "name": "TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "663044ad5c7f", + "duration_s": 29.950214862823486, + "error": null, + "finished_at": "2026-08-28T22:09:46+0200", + "finished_epoch": 1787947786.7763946, + "result": "completed", + "started_at": "2026-08-28T22:09:16+0200", + "started_epoch": 1787947756.8261797 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926_patches.h5" + }, + "features_path": { + "bytes": 404392, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/features_conch_v1/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 179147, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-41-5651-01Z-00-DX1.84aa5ff7-d54c-43d7-8f03-c9012d303926.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:09:46+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__23394c680fd2.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__23394c680fd2.json new file mode 100644 index 0000000000000000000000000000000000000000..b7a79a54da812aa97b670c2ccabfa5a5f4c66e81 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__23394c680fd2.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:10:06+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.svs", + "ext": ".svs", + "id": "TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.svs__23394c680fd2", + "name": "TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "9fe733ff3b18", + "duration_s": 20.132344484329224, + "error": null, + "finished_at": "2026-08-28T22:10:06+0200", + "finished_epoch": 1787947806.9261985, + "result": "completed", + "started_at": "2026-08-28T22:09:46+0200", + "started_epoch": 1787947786.793854 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE_patches.h5" + }, + "features_path": { + "bytes": 205512, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/features_conch_v1/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 358325, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:10:06+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__760b99bee780.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__760b99bee780.json index bde0aa95b0a77d9018059a14574aa73bf5687008..e92908c23ecfef85493ad16289e5be1caaf774e4 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__760b99bee780.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__760b99bee780.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:18+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:56+0200", "started_epoch": 1787718416.3625906 + }, + { + "attempt_id": "b2ce0065c017", + "duration_s": 0.514108419418335, + "error": null, + "finished_at": "2026-08-28T15:10:01+0200", + "finished_epoch": 1787922601.32911, + "result": "completed", + "started_at": "2026-08-28T15:10:00+0200", + "started_epoch": 1787922600.8150015 + }, + { + "attempt_id": "c66b622f7539", + "duration_s": 0.43108034133911133, + "error": null, + "finished_at": "2026-08-28T15:17:34+0200", + "finished_epoch": 1787923054.6099212, + "result": "completed", + "started_at": "2026-08-28T15:17:34+0200", + "started_epoch": 1787923054.1788409 + }, + { + "attempt_id": "708ee4e9b1b7", + "duration_s": 0.4255199432373047, + "error": null, + "finished_at": "2026-08-28T15:24:52+0200", + "finished_epoch": 1787923492.7261305, + "result": "completed", + "started_at": "2026-08-28T15:24:52+0200", + "started_epoch": 1787923492.3006105 + }, + { + "attempt_id": "8fa430710a5d", + "duration_s": 0.4408266544342041, + "error": null, + "finished_at": "2026-08-28T15:32:51+0200", + "finished_epoch": 1787923971.2149453, + "result": "completed", + "started_at": "2026-08-28T15:32:50+0200", + "started_epoch": 1787923970.7741187 + }, + { + "attempt_id": "8b250c6c8240", + "duration_s": 0.4354884624481201, + "error": null, + "finished_at": "2026-08-28T15:40:18+0200", + "finished_epoch": 1787924418.406715, + "result": "completed", + "started_at": "2026-08-28T15:40:17+0200", + "started_epoch": 1787924417.9712265 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 376792, + "bytes": 17800, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE_patches.h5" }, "coords_viz": { - "bytes": 216073, + "bytes": 171708, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:18+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__93010128a57b.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__93010128a57b.json new file mode 100644 index 0000000000000000000000000000000000000000..6231657ad0a084d7c029cc0104472c724bba765a --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__93010128a57b.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 51791, + 44865 + ], + "level_count": 3, + "mag": 40, + "mpp": 0.2527 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T23:12:26+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": 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"2026-08-28T23:12:26+0200", + "started_epoch": 1787951546.1562524 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 996488, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.h5" + }, + "slide_features_path": { + "bytes": 65488, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:26+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9R-01Z-00-DX1.841135BA-8CAA-4666-A7EA-00FA992D6DFE__a72d8e210e52.json 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segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 222815, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:21:25+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__6c38249df50b.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__6c38249df50b.json new file mode 100644 index 0000000000000000000000000000000000000000..56dbc590b98bf087601ea3d131044308530ce2d3 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__6c38249df50b.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:33+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.svs", + "ext": ".svs", + "id": "TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.svs__6c38249df50b", + "name": "TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 73992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 222815, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:15:33+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__7869a91e8f0e.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__7869a91e8f0e.json index 3184985547a335542f10b308f055422d25697fc1..948da67ca4cc79979ec7286ea61f16cd33984753 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__7869a91e8f0e.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__7869a91e8f0e.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:18+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:57+0200", "started_epoch": 1787718417.101636 + }, + { + "attempt_id": "5a08d5868e0a", + "duration_s": 0.8053004741668701, + "error": null, + "finished_at": "2026-08-28T15:10:02+0200", + "finished_epoch": 1787922602.1748948, + "result": "completed", + "started_at": "2026-08-28T15:10:01+0200", + "started_epoch": 1787922601.3695943 + }, + { + "attempt_id": "9190b393162b", + "duration_s": 0.3703031539916992, + "error": null, + "finished_at": "2026-08-28T15:17:35+0200", + "finished_epoch": 1787923055.0108569, + "result": "completed", + "started_at": "2026-08-28T15:17:34+0200", + "started_epoch": 1787923054.6405537 + }, + { + "attempt_id": "0dedf338c03c", + "duration_s": 0.3525416851043701, + "error": null, + "finished_at": "2026-08-28T15:24:53+0200", + "finished_epoch": 1787923493.1078327, + "result": "completed", + "started_at": "2026-08-28T15:24:52+0200", + "started_epoch": 1787923492.755291 + }, + { + "attempt_id": "4fbda1de0ef7", + "duration_s": 0.401639461517334, + "error": null, + "finished_at": "2026-08-28T15:32:51+0200", + "finished_epoch": 1787923971.651773, + "result": "completed", + "started_at": "2026-08-28T15:32:51+0200", + "started_epoch": 1787923971.2501335 + }, + { + "attempt_id": "04951799d09a", + "duration_s": 0.3637678623199463, + "error": null, + "finished_at": "2026-08-28T15:40:18+0200", + "finished_epoch": 1787924418.8038604, + "result": "completed", + "started_at": "2026-08-28T15:40:18+0200", + "started_epoch": 1787924418.4400926 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 1239104, + "bytes": 27968, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" }, "coords_viz": { - "bytes": 173757, + "bytes": 128711, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:18+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__ac0ee17b9c33.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__ac0ee17b9c33.json new file mode 100644 index 0000000000000000000000000000000000000000..7ebce06b77df74d0ef7838f71158b50c800f7253 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__ac0ee17b9c33.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 105575, + 70645 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2527 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T23:12:26+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_53/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.svs", + "ext": ".svs", + "id": "TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.svs__ac0ee17b9c33", + "name": "TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 73992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "8a83e9087149", + "duration_s": 98.15592789649963, + "error": null, + "finished_at": "2026-08-28T23:01:21+0200", + "finished_epoch": 1787950881.4419806, + "result": "completed", + "started_at": "2026-08-28T22:59:43+0200", + "started_epoch": 1787950783.2860527 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 73992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" + }, + "features_path": { + "bytes": 3213768, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 222815, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "9534736430ff", + "duration_s": 0.249589204788208, + "error": null, + "finished_at": "2026-08-28T23:12:26+0200", + "finished_epoch": 1787951546.5413692, + "result": "completed", + "started_at": "2026-08-28T23:12:26+0200", + "started_epoch": 1787951546.29178 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 3213768, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.h5" + }, + "slide_features_path": { + "bytes": 109168, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:26+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__d2ac5f382c76.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__d2ac5f382c76.json new file mode 100644 index 0000000000000000000000000000000000000000..d1893ecf87cf8c374dc050f0a6e198c97f6d2a86 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3__d2ac5f382c76.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T23:31:20+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_53/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.svs", + "ext": ".svs", + "id": "TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.svs__d2ac5f382c76", + "name": "TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "keep": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 27968, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:keep": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "904e6b883d4e", + "duration_s": 47.34680962562561, + "error": null, + "finished_at": "2026-08-28T23:31:20+0200", + "finished_epoch": 1787952680.343185, + "result": "completed", + "started_at": "2026-08-28T23:30:32+0200", + "started_epoch": 1787952632.9963753 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 27968, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3_patches.h5" + }, + "features_path": { + "bytes": 881960, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_keep/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 222815, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-4W-AA9S-01Z-00-DX1.97DA6C9F-ACD3-4A7B-894D-5EA4A4F4E5B3.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:31:20+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__07fdb25d9b55.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__07fdb25d9b55.json new file mode 100644 index 0000000000000000000000000000000000000000..a61f8367f85ec999ebd5d09b0fd1e4fd5ae54a15 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__07fdb25d9b55.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.svs", + "ext": ".svs", + "id": "TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.svs__07fdb25d9b55", + 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"reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 71376, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "f1ab9abd2cd5", + "duration_s": 94.21229553222656, + "error": null, + "finished_at": "2026-08-28T23:02:55+0200", + "finished_epoch": 1787950975.684339, + "result": "completed", + "started_at": "2026-08-28T23:01:21+0200", + "started_epoch": 1787950881.4720435 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 71376, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45_patches.h5" + }, + "features_path": { + "bytes": 3039576, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 105677, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "cdf016340062", + "duration_s": 0.19358253479003906, + "error": null, + "finished_at": "2026-08-28T23:12:26+0200", + "finished_epoch": 1787951546.761808, + "result": "completed", + "started_at": "2026-08-28T23:12:26+0200", + "started_epoch": 1787951546.5682254 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 3039576, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.h5" + }, + "slide_features_path": { + "bytes": 104504, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:26+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__e265e34455f6.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__e265e34455f6.json index 626a6cabb98d1e2c8b22679b64be6dc26dc8819b..e7195733ea69bbabbd8294ed62d87ebf3ae5e6dc 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__e265e34455f6.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45__e265e34455f6.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:19+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:57+0200", "started_epoch": 1787718417.8610587 + }, + { + "attempt_id": "6b4b3ffc7873", + "duration_s": 0.46890878677368164, + "error": null, + "finished_at": "2026-08-28T15:10:02+0200", + "finished_epoch": 1787922602.6970615, + "result": "completed", + "started_at": "2026-08-28T15:10:02+0200", + "started_epoch": 1787922602.2281528 + }, + { + "attempt_id": "4c77d4e82715", + "duration_s": 0.21119403839111328, + "error": null, + "finished_at": "2026-08-28T15:17:35+0200", + "finished_epoch": 1787923055.263793, + "result": "completed", + "started_at": "2026-08-28T15:17:35+0200", + "started_epoch": 1787923055.052599 + }, + { + "attempt_id": "117468b19604", + "duration_s": 0.1997218132019043, + "error": null, + "finished_at": "2026-08-28T15:24:53+0200", + "finished_epoch": 1787923493.3421955, + "result": "completed", + "started_at": "2026-08-28T15:24:53+0200", + "started_epoch": 1787923493.1424737 + }, + { + "attempt_id": "a3518385fe5a", + "duration_s": 0.23647856712341309, + "error": null, + "finished_at": "2026-08-28T15:32:51+0200", + "finished_epoch": 1787923971.9326954, + "result": "completed", + "started_at": "2026-08-28T15:32:51+0200", + "started_epoch": 1787923971.6962168 + }, + { + "attempt_id": "dba9823f394e", + "duration_s": 0.20790767669677734, + "error": null, + "finished_at": "2026-08-28T15:40:19+0200", + "finished_epoch": 1787924419.0510266, + "result": "completed", + "started_at": "2026-08-28T15:40:18+0200", + "started_epoch": 1787924418.843119 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 1070528, + "bytes": 28000, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45_patches.h5" }, "coords_viz": { - "bytes": 73857, + "bytes": 64032, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-4W-AA9T-01Z-00-DX1.A59F28A0-EE7F-44DE-931F-36E59C9F1A45.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:19+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__2955c21fc461.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__2955c21fc461.json new file mode 100644 index 0000000000000000000000000000000000000000..1c3d325b779760a2c09bd72fd50aaa3964cee754 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__2955c21fc461.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:11:55+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.svs", + "ext": ".svs", + "id": "TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.svs__2955c21fc461", + "name": "TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 34976, + "exists": true, + "path": 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"exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/features_conch_v1/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 322992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:11:55+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__4bc643aa305d.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__4bc643aa305d.json new file mode 100644 index 0000000000000000000000000000000000000000..24492acd02e42ae8cd56ffb65187f4f8e0758e8e --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__4bc643aa305d.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T23:33:40+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_53/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.svs", + "ext": ".svs", + "id": "TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.svs__4bc643aa305d", + "name": "TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "keep": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 34976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:keep": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "b451fa1f62a5", + "duration_s": 91.78354406356812, + "error": null, + "finished_at": "2026-08-28T23:33:40+0200", + "finished_epoch": 1787952820.532287, + "result": "completed", + "started_at": "2026-08-28T23:32:08+0200", + "started_epoch": 1787952728.7487428 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 34976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c_patches.h5" + }, + "features_path": { + "bytes": 1198328, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_keep/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 322992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:33:40+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__5feaa1171d44.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__5feaa1171d44.json new file mode 100644 index 0000000000000000000000000000000000000000..f32cc0923367544a9f8872ad33bd10618d650d92 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__5feaa1171d44.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 117028, + 84541 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:48:13+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": 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"/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 322992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "2d50c0291736", + "duration_s": 0.048021793365478516, + "error": null, + "finished_at": "2026-08-28T21:48:13+0200", + "finished_epoch": 1787946493.5904791, + "result": "completed", + "started_at": "2026-08-28T21:48:13+0200", + "started_epoch": 1787946493.5424573 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 1198328, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.h5" + }, + "slide_features_path": { + "bytes": 70152, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:48:13+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__6782ff99ef05.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__6782ff99ef05.json index 5ee6bed3746d93bca725e7a8d54ae9fc4df1b75b..81b83ea34912fd4188bde46c69206c4edb8a6f4b 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__6782ff99ef05.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__6782ff99ef05.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:19+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:26:58+0200", "started_epoch": 1787718418.429893 + }, + { + "attempt_id": "b1365e294a27", + "duration_s": 1.1673352718353271, + "error": null, + "finished_at": "2026-08-28T15:10:03+0200", + "finished_epoch": 1787922603.9432142, + "result": "completed", + "started_at": "2026-08-28T15:10:02+0200", + "started_epoch": 1787922602.775879 + }, + { + "attempt_id": "8f83cfaa1a5c", + "duration_s": 0.8662276268005371, + "error": null, + "finished_at": "2026-08-28T15:17:36+0200", + "finished_epoch": 1787923056.199342, + "result": "completed", + "started_at": "2026-08-28T15:17:35+0200", + "started_epoch": 1787923055.3331144 + }, + { + "attempt_id": "8467b84c32b8", + "duration_s": 0.8363034725189209, + "error": null, + "finished_at": "2026-08-28T15:24:54+0200", + "finished_epoch": 1787923494.2336109, + "result": "completed", + "started_at": "2026-08-28T15:24:53+0200", + "started_epoch": 1787923493.3973074 + }, + { + "attempt_id": "74aa5b3cf189", + "duration_s": 0.9981937408447266, + "error": null, + "finished_at": "2026-08-28T15:32:53+0200", + "finished_epoch": 1787923973.0491247, + "result": "completed", + "started_at": "2026-08-28T15:32:52+0200", + "started_epoch": 1787923972.050931 + }, + { + "attempt_id": "49e8a6cbd161", + "duration_s": 0.8593895435333252, + "error": null, + "finished_at": "2026-08-28T15:40:19+0200", + "finished_epoch": 1787924419.9700816, + "result": "completed", + "started_at": "2026-08-28T15:40:19+0200", + "started_epoch": 1787924419.110692 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 1422240, + "bytes": 34976, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c_patches.h5" }, "coords_viz": { - "bytes": 201590, + "bytes": 165549, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:19+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__bb7240bdc942.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__bb7240bdc942.json new file mode 100644 index 0000000000000000000000000000000000000000..cedbfca7a36dc7b38a0295882a0328179e4e3a6d --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__bb7240bdc942.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:22:03+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_53/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.svs", + "ext": ".svs", + "id": "TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.svs__bb7240bdc942", + "name": 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"/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:22:03+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__c0098ce4ed8c.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__c0098ce4ed8c.json new file mode 100644 index 0000000000000000000000000000000000000000..282e4e598c80a748f0cfb021fe6d1f785ac19d29 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__c0098ce4ed8c.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 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"segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 322992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:15:34+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__e6609245f05b.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5910-01Z-00-DX1.c823aaad-81c4-4fa6-8aa9-3b447eed912c__e6609245f05b.json new file mode 100644 index 0000000000000000000000000000000000000000..d1741db7f42abd36f612a5a85b7fa9cc40081ad6 --- /dev/null +++ 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+ }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:27+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__4a2a65ed878c.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__4a2a65ed878c.json new file mode 100644 index 0000000000000000000000000000000000000000..c74abb067b164f7493e3a3f3dbd5e23d6fb5a1ba --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__4a2a65ed878c.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:12:11+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.svs", + "ext": ".svs", + "id": 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skipping.", + "outputs": { + "contour_jpg": { + "bytes": 30043, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:12:11+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__4b83f5a988e5.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__4b83f5a988e5.json new file mode 100644 index 0000000000000000000000000000000000000000..5551c05921ed6632f4e4db0d2b778a6731c25bf1 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__4b83f5a988e5.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:22:11+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_53/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.svs", + "ext": ".svs", + "id": "TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.svs__4b83f5a988e5", + "name": "TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 10792, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/patches/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "105e709dc16d", + "duration_s": 8.123200416564941, + "error": null, + "finished_at": "2026-08-28T23:22:11+0200", + "finished_epoch": 1787952131.8461044, + "result": "completed", + "started_at": "2026-08-28T23:22:03+0200", + "started_epoch": 1787952123.722904 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 10792, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/patches/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061_patches.h5" + }, + "features_path": { + "bytes": 47864, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/features_conch_v1/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 30043, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:22:11+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__50c7cdaa73a7.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__50c7cdaa73a7.json index f8ca69444b58cf50484166271532ea0a0de06bf9..bf300ba2fccf590b67dbf888f8edcf6d8c75885c 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__50c7cdaa73a7.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__50c7cdaa73a7.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:20+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:27:00+0200", "started_epoch": 1787718420.2543976 + }, + { + "attempt_id": "70273d0db269", + "duration_s": 0.2204594612121582, + "error": null, + "finished_at": "2026-08-28T15:10:04+0200", + "finished_epoch": 1787922604.2015092, + "result": "completed", + "started_at": "2026-08-28T15:10:03+0200", + "started_epoch": 1787922603.9810498 + }, + { + "attempt_id": "6bd3a396f1e4", + "duration_s": 0.1126406192779541, + "error": null, + "finished_at": "2026-08-28T15:17:36+0200", + "finished_epoch": 1787923056.340097, + "result": "completed", + "started_at": "2026-08-28T15:17:36+0200", + "started_epoch": 1787923056.2274563 + }, + { + "attempt_id": "ad9c94924d6c", + "duration_s": 0.12369322776794434, + "error": null, + "finished_at": "2026-08-28T15:24:54+0200", + "finished_epoch": 1787923494.381599, + "result": "completed", + "started_at": "2026-08-28T15:24:54+0200", + "started_epoch": 1787923494.2579057 + }, + { + "attempt_id": "ac3fd85d70f3", + "duration_s": 0.12632465362548828, + "error": null, + "finished_at": "2026-08-28T15:32:53+0200", + "finished_epoch": 1787923973.2125216, + "result": "completed", + "started_at": "2026-08-28T15:32:53+0200", + "started_epoch": 1787923973.086197 + }, + { + "attempt_id": "a2c9b45d471a", + "duration_s": 0.11466503143310547, + "error": null, + "finished_at": "2026-08-28T15:40:20+0200", + "finished_epoch": 1787924420.1160386, + "result": "completed", + "started_at": "2026-08-28T15:40:20+0200", + "started_epoch": 1787924420.0013735 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 91616, + "bytes": 11240, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061_patches.h5" }, "coords_viz": { - "bytes": 18195, + "bytes": 19024, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:20+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__c91da237426f.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__c91da237426f.json new file mode 100644 index 0000000000000000000000000000000000000000..9316244aab94f911ae48d8dbc18f464a822aa324 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061__c91da237426f.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.svs", + "ext": ".svs", + "id": "TCGA-81-5911-01Z-00-DX1.343731a3-b399-461e-aa3e-7b22e583a061.svs__c91da237426f", + "name": 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"exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_keep/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 67027, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:34:27+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__7450cfb38d08.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__7450cfb38d08.json index 50372ec54d019e92f39928ddee061cadec8d0952..89111dbd4b6e8819ae5bf8ca531c6c1a7ea4f940 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__7450cfb38d08.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__7450cfb38d08.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:20+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:27:00+0200", "started_epoch": 1787718420.514067 + }, + { + "attempt_id": "b449d86769c6", + "duration_s": 0.174208402633667, + "error": null, + "finished_at": "2026-08-28T15:10:04+0200", + "finished_epoch": 1787922604.4070551, + "result": "completed", + "started_at": "2026-08-28T15:10:04+0200", + "started_epoch": 1787922604.2328467 + }, + { + "attempt_id": "b64efc50502f", + "duration_s": 0.14191532135009766, + "error": null, + "finished_at": "2026-08-28T15:17:36+0200", + "finished_epoch": 1787923056.5074177, + "result": "completed", + "started_at": "2026-08-28T15:17:36+0200", + "started_epoch": 1787923056.3655024 + }, + { + "attempt_id": "920c3e1a1b8f", + "duration_s": 0.1360008716583252, + "error": null, + "finished_at": "2026-08-28T15:24:54+0200", + "finished_epoch": 1787923494.538678, + "result": "completed", + "started_at": "2026-08-28T15:24:54+0200", + "started_epoch": 1787923494.402677 + }, + { + "attempt_id": "ebd19a392411", + "duration_s": 0.14949917793273926, + "error": null, + "finished_at": "2026-08-28T15:32:53+0200", + "finished_epoch": 1787923973.3918946, + "result": "completed", + "started_at": "2026-08-28T15:32:53+0200", + "started_epoch": 1787923973.2423954 + }, + { + "attempt_id": "8950e2402481", + "duration_s": 0.14763283729553223, + "error": null, + "finished_at": "2026-08-28T15:40:20+0200", + "finished_epoch": 1787924420.2901962, + "result": "completed", + "started_at": "2026-08-28T15:40:20+0200", + "started_epoch": 1787924420.1425633 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 73992, + "bytes": 10920, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6_patches.h5" }, "coords_viz": { - "bytes": 39706, + "bytes": 40029, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:20+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__8e39894c53b3.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__8e39894c53b3.json new file mode 100644 index 0000000000000000000000000000000000000000..8ed5a0fdb4eb97c2af69bb1b86ef88a0bcbf12e3 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__8e39894c53b3.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:12:21+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.svs", + "ext": ".svs", + "id": "TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.svs__8e39894c53b3", + "name": 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"/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:12:21+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__908a01bfc93f.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__908a01bfc93f.json new file mode 100644 index 0000000000000000000000000000000000000000..133a11f716d750ed3590c3497a2db4dc062bb58a --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__908a01bfc93f.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 66187, + 23773 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.252 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:48:13+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579310/wsi-cache-15579310/gpu_0/batch_53/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.svs", + "ext": ".svs", + "id": "TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.svs__908a01bfc93f", + "name": "TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 10920, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "7f3b6ada5947", + "duration_s": 21.606812715530396, + "error": null, + "finished_at": "2026-08-28T21:45:49+0200", + "finished_epoch": 1787946349.1040313, + "result": "completed", + "started_at": "2026-08-28T21:45:27+0200", + "started_epoch": 1787946327.4972186 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 10920, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6_patches.h5" + }, + "features_path": { + "bytes": 89976, + 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"started_at": "2026-08-28T21:48:13+0200", + "started_epoch": 1787946493.6527207 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 89976, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.h5" + }, + "slide_features_path": { + "bytes": 45696, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:48:13+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__9d5a961fe3f9.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__9d5a961fe3f9.json new file mode 100644 index 0000000000000000000000000000000000000000..065bb5d2e8680241b0aebfd928a8c8434c4380d2 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6__9d5a961fe3f9.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.svs", + "ext": ".svs", + "id": "TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.svs__9d5a961fe3f9", + "name": "TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 67027, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-87-5896-01Z-00-DX1.abb74502-c77b-43b6-8897-9f42ccaca6c6.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + 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b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__21c1fbb34f84.json new file mode 100644 index 0000000000000000000000000000000000000000..742348984d528fd39c542bf6f03b06336e87a056 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__21c1fbb34f84.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:12:47+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs", + "ext": ".svs", + "id": "TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs__21c1fbb34f84", + "name": "TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 27824, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "27014a11dc80", + "duration_s": 26.483614683151245, + "error": null, + "finished_at": "2026-08-28T22:12:47+0200", + "finished_epoch": 1787947967.9163346, + "result": "completed", + "started_at": "2026-08-28T22:12:21+0200", + "started_epoch": 1787947941.43272 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 27824, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8_patches.h5" + }, + "features_path": { + "bytes": 583832, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/features_conch_v1/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 221432, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:12:47+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__53db30decc6c.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__53db30decc6c.json new file mode 100644 index 0000000000000000000000000000000000000000..090fa9d1d114ad030265cc40a32f756799ceb169 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__53db30decc6c.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 119951, + 94728 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2472 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T23:12:27+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_53/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs", + "ext": ".svs", + "id": "TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs__53db30decc6c", + "name": "TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 66728, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "be0ccc76c557", + "duration_s": 88.61918783187866, + "error": null, + "finished_at": "2026-08-28T23:08:53+0200", + "finished_epoch": 1787951333.205603, + "result": "completed", + "started_at": "2026-08-28T23:07:24+0200", + "started_epoch": 1787951244.586415 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 66728, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8_patches.h5" + }, + "features_path": { + "bytes": 2866424, + "exists": true, + "path": 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"2026-08-28T23:12:27+0200", + "started_epoch": 1787951547.3534617 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 2866424, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.h5" + }, + "slide_features_path": { + "bytes": 101888, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:27+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__71cb6c001d33.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__71cb6c001d33.json index 0df562c153f533ade92822ccb9d2f7a45c4575f4..4f0895dbdbecc0be96727469f97ab2880b914b75 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__71cb6c001d33.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__71cb6c001d33.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:20+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:27:00+0200", "started_epoch": 1787718420.8132596 + }, + { + "attempt_id": "e40c97c44135", + "duration_s": 0.8635470867156982, + "error": null, + "finished_at": "2026-08-28T15:10:05+0200", + "finished_epoch": 1787922605.3432815, + "result": "completed", + "started_at": "2026-08-28T15:10:04+0200", + "started_epoch": 1787922604.4797344 + }, + { + "attempt_id": "4d468541fe83", + "duration_s": 0.5211400985717773, + "error": null, + "finished_at": "2026-08-28T15:17:37+0200", + "finished_epoch": 1787923057.0777428, + "result": "completed", + "started_at": "2026-08-28T15:17:36+0200", + "started_epoch": 1787923056.5566027 + }, + { + "attempt_id": "09ae8cbe7dd5", + "duration_s": 0.5070528984069824, + "error": null, + "finished_at": "2026-08-28T15:24:55+0200", + "finished_epoch": 1787923495.0921435, + "result": "completed", + "started_at": "2026-08-28T15:24:54+0200", + "started_epoch": 1787923494.5850906 + }, + { + "attempt_id": "ca7a43ac7133", + "duration_s": 0.5588054656982422, + 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a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__928cde986d7e.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__928cde986d7e.json new file mode 100644 index 0000000000000000000000000000000000000000..a14037046f03d36894252c2c8b6cdfeb804415af --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__928cde986d7e.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 119951, + 94728 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2472 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:48:13+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579310/wsi-cache-15579310/gpu_0/batch_53/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs", + "ext": ".svs", + "id": 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"message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 221432, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "336ec71d55ec", + "duration_s": 0.03862166404724121, + "error": null, + "finished_at": "2026-08-28T21:48:13+0200", + "finished_epoch": 1787946493.7387168, + "result": "completed", + "started_at": "2026-08-28T21:48:13+0200", + "started_epoch": 1787946493.7000952 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 847992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.h5" + }, + "slide_features_path": { + "bytes": 62872, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:48:13+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__a520d01ee261.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__a520d01ee261.json new file mode 100644 index 0000000000000000000000000000000000000000..5db9f2105a2a29e5ce28a796a6779ad23cb7f0d7 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__a520d01ee261.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:22:32+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_53/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs", + "ext": ".svs", + "id": "TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs__a520d01ee261", + "name": "TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; 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"updated_at": "2026-08-28T23:22:32+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__fb971b173931.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__fb971b173931.json new file mode 100644 index 0000000000000000000000000000000000000000..07236d9820f68cefea52931d71754eb9264678b1 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8__fb971b173931.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T23:35:05+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_53/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.svs", + "ext": ".svs", + "id": 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"error": null, + "finished_at": "2026-08-28T23:35:05+0200", + "finished_epoch": 1787952905.275373, + "result": "completed", + "started_at": "2026-08-28T23:34:27+0200", + "started_epoch": 1787952867.091493 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 27792, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8_patches.h5" + }, + "features_path": { + "bytes": 847992, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_keep/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 221432, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-OX-A56R-01Z-00-DX1.6AC88CAE-73F3-4ECF-AE06-E347574EB6E8.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:35:05+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__2f4f9ee28ef6.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__2f4f9ee28ef6.json new file mode 100644 index 0000000000000000000000000000000000000000..298ad34e545ce9da179a2f896178f70e628a993a --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__2f4f9ee28ef6.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.svs__2f4f9ee28ef6", + "name": "TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 32360, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 157797, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:15:34+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__5b4a716f9488.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__5b4a716f9488.json new file mode 100644 index 0000000000000000000000000000000000000000..eb2caff8f031529a38ef105a55f45d267f894f4c --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__5b4a716f9488.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T23:35:24+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_53/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.svs__5b4a716f9488", + "name": "TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "keep": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; 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"updated_at": "2026-08-28T23:35:24+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__99e6102cc57f.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__99e6102cc57f.json new file mode 100644 index 0000000000000000000000000000000000000000..bb6fb716263784e5f202cfe1addf0775cb29b892 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__99e6102cc57f.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:13:08+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.svs", + "ext": ".svs", + "id": 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32360, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "66e5cd73bc1a", + "duration_s": 42.37167406082153, + "error": null, + "finished_at": "2026-08-28T23:09:35+0200", + "finished_epoch": 1787951375.5997064, + "result": "completed", + "started_at": "2026-08-28T23:08:53+0200", + "started_epoch": 1787951333.2280324 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 32360, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C_patches.h5" + }, + 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a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__a9375c71a39b.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__a9375c71a39b.json new file mode 100644 index 0000000000000000000000000000000000000000..cd46694fa87e2b919a6ac5b76ac2cdfbf4ffb2e8 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__a9375c71a39b.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 75695, + 65923 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2527 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:48:13+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579310/wsi-cache-15579310/gpu_0/batch_53/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.svs", + "ext": ".svs", + "id": 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"message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 157797, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "80723ae82e31", + "duration_s": 0.03240561485290527, + "error": null, + "finished_at": "2026-08-28T21:48:13+0200", + "finished_epoch": 1787946493.7838526, + "result": "completed", + "started_at": "2026-08-28T21:48:13+0200", + "started_epoch": 1787946493.751447 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 338632, + "exists": true, + "path": 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a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__dde6fba88c12.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__dde6fba88c12.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:21+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:27:01+0200", "started_epoch": 1787718421.6928468 + }, + { + "attempt_id": "e771998c7baa", + "duration_s": 0.3872792720794678, + "error": null, + "finished_at": "2026-08-28T15:10:05+0200", + "finished_epoch": 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"attempt_id": "55c7c1063849", + "duration_s": 0.274214506149292, + "error": null, + "finished_at": "2026-08-28T15:40:21+0200", + "finished_epoch": 1787924421.1648538, + "result": "completed", + "started_at": "2026-08-28T15:40:20+0200", + "started_epoch": 1787924420.8906393 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 315936, + "bytes": 17800, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C_patches.h5" }, "coords_viz": { - "bytes": 103402, + "bytes": 102169, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:21+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__f4b1717e863f.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KA-01Z-00-DX1.245ECFED-99ED-4A67-83FB-D194BFA2320C__f4b1717e863f.json new file mode 100644 index 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"updated_at": "2026-08-28T23:22:47+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__1253ad499f5a.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__1253ad499f5a.json new file mode 100644 index 0000000000000000000000000000000000000000..2574e4ba1b325b3d69db3e9eebee3e70e2b4f5f5 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__1253ad499f5a.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:23:03+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_53/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs", + "ext": ".svs", + "id": 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a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__61490b2e8d3f.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__61490b2e8d3f.json new file mode 100644 index 0000000000000000000000000000000000000000..657f241911eb6581c50ef959c6b17d686375c01b --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__61490b2e8d3f.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs__61490b2e8d3f", + "name": 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b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__ede28b845220.json new file mode 100644 index 0000000000000000000000000000000000000000..f9437e2b3b91624b0dc6199d8077ca49732113f5 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__ede28b845220.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 139439, + 73142 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2527 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:48:13+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579310/wsi-cache-15579310/gpu_0/batch_53/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs__ede28b845220", + "name": "TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94", + 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+ "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:48:13+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d24cdbf2af.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d24cdbf2af.json new file mode 100644 index 0000000000000000000000000000000000000000..15d6d797e33979cce26437ec49d4a551d07f0391 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d24cdbf2af.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T22:13:40+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579307/wsi-cache-15579307/gpu_0/batch_53/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.svs__f3d24cdbf2af", + "name": "TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 32360, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "fea99064da9e", + "duration_s": 32.24681067466736, + "error": null, + "finished_at": "2026-08-28T22:13:40+0200", + "finished_epoch": 1787948020.7572803, + "result": "completed", + "started_at": "2026-08-28T22:13:08+0200", + "started_epoch": 1787947988.5104697 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 32360, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94_patches.h5" + }, + "features_path": { + "bytes": 683144, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/features_conch_v1/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 161244, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:13:40+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d9ca214e9a.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d9ca214e9a.json index 2e05bb62aa2afdfb0aa9ff6f4527870bb51e6206..55fb5e50d49618ce9e5f2776696a0584bd9ab626 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d9ca214e9a.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94__f3d9ca214e9a.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:21+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:27:02+0200", "started_epoch": 1787718422.2083814 + }, + { + "attempt_id": "f66c902e54bc", + "duration_s": 0.6188271045684814, + "error": null, + "finished_at": "2026-08-28T15:10:06+0200", + "finished_epoch": 1787922606.4481783, + "result": "completed", + "started_at": "2026-08-28T15:10:05+0200", + "started_epoch": 1787922605.8293512 + }, + { + "attempt_id": "bf76582c6a7a", + "duration_s": 0.27402710914611816, + "error": null, + "finished_at": "2026-08-28T15:17:37+0200", + "finished_epoch": 1787923057.7131858, + "result": "completed", + "started_at": "2026-08-28T15:17:37+0200", + "started_epoch": 1787923057.4391587 + }, + { + "attempt_id": "db126fe67eeb", + "duration_s": 0.2534608840942383, + "error": null, + "finished_at": "2026-08-28T15:24:55+0200", + "finished_epoch": 1787923495.6736965, + "result": "completed", + "started_at": "2026-08-28T15:24:55+0200", + "started_epoch": 1787923495.4202356 + }, + { + "attempt_id": "a3722d7a2a04", + "duration_s": 0.3194997310638428, + "error": null, + "finished_at": "2026-08-28T15:32:54+0200", + "finished_epoch": 1787923974.7780235, + "result": "completed", + "started_at": "2026-08-28T15:32:54+0200", + "started_epoch": 1787923974.4585238 + }, + { + "attempt_id": "446d4d9cc56f", + "duration_s": 0.27843785285949707, + "error": null, + "finished_at": "2026-08-28T15:40:21+0200", + "finished_epoch": 1787924421.4932964, + "result": "completed", + "started_at": "2026-08-28T15:40:21+0200", + "started_epoch": 1787924421.2148585 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 1187576, + "bytes": 32360, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94_patches.h5" }, "coords_viz": { - "bytes": 107693, + "bytes": 96328, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-RR-A6KB-01Z-00-DX1.90E22C0F-CA68-4EEB-BB13-2DD67C895A94.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:21+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__34b8a852f3c2.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__34b8a852f3c2.json new file mode 100644 index 0000000000000000000000000000000000000000..2d36a4a4b732af8bf226e87cb9b3489008d72aa2 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__34b8a852f3c2.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 95615, + 73669 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2527 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T23:12:28+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579309/wsi-cache-15579309/gpu_0/batch_53/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs__34b8a852f3c2", + "name": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 56816, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "d3859e267595", + "duration_s": 69.24679946899414, + "error": null, + "finished_at": "2026-08-28T23:12:25+0200", + "finished_epoch": 1787951545.6457112, + "result": "completed", + "started_at": "2026-08-28T23:11:16+0200", + "started_epoch": 1787951476.3989117 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 56816, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + }, + "features_path": { + "bytes": 2234264, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 251398, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "4df0f41bd15a", + "duration_s": 0.15582919120788574, + "error": null, + "finished_at": "2026-08-28T23:12:28+0200", + "finished_epoch": 1787951548.150696, + "result": "completed", + "started_at": "2026-08-28T23:12:27+0200", + "started_epoch": 1787951547.9948668 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 2234264, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/features_conch_v15/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + }, + "slide_features_path": { + "bytes": 89944, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/slide_features_titan/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:12:28+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__3a5380151946.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__3a5380151946.json index adede0d812a91f5c88fc6bd6d7b1689e78cb9d2c..6e50902c8464bc42f58b166556c4c95bdb558e17 100644 --- a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__3a5380151946.json +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__3a5380151946.json @@ -1,9 +1,9 @@ { "meta": {}, "resume": { - "last_status": "skipped", + "last_status": "completed", "last_task": "coords", - "last_updated_at": "2026-08-26T07:42:07+0200" + "last_updated_at": "2026-08-28T15:40:22+0200" }, "schema_version": 2, "slide": { @@ -15,7 +15,7 @@ "rel_path": null }, "summary": { - "coords": "skipped (already_generated)", + "coords": "completed (already_generated)", "segmentation": "skipped (already_segmented)" }, "tasks": { @@ -61,23 +61,73 @@ "result": "completed", "started_at": "2026-08-26T06:27:03+0200", "started_epoch": 1787718423.0249388 + }, + { + "attempt_id": "cbede583ca5e", + "duration_s": 0.6885898113250732, + "error": null, + "finished_at": "2026-08-28T15:10:07+0200", + "finished_epoch": 1787922607.2075179, + "result": "completed", + "started_at": "2026-08-28T15:10:06+0200", + "started_epoch": 1787922606.518928 + }, + { + "attempt_id": "7ce644b69aa3", + "duration_s": 0.5898454189300537, + "error": null, + "finished_at": "2026-08-28T15:17:38+0200", + "finished_epoch": 1787923058.3538957, + "result": "completed", + "started_at": "2026-08-28T15:17:37+0200", + "started_epoch": 1787923057.7640502 + }, + { + "attempt_id": "e9f742628a50", + "duration_s": 0.4442474842071533, + "error": null, + "finished_at": "2026-08-28T15:24:56+0200", + "finished_epoch": 1787923496.1662989, + "result": "completed", + "started_at": "2026-08-28T15:24:55+0200", + "started_epoch": 1787923495.7220514 + }, + { + "attempt_id": "621805890941", + "duration_s": 0.5667092800140381, + "error": null, + "finished_at": "2026-08-28T15:32:55+0200", + "finished_epoch": 1787923975.40728, + "result": "completed", + "started_at": "2026-08-28T15:32:54+0200", + "started_epoch": 1787923974.8405707 + }, + { + "attempt_id": "2c30be22d953", + "duration_s": 0.4580116271972656, + "error": null, + "finished_at": "2026-08-28T15:40:22+0200", + "finished_epoch": 1787924422.006712, + "result": "completed", + "started_at": "2026-08-28T15:40:21+0200", + "started_epoch": 1787924421.5487003 } ], - "message": "Patch coords already generated; skipping.", + "message": "Patch coords generated.", "outputs": { "coords_h5": { - "bytes": 730760, + "bytes": 25080, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_224px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" }, "coords_viz": { - "bytes": 156372, + "bytes": 137041, "exists": true, - "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_384px_0px_overlap/visualization/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/visualization/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" } }, "reason": "already_generated", - "status": "skipped" + "status": "completed" }, "segmentation": { "_active_attempt_id": null, @@ -111,5 +161,5 @@ } }, "trident_version": "0.3.0", - "updated_at": "2026-08-26T07:42:07+0200" + "updated_at": "2026-08-28T15:40:22+0200" } diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__5237b35288ad.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__5237b35288ad.json new file mode 100644 index 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"coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_1024px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "9368569c6848", + "duration_s": 24.710288286209106, + "error": null, + "finished_at": "2026-08-28T22:14:05+0200", + "finished_epoch": 1787948045.4852607, + "result": "completed", + "started_at": "2026-08-28T22:13:40+0200", + "started_epoch": 1787948020.7749724 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 25080, + "exists": true, + "path": 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"updated_at": "2026-08-28T22:14:05+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__56e637317e5d.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__56e637317e5d.json new file mode 100644 index 0000000000000000000000000000000000000000..9c089e68f4de7bfecae0a6e57c4f78eaa2b62c03 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__56e637317e5d.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:conch_v1", + "last_updated_at": "2026-08-28T23:23:19+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579308/wsi-cache-15579308/gpu_0/batch_53/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs__56e637317e5d", + "name": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v1": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v1": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "389d1733e6e1", + "duration_s": 15.615116834640503, + "error": null, + "finished_at": "2026-08-28T23:23:19+0200", + "finished_epoch": 1787952199.4848018, + "result": "completed", + "started_at": "2026-08-28T23:23:03+0200", + "started_epoch": 1787952183.869685 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 17800, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + }, + "features_path": { + "bytes": 160456, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/10x_2048px_0px_overlap/features_conch_v1/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 251398, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:23:19+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__a7e820c29f9a.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__a7e820c29f9a.json new file mode 100644 index 0000000000000000000000000000000000000000..6a16246dc2b53578f995b50013acbe0c4e9460a5 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__a7e820c29f9a.json @@ -0,0 +1,53 @@ +{ + "meta": {}, + "resume": { + "last_status": "skipped", + "last_task": "coords", + "last_updated_at": "2026-08-28T22:15:34+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579312/wsi-cache-15579312/gpu_0/batch_53/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs__a7e820c29f9a", + "name": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 56816, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_1024px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 251398, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T22:15:34+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__bb82c3e768ce.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__bb82c3e768ce.json new file mode 100644 index 0000000000000000000000000000000000000000..a06340633656a13e309bcc9915bd0b742747eb30 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__bb82c3e768ce.json @@ -0,0 +1,86 @@ +{ + "meta": {}, + "resume": { + "last_status": "completed", + "last_task": "patch_features:keep", + "last_updated_at": "2026-08-28T23:36:57+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579313/wsi-cache-15579313/gpu_0/batch_53/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs__bb82c3e768ce", + "name": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "keep": "completed" + }, + "segmentation": "skipped (already_segmented)" + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:keep": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "3ceb0e7c9cff", + "duration_s": 37.14748764038086, + "error": null, + "finished_at": "2026-08-28T23:36:57+0200", + "finished_epoch": 1787953017.0898519, + "result": "completed", + "started_at": "2026-08-28T23:36:19+0200", + "started_epoch": 1787952979.9423642 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + }, + "features_path": { + "bytes": 676776, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_keep/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 251398, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T23:36:57+0200" +} diff --git a/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__f0039553effb.json b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__f0039553effb.json new file mode 100644 index 0000000000000000000000000000000000000000..fe024fa1d136542bb59c1fd01974b4af8996e8b5 --- /dev/null +++ b/Run-Information/prep/TCGA-GBM/wsi_states/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4__f0039553effb.json @@ -0,0 +1,127 @@ +{ + "meta": { + "dimensions": [ + 95615, + 73669 + ], + "level_count": 4, + "mag": 40, + "mpp": 0.2527 + }, + "resume": { + "last_status": "completed", + "last_task": "slide_features:titan", + "last_updated_at": "2026-08-28T21:48:13+0200" + }, + "schema_version": 2, + "slide": { + "abs_path": "/local/jobs/u25798_15579310/wsi-cache-15579310/gpu_0/batch_53/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs", + "ext": ".svs", + "id": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.svs__f0039553effb", + "name": "TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4", + "reader_type": "OpenSlideWSI", + "rel_path": null + }, + "summary": { + "coords": "skipped (already_generated)", + "patch_features": { + "conch_v15": "completed" + }, + "segmentation": "skipped (already_segmented)", + "slide_features": { + "titan": "completed" + } + }, + "tasks": { + "coords": { + "_active_attempt_id": null, + "attempts": [], + "message": "Patch coords already generated; skipping.", + "outputs": { + "coords_h5": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + } + }, + "reason": "already_generated", + "status": "skipped" + }, + "patch_features:conch_v15": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "04c4f6f10c2a", + "duration_s": 35.56974506378174, + "error": null, + "finished_at": "2026-08-28T21:48:13+0200", + "finished_epoch": 1787946493.1379545, + "result": "completed", + "started_at": "2026-08-28T21:47:37+0200", + "started_epoch": 1787946457.5682094 + } + ], + "message": "Patch features extracted.", + "outputs": { + "coords_path": { + "bytes": 25080, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/patches/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4_patches.h5" + }, + "features_path": { + "bytes": 676776, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + } + }, + "reason": null, + "status": "completed" + }, + "segmentation": { + "_active_attempt_id": null, + "attempts": [], + "message": "Tissue already segmented; skipping.", + "outputs": { + "contour_jpg": { + "bytes": 251398, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/contours/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.jpg" + } + }, + "reason": "already_segmented", + "status": "skipped" + }, + "slide_features:titan": { + "_active_attempt_id": null, + "attempts": [ + { + "attempt_id": "fb91ab6a8cd8", + "duration_s": 0.03671407699584961, + "error": null, + "finished_at": "2026-08-28T21:48:13+0200", + "finished_epoch": 1787946493.891636, + "result": "completed", + "started_at": "2026-08-28T21:48:13+0200", + "started_epoch": 1787946493.8549218 + } + ], + "message": "Slide features extracted.", + "outputs": { + "patch_features_path": { + "bytes": 676776, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/features_conch_v15/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + }, + "slide_features_path": { + "bytes": 58464, + "exists": true, + "path": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-TCGA-GBM/20x_2048px_0px_overlap/slide_features_titan/TCGA-RR-A6KC-01Z-00-DX1.1D8F656F-9A5D-4143-847F-DD47B79E15E4.h5" + } + }, + "reason": null, + "status": "completed" + } + }, + "trident_version": "0.3.0", + "updated_at": "2026-08-28T21:48:13+0200" +} diff --git a/Run-Information/runs-report/BRACS/VALIDATION-REPORT.md b/Run-Information/runs-report/BRACS/VALIDATION-REPORT.md new file mode 100644 index 0000000000000000000000000000000000000000..f22f6f6b8becf4f2639562541e28909bfaa47060 --- /dev/null +++ b/Run-Information/runs-report/BRACS/VALIDATION-REPORT.md @@ -0,0 +1,50 @@ +# Validation report β€” BRACS / prism2_20x1024 + +- generated_utc: `2026-08-29T12:58:44.433976+00:00` +- job_dir: `/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-BRACS` +- kind: `model` +- expected_slides: `547` +- slurm_job_id: `15579332` + +## summary.json +```json +{ + "virchow2_cls": "OK -> /projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-BRACS/20x_1024px_0px_overlap/features_virchow2_cls", + "prism2": "OK -> 547 slide(s)" +} +``` + +- coords_dir: `20x_1024px_0px_overlap` +- saves: `virchow2_cls prism2` + +## verify-embeddings.py +- exit: `0` +``` +==================================================================================================== +VERIFY: /projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-BRACS (coords_dir=20x_1024px_0px_overlap) +==================================================================================================== + +--- titan: 547 / 547 files, PASS --- + +--- prism: 547 / 547 files, PASS --- + +--- conch_v15: 547 / 547 files, PASS --- + +--- musk: 547 / 547 files, PASS --- + +--- keep: 547 / 547 files, PASS --- + +--- virchow: 547 / 547 files, PASS --- + +--- virchow2_cls: 547 / 547 files, PASS --- + +--- prism2: 547 / 547 files, PASS --- + +--- wsi_llava_case_bank: 547 / 547 files, PASS --- + +==================================================================================================== +RESULT: PASS -- all present models verified, real content, no NaN/Inf, non-degenerate +==================================================================================================== +``` + +RESULT: **PASS** diff --git a/Run-Information/runs-report/BRACS/_config_coords.json b/Run-Information/runs-report/BRACS/_config_coords.json new file mode 100644 index 0000000000000000000000000000000000000000..e37eef9e6aa65400198a69c73f32907a06146ca8 --- /dev/null +++ b/Run-Information/runs-report/BRACS/_config_coords.json @@ -0,0 +1,33 @@ +{ + "job_dir": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-BRACS", + "wsi_source": "/local/jobs/u25798_15565872/wsi-cache-15565872/gpu_0/batch_34", + "wsi_ext": [ + ".jpeg", + ".jpg", + ".png", + ".vms", + ".tiff", + ".vmu", + ".tif", + ".scn", + ".ndpi", + ".dcm", + ".svs", + ".mrxs", + ".sdpc", + ".zarr", + ".czi" + ], + "skip_errors": true, + "max_workers": 4, + "target_magnification": 20.0, + "patch_size": 512, + "overlap": 0, + "saveto": "20x_512px_0px_overlap", + "visualize": true, + "min_tissue_proportion": 0.0, + "dump_patches": false, + "dump_patches_max": 0, + "dump_patches_format": "png", + "dump_patches_jpeg_quality": 90 +} \ No newline at end of file diff --git a/Run-Information/runs-report/BRACS/_config_segmentation.json b/Run-Information/runs-report/BRACS/_config_segmentation.json new file mode 100644 index 0000000000000000000000000000000000000000..7dd45fce01cb7db8ef434ce181d50495939c48e6 --- /dev/null +++ b/Run-Information/runs-report/BRACS/_config_segmentation.json @@ -0,0 +1,27 @@ +{ + "job_dir": "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-BRACS", + "wsi_source": "/local/jobs/u25798_15579321/wsi-cache-15579321/gpu_0/batch_25", + "wsi_ext": [ + ".png", + ".jpg", + ".jpeg", + ".svs", + ".dcm", + ".scn", + ".vms", + ".ndpi", + ".tiff", + ".vmu", + ".mrxs", + ".tif", + ".sdpc", + ".zarr", + ".czi" + ], + "skip_errors": true, + "max_workers": 4, + "seg_mag": 10, + "holes_are_tissue": true, + "batch_size": 256, + "device": "cuda:0" +} \ No newline at end of file diff --git a/Run-Information/runs-report/BRACS/_logs_coords.txt b/Run-Information/runs-report/BRACS/_logs_coords.txt new file mode 100644 index 0000000000000000000000000000000000000000..77476c90b0fc1c8789a9ba5f41b4ecadc81481d0 --- /dev/null +++ b/Run-Information/runs-report/BRACS/_logs_coords.txt @@ -0,0 +1,547 @@ +BRACS_1003691.svs: Patch coords already generated; skipping. +BRACS_1003694.svs: Patch coords already generated; skipping. +BRACS_1003728.svs: Patch coords already generated; skipping. +BRACS_1228.svs: Patch coords already generated; skipping. +BRACS_1271.svs: Patch coords already generated; skipping. +BRACS_1379.svs: Patch coords already generated; skipping. +BRACS_1486.svs: Patch coords already generated; skipping. +BRACS_1494.svs: Patch coords already generated; skipping. +BRACS_1499.svs: Patch coords already generated; skipping. +BRACS_1503.svs: Patch coords already generated; skipping. +BRACS_1589.svs: Patch coords already generated; skipping. +BRACS_1616.svs: Patch coords already generated; skipping. +BRACS_1622.svs: Patch coords already generated; skipping. +BRACS_1794.svs: Patch coords already generated; skipping. +BRACS_1795.svs: Patch coords already generated; skipping. +BRACS_1797.svs: Patch coords already generated; skipping. +BRACS_1808.svs: Patch coords already generated; skipping. +BRACS_1825.svs: Patch coords already generated; skipping. +BRACS_1844.svs: Patch coords already generated; skipping. +BRACS_1849.svs: Patch coords already generated; skipping. +BRACS_1856.svs: Patch coords already generated; skipping. +BRACS_1860.svs: Patch coords already generated; skipping. +BRACS_1861.svs: Patch coords already generated; skipping. +BRACS_1863.svs: Patch coords already generated; skipping. +BRACS_1876.svs: Patch coords already generated; skipping. +BRACS_1877.svs: Patch coords already generated; skipping. +BRACS_1882.svs: Patch coords already generated; skipping. +BRACS_1885.svs: Patch coords already generated; skipping. +BRACS_1892.svs: Patch coords already generated; skipping. +BRACS_1895.svs: Patch coords already generated; skipping. +BRACS_1899.svs: Patch coords already 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coords already generated; skipping. +BRACS_1815.svs: Patch coords already generated; skipping. +BRACS_1838.svs: Patch coords already generated; skipping. +BRACS_1857.svs: Patch coords already generated; skipping. +BRACS_1858.svs: Patch coords already generated; skipping. +BRACS_1865.svs: Patch coords already generated; skipping. +BRACS_1871.svs: Patch coords already generated; skipping. +BRACS_1886.svs: Patch coords already generated; skipping. +BRACS_1916.svs: Patch coords already generated; skipping. +BRACS_1926.svs: Patch coords already generated; skipping. +BRACS_1936.svs: Patch coords already generated; skipping. +BRACS_1937.svs: Patch coords already generated; skipping. +BRACS_1941.svs: Patch coords already generated; skipping. +BRACS_1943.svs: Patch coords already generated; skipping. +BRACS_1944.svs: Patch coords already generated; skipping. +BRACS_1954.svs: Patch coords already generated; skipping. +BRACS_1003675.svs: Patch coords already generated; skipping. +BRACS_1003713.svs: Patch coords already generated; skipping. +BRACS_1003714.svs: Patch coords already generated; skipping. +BRACS_1003715.svs: Patch coords already generated; skipping. +BRACS_1003716.svs: Patch coords already generated; skipping. +BRACS_1003717.svs: Patch coords already generated; skipping. +BRACS_1003718.svs: Patch coords already generated; skipping. +BRACS_1955.svs: Patch coords already generated; skipping. +BRACS_1968.svs: Patch coords already generated; skipping. +BRACS_1971.svs: Patch coords already generated; skipping. +BRACS_1975.svs: Patch coords already generated; skipping. +BRACS_2007.svs: Patch coords already generated; skipping. +BRACS_300.svs: Patch coords already generated; skipping. +BRACS_3266.svs: Patch coords already generated; skipping. +BRACS_3285.svs: Patch coords already generated; skipping. +BRACS_743.svs: Patch coords already generated; skipping. +BRACS_1832.svs: Patch coords already generated; skipping. +BRACS_1833.svs: Patch coords already generated; skipping. +BRACS_1839.svs: Patch coords already generated; skipping. +BRACS_1841.svs: Patch coords already generated; skipping. +BRACS_1842.svs: Patch coords already generated; skipping. +BRACS_1843.svs: Patch coords already generated; skipping. +BRACS_1845.svs: Patch coords already generated; skipping. +BRACS_1846.svs: Patch coords already generated; skipping. +BRACS_1847.svs: Patch coords already generated; skipping. +BRACS_1850.svs: Patch coords already generated; skipping. +BRACS_1851.svs: Patch coords already generated; skipping. +BRACS_1852.svs: Patch coords already generated; skipping. +BRACS_1866.svs: Patch coords already generated; skipping. +BRACS_1869.svs: Patch coords already generated; skipping. +BRACS_1870.svs: Patch coords already generated; skipping. +BRACS_1879.svs: Patch coords already generated; skipping. +BRACS_1261.svs: Patch coords already generated; skipping. +BRACS_1267.svs: Patch coords already generated; skipping. +BRACS_1269.svs: Patch coords already generated; skipping. +BRACS_1296.svs: Patch coords already generated; skipping. +BRACS_1378.svs: Patch coords already generated; skipping. +BRACS_1385.svs: Patch coords already generated; skipping. +BRACS_1386.svs: Patch coords already generated; skipping. +BRACS_1401.svs: Patch coords already generated; skipping. +BRACS_1403.svs: Patch coords already generated; skipping. +BRACS_1404.svs: Patch coords already generated; skipping. +BRACS_1405.svs: Patch coords already generated; skipping. +BRACS_1507.svs: Patch coords already generated; skipping. +BRACS_1513.svs: Patch coords already generated; skipping. +BRACS_1579.svs: Patch coords already generated; skipping. +BRACS_1584.svs: Patch coords already generated; skipping. +BRACS_1585.svs: Patch coords already generated; skipping. +BRACS_1880.svs: Patch coords already generated; skipping. +BRACS_1890.svs: Patch coords already generated; skipping. +BRACS_1893.svs: Patch coords already generated; skipping. +BRACS_1900.svs: Patch coords already generated; skipping. +BRACS_1901.svs: Patch coords already generated; skipping. +BRACS_1902.svs: Patch coords already generated; skipping. +BRACS_1904.svs: Patch coords already generated; skipping. +BRACS_1905.svs: Patch coords already generated; skipping. +BRACS_1906.svs: Patch coords already generated; skipping. +BRACS_1924.svs: Patch coords already generated; skipping. +BRACS_1940.svs: Patch coords already generated; skipping. +BRACS_1942.svs: Patch coords already generated; skipping. +BRACS_1948.svs: Patch coords already generated; skipping. +BRACS_1960.svs: Patch coords already generated; skipping. +BRACS_1961.svs: Patch coords already generated; skipping. +BRACS_1962.svs: Patch coords already generated; skipping. +BRACS_1964.svs: Patch coords already generated; skipping. +BRACS_1965.svs: Patch coords already generated; skipping. +BRACS_1966.svs: Patch coords already generated; skipping. +BRACS_1967.svs: Patch coords already generated; skipping. +BRACS_1972.svs: Patch coords already generated; skipping. +BRACS_1980.svs: Patch coords already generated; skipping. +BRACS_1986.svs: Patch coords already generated; skipping. +BRACS_1988.svs: Patch coords already generated; skipping. +BRACS_1989.svs: Patch coords already generated; skipping. +BRACS_1994.svs: Patch coords already generated; skipping. +BRACS_2000.svs: Patch coords already generated; skipping. +BRACS_2002.svs: Patch coords already generated; skipping. +BRACS_2004.svs: Patch coords already generated; skipping. +BRACS_264.svs: Patch coords already generated; skipping. +BRACS_3268.svs: Patch coords already generated; skipping. +BRACS_3269.svs: Patch coords already generated; skipping. +BRACS_1598.svs: Patch coords already generated; skipping. +BRACS_1599.svs: Patch coords already generated; skipping. +BRACS_1601.svs: Patch coords already generated; skipping. +BRACS_1614.svs: Patch coords already generated; skipping. +BRACS_1632.svs: Patch coords already generated; skipping. +BRACS_1641.svs: Patch coords already generated; skipping. +BRACS_1645.svs: Patch coords already generated; skipping. +BRACS_1658.svs: Patch coords already generated; skipping. +BRACS_1820.svs: Patch coords already generated; skipping. +BRACS_1855.svs: Patch coords already generated; skipping. +BRACS_1973.svs: Patch coords already generated; skipping. +BRACS_1974.svs: Patch coords already generated; skipping. +BRACS_1978.svs: Patch coords already generated; skipping. +BRACS_1979.svs: Patch coords already generated; skipping. +BRACS_1981.svs: Patch coords already generated; skipping. +BRACS_1998.svs: Patch coords already generated; skipping. +BRACS_3270.svs: Patch coords already generated; skipping. +BRACS_3271.svs: Patch coords already generated; skipping. +BRACS_3272.svs: Patch coords already generated; skipping. +BRACS_3274.svs: Patch coords already generated; skipping. +BRACS_3276.svs: Patch coords already generated; skipping. +BRACS_3279.svs: Patch coords already generated; skipping. +BRACS_3281.svs: Patch coords already generated; skipping. +BRACS_3283.svs: Patch coords already generated; skipping. +BRACS_3295.svs: Patch coords already generated; skipping. +BRACS_3296.svs: Patch coords already generated; skipping. +BRACS_3298.svs: Patch coords already generated; skipping. +BRACS_3300.svs: Patch coords already generated; skipping. +BRACS_3309.svs: Patch coords already generated; skipping. +BRACS_3311.svs: Patch coords already generated; skipping. +BRACS_3312.svs: Patch coords already generated; skipping. +BRACS_3324.svs: Patch coords already generated; skipping. +BRACS_1003660.svs: Patch coords already generated; skipping. +BRACS_1003661.svs: Patch coords already generated; skipping. +BRACS_1003685.svs: Patch coords already generated; skipping. +BRACS_1003705.svs: Patch coords already generated; skipping. +BRACS_1003707.svs: Patch coords already generated; skipping. +BRACS_1244.svs: Patch coords already generated; skipping. +BRACS_1270.svs: Patch coords already generated; skipping. +BRACS_1295.svs: Patch coords already generated; skipping. +BRACS_3334.svs: Patch coords already generated; skipping. +BRACS_3335.svs: Patch coords already generated; skipping. +BRACS_3336.svs: Patch coords already generated; skipping. +BRACS_3337.svs: Patch coords already generated; skipping. +BRACS_745.svs: Patch coords already generated; skipping. +BRACS_758.svs: Patch coords already generated; skipping. +BRACS_760.svs: Patch coords already generated; skipping. +BRACS_761.svs: Patch coords already generated; skipping. +BRACS_1326.svs: Patch coords already generated; skipping. +BRACS_1334.svs: Patch coords already generated; skipping. +BRACS_1335.svs: Patch coords already generated; skipping. +BRACS_1337.svs: Patch coords already generated; skipping. +BRACS_1409.svs: Patch coords already generated; skipping. +BRACS_1416.svs: Patch coords already generated; skipping. +BRACS_1495.svs: Patch coords already generated; skipping. +BRACS_1498.svs: Patch coords already generated; skipping. +BRACS_1581.svs: Patch coords already generated; skipping. +BRACS_1591.svs: Patch coords already generated; skipping. +BRACS_1592.svs: Patch coords already generated; skipping. +BRACS_1594.svs: Patch coords already generated; skipping. +BRACS_1595.svs: Patch coords already generated; skipping. +BRACS_1596.svs: Patch coords already generated; skipping. +BRACS_1604.svs: Patch coords already generated; skipping. +BRACS_1606.svs: Patch coords already generated; skipping. +BRACS_1003658.svs: Patch coords already generated; skipping. +BRACS_1003659.svs: Patch coords already generated; skipping. +BRACS_1003668.svs: Patch coords already generated; skipping. +BRACS_1003669.svs: Patch coords already generated; skipping. +BRACS_1003671.svs: Patch coords already generated; skipping. +BRACS_1003672.svs: Patch coords already generated; skipping. +BRACS_1003686.svs: Patch coords already generated; skipping. +BRACS_1003700.svs: Patch coords already generated; skipping. +BRACS_1003706.svs: Patch coords already generated; skipping. +BRACS_1003710.svs: Patch coords already generated; skipping. +BRACS_1003724.svs: Patch coords already generated; skipping. +BRACS_3275.svs: Patch coords already generated; skipping. +BRACS_3277.svs: Patch coords already generated; skipping. +BRACS_3282.svs: Patch coords already generated; skipping. +BRACS_3292.svs: Patch coords already generated; skipping. +BRACS_3322.svs: Patch coords already generated; skipping. +BRACS_1609.svs: Patch coords already generated; skipping. +BRACS_1617.svs: Patch coords already generated; skipping. +BRACS_1618.svs: Patch coords already generated; skipping. +BRACS_1619.svs: Patch coords already generated; skipping. +BRACS_1621.svs: Patch coords already generated; skipping. +BRACS_1642.svs: Patch coords already generated; skipping. +BRACS_1667.svs: Patch coords already generated; skipping. +BRACS_1780.svs: Patch coords already generated; skipping. +BRACS_1782.svs: Patch coords already generated; skipping. +BRACS_1783.svs: Patch coords already generated; skipping. +BRACS_1785.svs: Patch coords already generated; skipping. +BRACS_1786.svs: Patch coords already generated; skipping. +BRACS_1787.svs: Patch coords already generated; skipping. +BRACS_1789.svs: Patch coords already generated; skipping. +BRACS_1791.svs: Patch coords already generated; skipping. +BRACS_1792.svs: Patch coords already generated; skipping. +BRACS_1793.svs: Patch coords already generated; skipping. +BRACS_1821.svs: Patch coords already generated; skipping. +BRACS_1824.svs: Patch coords already generated; skipping. +BRACS_1834.svs: Patch coords already generated; skipping. +BRACS_1836.svs: Patch coords already generated; skipping. +BRACS_1837.svs: Patch coords already generated; skipping. +BRACS_1848.svs: Patch coords already generated; skipping. +BRACS_1853.svs: Patch coords already generated; skipping. +BRACS_1873.svs: Patch coords already generated; skipping. +BRACS_1881.svs: Patch coords already generated; skipping. +BRACS_1896.svs: Patch coords already generated; skipping. +BRACS_1914.svs: Patch coords already generated; skipping. +BRACS_1917.svs: Patch coords already generated; skipping. +BRACS_1918.svs: Patch coords already generated; skipping. +BRACS_1946.svs: Patch coords already generated; skipping. +BRACS_1949.svs: Patch coords already generated; skipping. +BRACS_1003725.svs: Patch coords already generated; skipping. +BRACS_1003730.svs: Patch coords already generated; skipping. +BRACS_1003734.svs: Patch coords already generated; skipping. +BRACS_1240.svs: Patch coords already generated; skipping. +BRACS_1241.svs: Patch coords already generated; skipping. +BRACS_1242.svs: Patch coords already generated; skipping. +BRACS_1248.svs: Patch coords already generated; skipping. +BRACS_1249.svs: Patch coords already generated; skipping. +BRACS_1251.svs: Patch coords already generated; skipping. +BRACS_1253.svs: Patch coords already generated; skipping. +BRACS_1255.svs: Patch coords already generated; skipping. +BRACS_1259.svs: Patch coords already generated; skipping. +BRACS_1273.svs: Patch coords already generated; skipping. +BRACS_1274.svs: Patch coords already generated; skipping. +BRACS_1275.svs: Patch coords already generated; skipping. +BRACS_1276.svs: Patch coords already generated; skipping. +BRACS_1952.svs: Patch coords already generated; skipping. +BRACS_1957.svs: Patch coords already generated; skipping. +BRACS_1958.svs: Patch coords already generated; skipping. +BRACS_1959.svs: Patch coords already generated; skipping. +BRACS_1963.svs: Patch coords already generated; skipping. +BRACS_1993.svs: Patch coords already generated; skipping. +BRACS_1995.svs: Patch coords already generated; skipping. +BRACS_1996.svs: Patch coords already generated; skipping. +BRACS_1997.svs: Patch coords already generated; skipping. +BRACS_2001.svs: Patch coords already generated; skipping. +BRACS_2005.svs: Patch coords already generated; skipping. +BRACS_265.svs: Patch coords already generated; skipping. +BRACS_3273.svs: Patch coords already generated; skipping. +BRACS_3278.svs: Patch coords already generated; skipping. +BRACS_3284.svs: Patch coords already generated; skipping. +BRACS_3310.svs: Patch coords already generated; skipping. +BRACS_1003697.svs: Patch coords already generated; skipping. +BRACS_1238.svs: Patch coords already generated; skipping. +BRACS_1247.svs: Patch coords already generated; skipping. +BRACS_1283.svs: Patch coords already generated; skipping. +BRACS_1366.svs: Patch coords already generated; skipping. +BRACS_1367.svs: Patch coords already generated; skipping. +BRACS_1369.svs: Patch coords already generated; skipping. +BRACS_1473.svs: Patch coords already generated; skipping. +BRACS_1474.svs: Patch coords already generated; skipping. +BRACS_1476.svs: Patch coords already generated; skipping. +BRACS_1489.svs: Patch coords already generated; skipping. +BRACS_1490.svs: Patch coords already generated; skipping. +BRACS_1491.svs: Patch coords already generated; skipping. +BRACS_1492.svs: Patch coords already generated; skipping. +BRACS_3313.svs: Patch coords already generated; skipping. +BRACS_3317.svs: Patch coords already generated; skipping. +BRACS_1496.svs: Patch coords already generated; skipping. +BRACS_1497.svs: Patch coords already generated; skipping. +BRACS_1509.svs: Patch coords already generated; skipping. +BRACS_1512.svs: Patch coords already generated; skipping. +BRACS_1514.svs: Patch coords already generated; skipping. +BRACS_1515.svs: Patch coords already generated; skipping. +BRACS_1588.svs: Patch coords already generated; skipping. +BRACS_1597.svs: Patch coords already generated; skipping. +BRACS_1602.svs: Patch coords already generated; skipping. +BRACS_1607.svs: Patch coords already generated; skipping. +BRACS_1653.svs: Patch coords already generated; skipping. +BRACS_1771.svs: Patch coords already generated; skipping. +BRACS_1811.svs: Patch coords already generated; skipping. +BRACS_1816.svs: Patch coords already generated; skipping. +BRACS_1835.svs: Patch coords already generated; skipping. +BRACS_1840.svs: Patch coords already generated; skipping. +BRACS_1318.svs: Patch coords already generated; skipping. +BRACS_1320.svs: Patch coords already generated; skipping. +BRACS_1321.svs: Patch coords already generated; skipping. +BRACS_1322.svs: Patch coords already generated; skipping. +BRACS_1324.svs: Patch coords already generated; skipping. +BRACS_1325.svs: Patch coords already generated; skipping. +BRACS_1327.svs: Patch coords already generated; skipping. +BRACS_1329.svs: Patch coords already generated; skipping. +BRACS_1330.svs: Patch coords already generated; skipping. +BRACS_1336.svs: Patch coords already generated; skipping. +BRACS_1338.svs: Patch coords already generated; skipping. +BRACS_1370.svs: Patch coords already generated; skipping. +BRACS_1408.svs: Patch coords already generated; skipping. +BRACS_1412.svs: Patch coords already generated; skipping. +BRACS_1423.svs: Patch coords already generated; skipping. +BRACS_1424.svs: Patch coords already generated; skipping. +BRACS_1862.svs: Patch coords already generated; skipping. +BRACS_1864.svs: Patch coords already generated; skipping. +BRACS_1867.svs: Patch coords already generated; skipping. +BRACS_1872.svs: Patch coords already generated; skipping. +BRACS_1874.svs: Patch coords already generated; skipping. +BRACS_1878.svs: Patch coords already generated; skipping. +BRACS_1883.svs: Patch coords already generated; skipping. +BRACS_1888.svs: Patch coords already generated; skipping. +BRACS_1897.svs: Patch coords already generated; skipping. +BRACS_1903.svs: Patch coords already generated; skipping. +BRACS_1919.svs: Patch coords already generated; skipping. +BRACS_1920.svs: Patch coords already generated; skipping. +BRACS_1921.svs: Patch coords already generated; skipping. +BRACS_1923.svs: Patch coords already generated; skipping. +BRACS_1927.svs: Patch coords already generated; skipping. +BRACS_1928.svs: Patch coords already generated; skipping. +BRACS_1003667.svs: Patch coords already generated; skipping. +BRACS_1929.svs: Patch coords already generated; skipping. +BRACS_1930.svs: Patch coords already generated; skipping. +BRACS_1931.svs: Patch coords already generated; skipping. +BRACS_1935.svs: Patch coords already generated; skipping. +BRACS_1945.svs: Patch coords already generated; skipping. +BRACS_1947.svs: Patch coords already generated; skipping. +BRACS_1950.svs: Patch coords already generated; skipping. +BRACS_1970.svs: Patch coords already generated; skipping. +BRACS_1999.svs: Patch coords already generated; skipping. +BRACS_3302.svs: Patch coords already generated; skipping. +BRACS_735.svs: Patch coords already generated; skipping. +BRACS_736.svs: Patch coords already generated; skipping. +BRACS_737.svs: Patch coords already generated; skipping. +BRACS_755.svs: Patch coords already generated; skipping. +BRACS_762.svs: Patch coords already generated; skipping. +BRACS_1003670.svs: Patch coords already generated; skipping. +BRACS_1003673.svs: Patch coords already generated; skipping. +BRACS_1003677.svs: Patch coords already generated; skipping. +BRACS_1003678.svs: Patch coords already generated; skipping. +BRACS_1003684.svs: Patch coords already generated; skipping. +BRACS_1003692.svs: Patch coords already generated; skipping. +BRACS_1003698.svs: Patch coords already generated; skipping. +BRACS_1003699.svs: Patch coords already generated; skipping. +BRACS_1003703.svs: Patch coords already generated; skipping. +BRACS_1003708.svs: Patch coords already generated; skipping. +BRACS_1003709.svs: Patch coords already generated; skipping. +BRACS_1003721.svs: Patch coords already generated; skipping. +BRACS_1003722.svs: Patch coords already generated; skipping. +BRACS_1003723.svs: Patch coords already generated; skipping. +BRACS_1003727.svs: Patch coords already generated; skipping. +BRACS_1003731.svs: Patch coords already generated; skipping. +BRACS_1480.svs: Patch coords already generated; skipping. +BRACS_1483.svs: Patch coords already generated; skipping. +BRACS_1485.svs: Patch coords already generated; skipping. +BRACS_1493.svs: Patch coords already generated; skipping. +BRACS_1508.svs: Patch coords already generated; skipping. +BRACS_1511.svs: Patch coords already generated; skipping. +BRACS_1582.svs: Patch coords already generated; skipping. +BRACS_1583.svs: Patch coords already generated; skipping. +BRACS_1593.svs: Patch coords already generated; skipping. +BRACS_1603.svs: Patch coords already generated; skipping. +BRACS_1605.svs: Patch coords already generated; skipping. +BRACS_1608.svs: Patch coords already generated; skipping. +BRACS_1612.svs: Patch coords already generated; skipping. +BRACS_1620.svs: Patch coords already generated; skipping. +BRACS_1631.svs: Patch coords already generated; skipping. +BRACS_1633.svs: Patch coords already generated; skipping. +BRACS_1003732.svs: Patch coords already generated; skipping. +BRACS_1231.svs: Patch coords already generated; skipping. +BRACS_1232.svs: Patch coords already generated; skipping. +BRACS_1233.svs: Patch coords already generated; skipping. +BRACS_1235.svs: Patch coords already generated; skipping. +BRACS_1263.svs: Patch coords already generated; skipping. +BRACS_1265.svs: Patch coords already generated; skipping. +BRACS_1272.svs: Patch coords already generated; skipping. +BRACS_1277.svs: Patch coords already generated; skipping. +BRACS_1279.svs: Patch coords already generated; skipping. +BRACS_1284.svs: Patch coords already generated; skipping. +BRACS_1286.svs: Patch coords already generated; skipping. +BRACS_1287.svs: Patch coords already generated; skipping. +BRACS_1288.svs: Patch coords already generated; skipping. +BRACS_1289.svs: Patch coords already generated; skipping. +BRACS_1292.svs: Patch coords already generated; skipping. +BRACS_1293.svs: Patch coords already generated; skipping. +BRACS_1356.svs: Patch coords already generated; skipping. +BRACS_1357.svs: Patch coords already generated; skipping. +BRACS_1358.svs: Patch coords already generated; skipping. +BRACS_1360.svs: Patch coords already generated; skipping. +BRACS_1361.svs: Patch coords already generated; skipping. +BRACS_1362.svs: Patch coords already generated; skipping. +BRACS_1368.svs: Patch coords already generated; skipping. +BRACS_1374.svs: Patch coords already generated; skipping. +BRACS_1392.svs: Patch coords already generated; skipping. +BRACS_1393.svs: Patch coords already generated; skipping. +BRACS_1394.svs: Patch coords already generated; skipping. +BRACS_1395.svs: Patch coords already generated; skipping. +BRACS_1406.svs: Patch coords already generated; skipping. +BRACS_1407.svs: Patch coords already generated; skipping. +BRACS_1411.svs: Patch coords already generated; skipping. +BRACS_1634.svs: Patch coords already generated; skipping. +BRACS_1640.svs: Patch coords already generated; skipping. +BRACS_1655.svs: Patch coords already generated; skipping. +BRACS_1656.svs: Patch coords already generated; skipping. +BRACS_1659.svs: Patch coords already generated; skipping. +BRACS_1660.svs: Patch coords already generated; skipping. +BRACS_1661.svs: Patch coords already generated; skipping. +BRACS_1664.svs: Patch coords already generated; skipping. +BRACS_1665.svs: Patch coords already generated; skipping. +BRACS_1666.svs: Patch coords already generated; skipping. +BRACS_1668.svs: Patch coords already generated; skipping. +BRACS_1669.svs: Patch coords already generated; skipping. +BRACS_1772.svs: Patch coords already generated; skipping. +BRACS_1779.svs: Patch coords already generated; skipping. +BRACS_1784.svs: Patch coords already generated; skipping. +BRACS_1796.svs: Patch coords already generated; skipping. +BRACS_1413.svs: Patch coords already generated; skipping. +BRACS_1414.svs: Patch coords already generated; skipping. +BRACS_1477.svs: Patch coords already generated; skipping. +BRACS_1478.svs: Patch coords already generated; skipping. +BRACS_1484.svs: Patch coords already generated; skipping. +BRACS_1487.svs: Patch coords already generated; skipping. +BRACS_1516.svs: Patch coords already generated; skipping. +BRACS_1578.svs: Patch coords already generated; skipping. +BRACS_1580.svs: Patch coords already generated; skipping. +BRACS_1587.svs: Patch coords already generated; skipping. +BRACS_1590.svs: Patch coords already generated; skipping. +BRACS_1635.svs: Patch coords already generated; skipping. +BRACS_1636.svs: Patch coords already generated; skipping. +BRACS_1637.svs: Patch coords already generated; skipping. +BRACS_1638.svs: Patch coords already generated; skipping. +BRACS_1639.svs: Patch coords already generated; skipping. +BRACS_1643.svs: Patch coords already generated; skipping. +BRACS_1646.svs: Patch coords already generated; skipping. +BRACS_1647.svs: Patch coords already generated; skipping. +BRACS_1648.svs: Patch coords already generated; skipping. +BRACS_1649.svs: Patch coords already generated; skipping. +BRACS_1650.svs: Patch coords already generated; skipping. +BRACS_1652.svs: Patch coords already generated; skipping. +BRACS_1654.svs: Patch coords already generated; skipping. +BRACS_1798.svs: Patch coords already generated; skipping. +BRACS_1810.svs: Patch coords already generated; skipping. +BRACS_1812.svs: Patch coords already generated; skipping. +BRACS_1817.svs: Patch coords already generated; skipping. +BRACS_1823.svs: Patch coords already generated; skipping. +BRACS_1826.svs: Patch coords already generated; skipping. +BRACS_1827.svs: Patch coords already generated; skipping. +BRACS_1828.svs: Patch coords already generated; skipping. +BRACS_1829.svs: Patch coords already generated; skipping. +BRACS_1830.svs: Patch coords already generated; skipping. +BRACS_1831.svs: Patch coords already generated; skipping. +BRACS_1875.svs: Patch coords already generated; skipping. +BRACS_1908.svs: Patch coords already generated; skipping. +BRACS_1910.svs: Patch coords already generated; skipping. +BRACS_1984.svs: Patch coords already generated; skipping. +BRACS_280.svs: Patch coords already generated; skipping. +BRACS_281.svs: Patch coords already generated; skipping. +BRACS_283.svs: Patch coords already generated; skipping. +BRACS_286.svs: Patch coords already generated; skipping. +BRACS_288.svs: Patch coords already generated; skipping. +BRACS_291.svs: Patch coords already generated; skipping. +BRACS_292.svs: Patch coords already generated; skipping. +BRACS_295.svs: Patch coords already generated; skipping. +BRACS_297.svs: Patch coords already generated; skipping. +BRACS_298.svs: Patch coords already generated; skipping. +BRACS_301.svs: Patch coords already generated; skipping. +BRACS_305.svs: Patch coords already generated; skipping. +BRACS_310.svs: Patch coords already generated; skipping. +BRACS_311.svs: Patch coords already generated; skipping. +BRACS_3289.svs: Patch coords already generated; skipping. +BRACS_3290.svs: Patch coords already generated; skipping. +BRACS_3291.svs: Patch coords already generated; skipping. +BRACS_3293.svs: Patch coords already generated; skipping. +BRACS_3294.svs: Patch coords already generated; skipping. +BRACS_3301.svs: Patch coords already generated; skipping. +BRACS_3305.svs: Patch coords already generated; skipping. +BRACS_3308.svs: Patch coords already generated; skipping. +BRACS_3314.svs: Patch coords already generated; skipping. +BRACS_3315.svs: Patch coords already generated; skipping. +BRACS_3316.svs: Patch coords already generated; skipping. +BRACS_3319.svs: Patch coords already generated; skipping. +BRACS_3320.svs: Patch coords already generated; skipping. +BRACS_3321.svs: Patch coords already generated; skipping. +BRACS_3323.svs: Patch coords already generated; skipping. +BRACS_734.svs: Patch coords already generated; skipping. +BRACS_738.svs: Patch coords already generated; skipping. +BRACS_739.svs: Patch coords already generated; skipping. +BRACS_740.svs: Patch coords already generated; skipping. +BRACS_747.svs: Patch coords already generated; skipping. +BRACS_748.svs: Patch coords already generated; skipping. +BRACS_749.svs: Patch coords already generated; skipping. +BRACS_750.svs: Patch coords already generated; skipping. +BRACS_752.svs: Patch coords already generated; skipping. +BRACS_753.svs: Patch coords already generated; skipping. +BRACS_754.svs: Patch coords already generated; skipping. +BRACS_756.svs: Patch coords already generated; skipping. +BRACS_757.svs: Patch coords already generated; skipping. +BRACS_759.svs: Patch coords already generated; skipping. +BRACS_773.svs: Patch coords already generated; skipping. diff --git a/Run-Information/runs-report/BRACS/_logs_segmentation.txt b/Run-Information/runs-report/BRACS/_logs_segmentation.txt new file mode 100644 index 0000000000000000000000000000000000000000..20032dd5c0af2b8f9555d47e901cb74fb0bf2137 Binary files /dev/null and b/Run-Information/runs-report/BRACS/_logs_segmentation.txt differ diff --git a/Run-Information/runs-report/BRACS/slurm-stderr-15554089.log b/Run-Information/runs-report/BRACS/slurm-stderr-15554089.log new file mode 100644 index 0000000000000000000000000000000000000000..b66740131bf6e099031e774fa2f18fbb0b9707ba --- /dev/null +++ b/Run-Information/runs-report/BRACS/slurm-stderr-15554089.log @@ -0,0 +1,17 @@ +WARNING: no mpp-override.csv -- using embedded metadata as-is. + Segmenting tissue: 0%| | 0/547 [00:00] Segmenting tissue: 0%| | 1/547 [00:13<2:06:54, 13.95s/it, Segmenting ] Segmenting tissue: 0%| | 1/547 [00:13<2:06:54, 13.95s/it, Segmenting ] Segmenting tissue: 0%| | 2/547 [00:27<2:04:57, 13.76s/it, Segmenting ] Segmenting tissue: 0%| | 2/547 [00:27<2:04:57, 13.76s/it, Segmenting ] Segmenting tissue: 1%| | 3/547 [00:48<2:33:06, 16.89s/it, Segmenting ] Segmenting tissue: 1%| | 3/547 [00:48<2:33:06, 16.89s/it, Segmenting ] Segmenting tissue: 1%| | 4/547 [01:05<2:33:44, 16.99s/it, Segmenting ] Segmenting tissue: 1%| | 4/547 [01:05<2:33:44, 16.99s/it, Segmenting ] Segmenting tissue: 1%| | 5/547 [01:13<2:06:00, 13.95s/it, Segmenting ] Segmenting tissue: 1%| | 5/547 [01:13<2:06:00, 13.95s/it, Segmenting ] Segmenting tissue: 1%| | 6/547 [01:32<2:18:43, 15.39s/it, Segmenting ] Segmenting tissue: 1%| | 6/547 [01:32<2:18:43, 15.39s/it, Segmenting ] Segmenting tissue: 1%|▏ | 7/547 [02:00<2:57:59, 19.78s/it, Segmenting ] Segmenting tissue: 1%|▏ | 7/547 [02:00<2:57:59, 19.78s/it, Segmenting ] Segmenting tissue: 1%|▏ | 8/547 [02:20<2:58:09, 19.83s/it, Segmenting ] Segmenting tissue: 1%|▏ | 8/547 [02:20<2:58:09, 19.83s/it, Segmenting ] Segmenting tissue: 2%|▏ | 9/547 [02:28<2:22:39, 15.91s/it, Segmenting ] Segmenting tissue: 2%|▏ | 9/547 [02:28<2:22:39, 15.91s/it, Segmenting ] Segmenting tissue: 2%|▏ | 10/547 [02:45<2:26:56, 16.42s/it, Segmenting ] Segmenting tissue: 2%|▏ | 10/547 [02:45<2:26:56, 16.42s/it, Segmenting ] Segmenting tissue: 2%|▏ | 11/547 [03:08<2:43:10, 18.27s/it, Segmenting ] Segmenting tissue: 2%|▏ | 11/547 [03:08<2:43:10, 18.27s/it, Segmenting ] Segmenting tissue: 2%|▏ | 12/547 [03:25<2:40:35, 18.01s/it, Segmenting ] Segmenting tissue: 2%|▏ | 12/547 [03:25<2:40:35, 18.01s/it, Segmenting ] Segmenting tissue: 2%|▏ | 13/547 [03:41<2:34:08, 17.32s/it, Segmenting ] Segmenting tissue: 2%|▏ | 13/547 [03:41<2:34:08, 17.32s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 14/547 [04:02<2:44:31, 18.52s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 14/547 [04:02<2:44:31, 18.52s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 15/547 [04:19<2:39:59, 18.04s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 15/547 [04:19<2:39:59, 18.04s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 16/547 [04:45<3:02:08, 20.58s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 16/547 [04:45<3:02:08, 20.58s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 17/547 [05:06<3:00:45, 20.46s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 17/547 [05:06<3:00:45, 20.46s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 18/547 [05:24<2:55:58, 19.96s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 18/547 [05:24<2:55:58, 19.96s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 19/547 [05:45<2:57:34, 20.18s/it, Segmenting ] Segmenting tissue: 3%|β–Ž | 19/547 [05:45<2:57:34, 20.18s/it, Segmenting ] Segmenting tissue: 4%|β–Ž | 20/547 [06:03<2:51:51, 19.57s/it, Segmenting ] Segmenting tissue: 4%|β–Ž | 20/547 [06:03<2:51:51, 19.57s/it, Segmenting ] Segmenting tissue: 4%|▍ | 21/547 [06:32<3:14:48, 22.22s/it, Segmenting ] Segmenting tissue: 4%|▍ | 21/547 [06:32<3:14:48, 22.22s/it, Segmenting ] Segmenting tissue: 4%|▍ | 22/547 [06:51<3:05:30, 21.20s/it, Segmenting ] Segmenting tissue: 4%|▍ | 22/547 [06:51<3:05:30, 21.20s/it, Segmenting ] Segmenting tissue: 4%|▍ | 23/547 [07:16<3:17:35, 22.63s/it, Segmenting ] Segmenting tissue: 4%|▍ | 23/547 [07:16<3:17:35, 22.63s/it, Segmenting ] Segmenting tissue: 4%|▍ | 24/547 [07:40<3:18:33, 22.78s/it, Segmenting ] Segmenting tissue: 4%|▍ | 24/547 [07:40<3:18:33, 22.78s/it, Segmenting ] Segmenting tissue: 5%|▍ | 25/547 [07:53<2:52:53, 19.87s/it, Segmenting ] Segmenting tissue: 5%|▍ | 25/547 [07:53<2:52:53, 19.87s/it, Segmenting ] Segmenting tissue: 5%|▍ | 26/547 [08:06<2:36:04, 17.97s/it, Segmenting ] Segmenting tissue: 5%|▍ | 26/547 [08:06<2:36:04, 17.97s/it, Segmenting ] Segmenting tissue: 5%|▍ | 27/547 [08:17<2:17:18, 15.84s/it, Segmenting ] Segmenting tissue: 5%|▍ | 27/547 [08:17<2:17:18, 15.84s/it, Segmenting ] Segmenting tissue: 5%|β–Œ | 28/547 [08:40<2:35:06, 17.93s/it, Segmenting ] Segmenting tissue: 5%|β–Œ | 28/547 [08:40<2:35:06, 17.93s/it, Segmenting ] Segmenting tissue: 5%|β–Œ | 29/547 [09:01<2:43:26, 18.93s/it, Segmenting ] Segmenting tissue: 5%|β–Œ | 29/547 [09:01<2:43:26, 18.93s/it, Segmenting ] Segmenting tissue: 5%|β–Œ | 30/547 [09:12<2:21:05, 16.37s/it, Segmenting ] Segmenting tissue: 5%|β–Œ | 30/547 [09:12<2:21:05, 16.37s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 31/547 [09:27<2:17:01, 15.93s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 31/547 [09:27<2:17:01, 15.93s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 32/547 [09:40<2:11:33, 15.33s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 32/547 [09:40<2:11:33, 15.33s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 33/547 [10:08<2:42:12, 18.94s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 33/547 [10:08<2:42:12, 18.94s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 34/547 [10:30<2:50:30, 19.94s/it, Segmenting ] Segmenting tissue: 6%|β–Œ | 34/547 [10:30<2:50:30, 19.94s/it, Segmenting ] Segmenting tissue: 6%|β–‹ | 35/547 [10:51<2:51:49, 20.13s/it, Segmenting ] Segmenting tissue: 6%|β–‹ | 35/547 [10:51<2:51:49, 20.13s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 36/547 [11:16<3:04:00, 21.60s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 36/547 [11:16<3:04:00, 21.60s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 37/547 [11:32<2:49:08, 19.90s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 37/547 [11:32<2:49:08, 19.90s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 38/547 [11:50<2:44:01, 19.33s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 38/547 [11:50<2:44:01, 19.33s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 39/547 [12:20<3:12:43, 22.76s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 39/547 [12:20<3:12:43, 22.76s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 40/547 [12:50<3:30:30, 24.91s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 40/547 [12:50<3:30:30, 24.91s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 41/547 [13:12<3:20:46, 23.81s/it, Segmenting ] Segmenting tissue: 7%|β–‹ | 41/547 [13:12<3:20:46, 23.81s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 42/547 [13:46<3:46:20, 26.89s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 42/547 [13:46<3:46:20, 26.89s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 43/547 [14:05<3:27:33, 24.71s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 43/547 [14:05<3:27:33, 24.71s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 44/547 [14:27<3:20:39, 23.94s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 44/547 [14:27<3:20:39, 23.94s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 45/547 [14:57<3:33:58, 25.57s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 45/547 [14:57<3:33:58, 25.57s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 46/547 [15:25<3:41:07, 26.48s/it, Segmenting ] Segmenting tissue: 8%|β–Š | 46/547 [15:25<3:41:07, 26.48s/it, Segmenting ] Segmenting tissue: 9%|β–Š | 47/547 [15:53<3:42:30, 26.70s/it, Segmenting ] Segmenting tissue: 9%|β–Š | 47/547 [15:53<3:42:30, 26.70s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 48/547 [16:32<4:13:55, 30.53s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 48/547 [16:32<4:13:55, 30.53s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 49/547 [17:28<5:16:50, 38.17s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 49/547 [17:28<5:16:50, 38.17s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 50/547 [18:23<5:57:12, 43.12s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 50/547 [18:23<5:57:12, 43.12s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 51/547 [18:56<5:32:50, 40.26s/it, Segmenting ] Segmenting tissue: 9%|β–‰ | 51/547 [18:56<5:32:50, 40.26s/it, Segmenting ] Segmenting tissue: 10%|β–‰ | 52/547 [19:44<5:49:50, 42.41s/it, Segmenting ] Segmenting tissue: 10%|β–‰ | 52/547 [19:44<5:49:50, 42.41s/it, Segmenting ] Segmenting tissue: 10%|β–‰ | 53/547 [20:07<5:01:29, 36.62s/it, Segmenting ] Segmenting tissue: 10%|β–‰ | 53/547 [20:07<5:01:29, 36.62s/it, Segmenting ] Segmenting tissue: 10%|β–‰ | 54/547 [20:30<4:28:53, 32.72s/it, Segmenting ] Segmenting tissue: 10%|β–‰ | 54/547 [20:30<4:28:53, 32.72s/it, Segmenting ] Segmenting tissue: 10%|β–ˆ | 55/547 [20:48<3:49:46, 28.02s/it, Segmenting ] Segmenting tissue: 10%|β–ˆ | 55/547 [20:48<3:49:46, 28.02s/it, Segmenting ] Segmenting tissue: 10%|β–ˆ | 56/547 [21:19<3:56:56, 28.95s/it, Segmenting ] Segmenting tissue: 10%|β–ˆ | 56/547 [21:19<3:56:56, 28.95s/it, Segmenting ] Segmenting tissue: 10%|β–ˆ | 57/547 [21:39<3:34:10, 26.22s/it, Segmenting ] Segmenting tissue: 10%|β–ˆ | 57/547 [21:39<3:34:10, 26.22s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 58/547 [21:48<2:52:28, 21.16s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 58/547 [21:48<2:52:28, 21.16s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 59/547 [22:07<2:46:28, 20.47s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 59/547 [22:07<2:46:28, 20.47s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 60/547 [22:29<2:50:48, 21.04s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 60/547 [22:29<2:50:48, 21.04s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 61/547 [22:42<2:30:05, 18.53s/it, Segmenting ] Segmenting tissue: 11%|β–ˆ | 61/547 [22:42<2:30:05, 18.53s/it, Segmenting ] Segmenting tissue: 11%|β–ˆβ– | 62/547 [23:00<2:29:14, 18.46s/it, Segmenting ] Segmenting tissue: 11%|β–ˆβ– | 62/547 [23:00<2:29:14, 18.46s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 63/547 [23:15<2:19:34, 17.30s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 63/547 [23:15<2:19:34, 17.30s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 64/547 [23:38<2:34:03, 19.14s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 64/547 [23:38<2:34:03, 19.14s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 65/547 [24:00<2:40:33, 19.99s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 65/547 [24:00<2:40:33, 19.99s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 66/547 [24:21<2:41:44, 20.18s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 66/547 [24:21<2:41:44, 20.18s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 67/547 [24:43<2:47:45, 20.97s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 67/547 [24:43<2:47:45, 20.97s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 68/547 [25:03<2:44:49, 20.65s/it, Segmenting ] Segmenting tissue: 12%|β–ˆβ– | 68/547 [25:03<2:44:49, 20.65s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 69/547 [25:29<2:55:21, 22.01s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 69/547 [25:29<2:55:21, 22.01s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 70/547 [25:46<2:43:44, 20.60s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 70/547 [25:46<2:43:44, 20.60s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 71/547 [26:03<2:36:06, 19.68s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 71/547 [26:03<2:36:06, 19.68s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 72/547 [26:11<2:08:13, 16.20s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 72/547 [26:11<2:08:13, 16.20s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 73/547 [26:29<2:11:28, 16.64s/it, Segmenting ] Segmenting tissue: 13%|β–ˆβ–Ž | 73/547 [26:29<2:11:28, 16.64s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ–Ž | 74/547 [26:45<2:10:14, 16.52s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ–Ž | 74/547 [26:45<2:10:14, 16.52s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ–Ž | 75/547 [27:12<2:34:30, 19.64s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ–Ž | 75/547 [27:12<2:34:30, 19.64s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 76/547 [27:37<2:45:06, 21.03s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 76/547 [27:37<2:45:06, 21.03s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 77/547 [27:51<2:29:19, 19.06s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 77/547 [27:51<2:29:19, 19.06s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 78/547 [28:03<2:12:01, 16.89s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 78/547 [28:03<2:12:01, 16.89s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 79/547 [28:22<2:17:47, 17.67s/it, Segmenting ] Segmenting tissue: 14%|β–ˆβ– | 79/547 [28:22<2:17:47, 17.67s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ– | 80/547 [28:45<2:28:52, 19.13s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ– | 80/547 [28:45<2:28:52, 19.13s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ– | 81/547 [29:10<2:43:11, 21.01s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ– | 81/547 [29:10<2:43:11, 21.01s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ– | 82/547 [29:26<2:29:22, 19.27s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ– | 82/547 [29:26<2:29:22, 19.27s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ–Œ | 83/547 [29:44<2:26:29, 18.94s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ–Œ | 83/547 [29:44<2:26:29, 18.94s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ–Œ | 84/547 [30:04<2:30:00, 19.44s/it, Segmenting ] Segmenting tissue: 15%|β–ˆβ–Œ | 84/547 [30:04<2:30:00, 19.44s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 85/547 [30:33<2:51:33, 22.28s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 85/547 [30:33<2:51:33, 22.28s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 86/547 [30:53<2:45:42, 21.57s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 86/547 [30:53<2:45:42, 21.57s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 87/547 [31:09<2:31:42, 19.79s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 87/547 [31:09<2:31:42, 19.79s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 88/547 [31:31<2:35:53, 20.38s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–Œ | 88/547 [31:31<2:35:53, 20.38s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–‹ | 89/547 [31:54<2:42:15, 21.26s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–‹ | 89/547 [31:54<2:42:15, 21.26s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–‹ | 90/547 [32:03<2:13:48, 17.57s/it, Segmenting ] Segmenting tissue: 16%|β–ˆβ–‹ | 90/547 [32:03<2:13:48, 17.57s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 91/547 [32:08<1:46:05, 13.96s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 91/547 [32:08<1:46:05, 13.96s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 92/547 [32:12<1:22:37, 10.90s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 92/547 [32:12<1:22:37, 10.90s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 93/547 [32:27<1:32:00, 12.16s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 93/547 [32:27<1:32:00, 12.16s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 94/547 [32:46<1:46:41, 14.13s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 94/547 [32:46<1:46:41, 14.13s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 95/547 [32:51<1:25:37, 11.37s/it, Segmenting ] Segmenting tissue: 17%|β–ˆβ–‹ | 95/547 [32:51<1:25:37, 11.37s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 96/547 [32:53<1:05:48, 8.76s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 96/547 [32:53<1:05:48, 8.76s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 97/547 [33:18<1:40:10, 13.36s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 97/547 [33:18<1:40:10, 13.36s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 98/547 [33:43<2:06:13, 16.87s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 98/547 [33:43<2:06:13, 16.87s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 99/547 [34:03<2:12:40, 17.77s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 99/547 [34:03<2:12:40, 17.77s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 100/547 [34:33<2:41:30, 21.68s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 100/547 [34:33<2:41:30, 21.68s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 101/547 [34:55<2:40:57, 21.65s/it, Segmenting ] Segmenting tissue: 18%|β–ˆβ–Š | 101/547 [34:55<2:40:57, 21.65s/it, Segmenting ] Segmenting tissue: 19%|β–ˆβ–Š | 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Segmenting ] Segmenting tissue: 20%|β–ˆβ–‰ | 108/547 [37:03<2:15:04, 18.46s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–‰ | 109/547 [37:18<2:07:17, 17.44s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–‰ | 109/547 [37:18<2:07:17, 17.44s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–ˆ | 110/547 [37:36<2:08:24, 17.63s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–ˆ | 110/547 [37:36<2:08:24, 17.63s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–ˆ | 111/547 [38:00<2:21:40, 19.50s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–ˆ | 111/547 [38:00<2:21:40, 19.50s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–ˆ | 112/547 [38:21<2:24:27, 19.92s/it, Segmenting ] Segmenting tissue: 20%|β–ˆβ–ˆ | 112/547 [38:21<2:24:27, 19.92s/it, Segmenting ] Segmenting tissue: 21%|β–ˆβ–ˆ | 113/547 [38:33<2:06:44, 17.52s/it, Segmenting ] Segmenting tissue: 21%|β–ˆβ–ˆ | 113/547 [38:33<2:06:44, 17.52s/it, Segmenting ] Segmenting tissue: 21%|β–ˆβ–ˆ | 114/547 [38:59<2:25:28, 20.16s/it, Segmenting ] Segmenting tissue: 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162/547 [54:22<2:33:18, 23.89s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–‰ | 163/547 [54:43<2:27:42, 23.08s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–‰ | 163/547 [54:43<2:27:42, 23.08s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–‰ | 164/547 [55:05<2:26:35, 22.97s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–‰ | 164/547 [55:05<2:26:35, 22.97s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–ˆ | 165/547 [55:24<2:17:19, 21.57s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–ˆ | 165/547 [55:24<2:17:19, 21.57s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–ˆ | 166/547 [55:45<2:15:30, 21.34s/it, Segmenting ] Segmenting tissue: 30%|β–ˆβ–ˆβ–ˆ | 166/547 [55:45<2:15:30, 21.34s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 167/547 [56:08<2:19:17, 21.99s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 167/547 [56:08<2:19:17, 21.99s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 168/547 [56:35<2:27:30, 23.35s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 168/547 [56:35<2:27:30, 23.35s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 169/547 [56:54<2:19:53, 22.20s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 169/547 [56:54<2:19:53, 22.20s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 170/547 [57:12<2:12:18, 21.06s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆ | 170/547 [57:12<2:12:18, 21.06s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆβ– | 171/547 [57:36<2:16:29, 21.78s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆβ– | 171/547 [57:36<2:16:29, 21.78s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆβ– | 172/547 [57:47<1:55:49, 18.53s/it, Segmenting ] Segmenting tissue: 31%|β–ˆβ–ˆβ–ˆβ– | 172/547 [57:47<1:55:49, 18.53s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 173/547 [57:57<1:39:39, 15.99s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 173/547 [57:57<1:39:39, 15.99s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 174/547 [58:08<1:31:02, 14.65s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 174/547 [58:08<1:31:02, 14.65s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 175/547 [58:19<1:23:09, 13.41s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 175/547 [58:19<1:23:09, 13.41s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 176/547 [58:35<1:26:56, 14.06s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 176/547 [58:35<1:26:56, 14.06s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 177/547 [58:44<1:18:21, 12.71s/it, Segmenting ] Segmenting tissue: 32%|β–ˆβ–ˆβ–ˆβ– | 177/547 [58:44<1:18:21, 12.71s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 178/547 [58:56<1:17:31, 12.60s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 178/547 [58:56<1:17:31, 12.60s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 179/547 [59:14<1:26:34, 14.12s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 179/547 [59:14<1:26:34, 14.12s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 180/547 [59:25<1:20:21, 13.14s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 180/547 [59:25<1:20:21, 13.14s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 181/547 [59:41<1:25:15, 13.98s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 181/547 [59:41<1:25:15, 13.98s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 182/547 [59:51<1:17:42, 12.77s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 182/547 [59:51<1:17:42, 12.77s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 183/547 [1:00:00<1:11:47, 11.83s/it, Segmenting ] Segmenting tissue: 33%|β–ˆβ–ˆβ–ˆβ–Ž | 183/547 [1:00:01<1:11:47, 11.83s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ–Ž | 184/547 [1:00:14<1:15:17, 12.44s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ–Ž | 184/547 [1:00:14<1:15:17, 12.44s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 185/547 [1:00:29<1:19:37, 13.20s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 185/547 [1:00:29<1:19:37, 13.20s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 186/547 [1:00:57<1:46:13, 17.65s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 186/547 [1:00:57<1:46:13, 17.65s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 187/547 [1:01:09<1:35:43, 15.95s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 187/547 [1:01:09<1:35:43, 15.95s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 188/547 [1:01:30<1:43:25, 17.28s/it, Segmenting ] Segmenting tissue: 34%|β–ˆβ–ˆβ–ˆβ– | 188/547 [1:01:30<1:43:25, 17.28s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ– | 189/547 [1:01:56<2:00:03, 20.12s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ– | 189/547 [1:01:56<2:00:03, 20.12s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ– | 190/547 [1:02:29<2:22:16, 23.91s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ– | 190/547 [1:02:29<2:22:16, 23.91s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ– | 191/547 [1:02:52<2:19:49, 23.57s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ– | 191/547 [1:02:52<2:19:49, 23.57s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ–Œ | 192/547 [1:03:19<2:24:44, 24.46s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ–Œ | 192/547 [1:03:19<2:24:44, 24.46s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ–Œ | 193/547 [1:03:48<2:32:42, 25.88s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ–Œ | 193/547 [1:03:48<2:32:42, 25.88s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ–Œ | 194/547 [1:04:02<2:11:01, 22.27s/it, Segmenting ] Segmenting tissue: 35%|β–ˆβ–ˆβ–ˆβ–Œ | 194/547 [1:04:02<2:11:01, 22.27s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 195/547 [1:04:15<1:54:50, 19.57s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 195/547 [1:04:15<1:54:50, 19.57s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 196/547 [1:04:33<1:51:36, 19.08s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 196/547 [1:04:33<1:51:36, 19.08s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 197/547 [1:04:43<1:35:49, 16.43s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 197/547 [1:04:43<1:35:49, 16.43s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 198/547 [1:04:54<1:26:01, 14.79s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–Œ | 198/547 [1:04:54<1:26:01, 14.79s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–‹ | 199/547 [1:05:13<1:32:54, 16.02s/it, Segmenting ] Segmenting tissue: 36%|β–ˆβ–ˆβ–ˆβ–‹ | 199/547 [1:05:13<1:32:54, 16.02s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 200/547 [1:05:37<1:47:23, 18.57s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 200/547 [1:05:37<1:47:23, 18.57s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 201/547 [1:05:50<1:36:30, 16.74s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 201/547 [1:05:50<1:36:30, 16.74s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 202/547 [1:06:09<1:40:54, 17.55s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 202/547 [1:06:09<1:40:54, 17.55s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 203/547 [1:06:28<1:41:57, 17.78s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 203/547 [1:06:28<1:41:57, 17.78s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 204/547 [1:06:45<1:40:54, 17.65s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 204/547 [1:06:45<1:40:54, 17.65s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 205/547 [1:07:12<1:57:11, 20.56s/it, Segmenting ] Segmenting tissue: 37%|β–ˆβ–ˆβ–ˆβ–‹ | 205/547 [1:07:12<1:57:11, 20.56s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 206/547 [1:07:27<1:46:36, 18.76s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 206/547 [1:07:27<1:46:36, 18.76s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 207/547 [1:07:46<1:46:48, 18.85s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 207/547 [1:07:46<1:46:48, 18.85s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 208/547 [1:08:12<1:59:19, 21.12s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 208/547 [1:08:12<1:59:19, 21.12s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 209/547 [1:08:26<1:46:58, 18.99s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 209/547 [1:08:26<1:46:58, 18.99s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 210/547 [1:08:41<1:38:28, 17.53s/it, Segmenting ] Segmenting tissue: 38%|β–ˆβ–ˆβ–ˆβ–Š | 210/547 [1:08:41<1:38:28, 17.53s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–Š | 211/547 [1:09:01<1:43:25, 18.47s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–Š | 211/547 [1:09:01<1:43:25, 18.47s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 212/547 [1:09:20<1:43:56, 18.62s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 212/547 [1:09:20<1:43:56, 18.62s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 213/547 [1:09:40<1:46:20, 19.10s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 213/547 [1:09:40<1:46:20, 19.10s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 214/547 [1:10:05<1:54:55, 20.71s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 214/547 [1:10:05<1:54:55, 20.71s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 215/547 [1:10:25<1:52:55, 20.41s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 215/547 [1:10:25<1:52:55, 20.41s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 216/547 [1:10:47<1:55:45, 20.98s/it, Segmenting ] Segmenting tissue: 39%|β–ˆβ–ˆβ–ˆβ–‰ | 216/547 [1:10:47<1:55:45, 20.98s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–‰ | 217/547 [1:11:10<1:58:48, 21.60s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–‰ | 217/547 [1:11:10<1:58:48, 21.60s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–‰ | 218/547 [1:11:36<2:05:18, 22.85s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–‰ | 218/547 [1:11:36<2:05:18, 22.85s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–ˆ | 219/547 [1:11:55<1:58:47, 21.73s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–ˆ | 219/547 [1:11:55<1:58:47, 21.73s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–ˆ | 220/547 [1:12:16<1:58:16, 21.70s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–ˆ | 220/547 [1:12:16<1:58:16, 21.70s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–ˆ | 221/547 [1:12:37<1:55:15, 21.21s/it, Segmenting ] Segmenting tissue: 40%|β–ˆβ–ˆβ–ˆβ–ˆ | 221/547 [1:12:37<1:55:15, 21.21s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 222/547 [1:12:50<1:42:22, 18.90s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 222/547 [1:12:50<1:42:22, 18.90s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 223/547 [1:13:11<1:45:19, 19.51s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 223/547 [1:13:11<1:45:19, 19.51s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 224/547 [1:13:45<2:08:16, 23.83s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 224/547 [1:13:45<2:08:16, 23.83s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 225/547 [1:14:04<2:00:54, 22.53s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆ | 225/547 [1:14:04<2:00:54, 22.53s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 226/547 [1:14:15<1:42:08, 19.09s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 226/547 [1:14:15<1:42:08, 19.09s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 227/547 [1:14:44<1:57:06, 21.96s/it, Segmenting ] Segmenting tissue: 41%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 227/547 [1:14:44<1:57:06, 21.96s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 228/547 [1:15:00<1:47:54, 20.30s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 228/547 [1:15:00<1:47:54, 20.30s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 229/547 [1:15:14<1:36:58, 18.30s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 229/547 [1:15:14<1:36:58, 18.30s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 230/547 [1:15:28<1:30:13, 17.08s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 230/547 [1:15:28<1:30:13, 17.08s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 231/547 [1:15:55<1:45:18, 19.99s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 231/547 [1:15:55<1:45:18, 19.99s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 232/547 [1:16:27<2:03:05, 23.45s/it, Segmenting ] Segmenting tissue: 42%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 232/547 [1:16:27<2:03:05, 23.45s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 233/547 [1:16:47<1:57:33, 22.46s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 233/547 [1:16:47<1:57:33, 22.46s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 234/547 [1:17:09<1:56:58, 22.42s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 234/547 [1:17:09<1:56:58, 22.42s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 235/547 [1:17:21<1:40:50, 19.39s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 235/547 [1:17:21<1:40:50, 19.39s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 236/547 [1:17:43<1:43:16, 19.92s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 236/547 [1:17:43<1:43:16, 19.92s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 237/547 [1:18:12<1:57:26, 22.73s/it, Segmenting ] Segmenting tissue: 43%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 237/547 [1:18:12<1:57:26, 22.73s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 238/547 [1:18:25<1:41:25, 19.69s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 238/547 [1:18:25<1:41:25, 19.69s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 239/547 [1:18:46<1:43:13, 20.11s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 239/547 [1:18:46<1:43:13, 20.11s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 240/547 [1:19:07<1:45:33, 20.63s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 240/547 [1:19:07<1:45:33, 20.63s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 241/547 [1:19:28<1:44:36, 20.51s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 241/547 [1:19:28<1:44:36, 20.51s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 242/547 [1:19:59<2:01:03, 23.82s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 242/547 [1:19:59<2:01:03, 23.82s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 243/547 [1:20:19<1:54:46, 22.65s/it, Segmenting ] Segmenting tissue: 44%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 243/547 [1:20:19<1:54:46, 22.65s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 244/547 [1:20:38<1:49:19, 21.65s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 244/547 [1:20:38<1:49:19, 21.65s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 245/547 [1:20:58<1:45:26, 20.95s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 245/547 [1:20:58<1:45:26, 20.95s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 246/547 [1:21:17<1:42:27, 20.42s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ– | 246/547 [1:21:17<1:42:27, 20.42s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 247/547 [1:21:44<1:52:20, 22.47s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 247/547 [1:21:44<1:52:20, 22.47s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 248/547 [1:22:03<1:46:08, 21.30s/it, Segmenting ] Segmenting tissue: 45%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 248/547 [1:22:03<1:46:08, 21.30s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 249/547 [1:22:13<1:28:48, 17.88s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 249/547 [1:22:13<1:28:48, 17.88s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 250/547 [1:22:29<1:26:41, 17.51s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 250/547 [1:22:29<1:26:41, 17.51s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 251/547 [1:22:46<1:24:44, 17.18s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 251/547 [1:22:46<1:24:44, 17.18s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 252/547 [1:22:58<1:16:37, 15.58s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 252/547 [1:22:58<1:16:37, 15.58s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 253/547 [1:23:22<1:29:13, 18.21s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 253/547 [1:23:22<1:29:13, 18.21s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 254/547 [1:23:38<1:26:10, 17.65s/it, Segmenting ] Segmenting tissue: 46%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 254/547 [1:23:38<1:26:10, 17.65s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 255/547 [1:23:58<1:29:09, 18.32s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 255/547 [1:23:58<1:29:09, 18.32s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 256/547 [1:24:11<1:21:16, 16.76s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 256/547 [1:24:11<1:21:16, 16.76s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 257/547 [1:24:32<1:26:07, 17.82s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 257/547 [1:24:32<1:26:07, 17.82s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 258/547 [1:24:55<1:33:33, 19.42s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 258/547 [1:24:55<1:33:33, 19.42s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 259/547 [1:25:12<1:30:00, 18.75s/it, Segmenting ] Segmenting tissue: 47%|β–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 259/547 [1:25:12<1:30:00, 18.75s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 260/547 [1:25:29<1:27:52, 18.37s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 260/547 [1:25:29<1:27:52, 18.37s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 261/547 [1:25:55<1:37:24, 20.44s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 261/547 [1:25:55<1:37:24, 20.44s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 262/547 [1:26:07<1:25:05, 17.92s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 262/547 [1:26:07<1:25:05, 17.92s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 263/547 [1:26:31<1:34:06, 19.88s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 263/547 [1:26:31<1:34:06, 19.88s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 264/547 [1:26:47<1:28:29, 18.76s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 264/547 [1:26:47<1:28:29, 18.76s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 265/547 [1:27:05<1:26:24, 18.39s/it, Segmenting ] Segmenting tissue: 48%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 265/547 [1:27:05<1:26:24, 18.39s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 266/547 [1:27:33<1:40:31, 21.47s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–Š | 266/547 [1:27:33<1:40:31, 21.47s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 267/547 [1:28:07<1:57:01, 25.08s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 267/547 [1:28:07<1:57:01, 25.08s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 268/547 [1:28:26<1:48:05, 23.24s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 268/547 [1:28:26<1:48:05, 23.24s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 269/547 [1:28:45<1:41:36, 21.93s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 269/547 [1:28:45<1:41:36, 21.93s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 270/547 [1:29:27<2:09:23, 28.03s/it, Segmenting ] Segmenting tissue: 49%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 270/547 [1:29:27<2:09:23, 28.03s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 271/547 [1:29:51<2:03:01, 26.75s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 271/547 [1:29:51<2:03:01, 26.75s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 272/547 [1:30:27<2:15:12, 29.50s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 272/547 [1:30:27<2:15:12, 29.50s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 273/547 [1:31:32<3:03:58, 40.29s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 273/547 [1:31:32<3:03:58, 40.29s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 274/547 [1:32:43<3:45:04, 49.47s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 274/547 [1:32:43<3:45:04, 49.47s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 275/547 [1:33:52<4:10:27, 55.25s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 275/547 [1:33:52<4:10:27, 55.25s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 276/547 [1:35:01<4:29:02, 59.57s/it, Segmenting ] Segmenting tissue: 50%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 276/547 [1:35:01<4:29:02, 59.57s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 277/547 [1:35:57<4:22:00, 58.22s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 277/547 [1:35:57<4:22:00, 58.22s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 278/547 [1:36:27<3:43:29, 49.85s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 278/547 [1:36:27<3:43:29, 49.85s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 279/547 [1:36:46<3:01:45, 40.69s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 279/547 [1:36:46<3:01:45, 40.69s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 280/547 [1:37:25<2:58:23, 40.09s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 280/547 [1:37:25<2:58:23, 40.09s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 281/547 [1:37:32<2:14:08, 30.26s/it, Segmenting ] Segmenting tissue: 51%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 281/547 [1:37:32<2:14:08, 30.26s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 282/547 [1:37:39<1:42:11, 23.14s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 282/547 [1:37:39<1:42:11, 23.14s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 283/547 [1:38:19<2:03:55, 28.17s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 283/547 [1:38:19<2:03:55, 28.17s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 284/547 [1:39:06<2:28:12, 33.81s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 284/547 [1:39:06<2:28:12, 33.81s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 285/547 [1:39:18<1:59:28, 27.36s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 285/547 [1:39:18<1:59:28, 27.36s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 286/547 [1:39:40<1:52:22, 25.83s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 286/547 [1:39:40<1:52:22, 25.83s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 287/547 [1:40:04<1:49:17, 25.22s/it, Segmenting ] Segmenting tissue: 52%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 287/547 [1:40:04<1:49:17, 25.22s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 288/547 [1:40:29<1:49:05, 25.27s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 288/547 [1:40:29<1:49:05, 25.27s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 289/547 [1:40:53<1:46:38, 24.80s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 289/547 [1:40:53<1:46:38, 24.80s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 290/547 [1:41:14<1:40:58, 23.57s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 290/547 [1:41:14<1:40:58, 23.57s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 291/547 [1:41:35<1:37:42, 22.90s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 291/547 [1:41:35<1:37:42, 22.90s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 292/547 [1:42:04<1:45:02, 24.72s/it, Segmenting ] Segmenting tissue: 53%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 292/547 [1:42:04<1:45:02, 24.72s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 293/547 [1:42:25<1:40:00, 23.63s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 293/547 [1:42:25<1:40:00, 23.63s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 294/547 [1:42:40<1:29:10, 21.15s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 294/547 [1:42:40<1:29:10, 21.15s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 295/547 [1:43:13<1:42:36, 24.43s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 295/547 [1:43:13<1:42:36, 24.43s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 296/547 [1:43:28<1:30:53, 21.73s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 296/547 [1:43:28<1:30:53, 21.73s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 297/547 [1:43:40<1:18:29, 18.84s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 297/547 [1:43:40<1:18:29, 18.84s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 298/547 [1:44:10<1:31:49, 22.12s/it, Segmenting ] Segmenting tissue: 54%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 298/547 [1:44:10<1:31:49, 22.12s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 299/547 [1:44:26<1:24:29, 20.44s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 299/547 [1:44:26<1:24:29, 20.44s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 300/547 [1:44:39<1:13:58, 17.97s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 300/547 [1:44:39<1:13:58, 17.97s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 301/547 [1:44:57<1:14:16, 18.11s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 301/547 [1:44:57<1:14:16, 18.11s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 302/547 [1:45:24<1:25:01, 20.82s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 302/547 [1:45:24<1:25:01, 20.82s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 303/547 [1:45:43<1:22:37, 20.32s/it, Segmenting ] Segmenting tissue: 55%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 303/547 [1:45:43<1:22:37, 20.32s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 304/547 [1:45:56<1:13:20, 18.11s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 304/547 [1:45:56<1:13:20, 18.11s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 305/547 [1:46:15<1:13:50, 18.31s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 305/547 [1:46:15<1:13:50, 18.31s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 306/547 [1:46:27<1:05:38, 16.34s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 306/547 [1:46:27<1:05:38, 16.34s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 307/547 [1:46:40<1:01:27, 15.37s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 307/547 [1:46:40<1:01:27, 15.37s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 308/547 [1:46:51<55:54, 14.04s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 308/547 [1:46:51<55:54, 14.04s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 309/547 [1:47:09<1:00:04, 15.14s/it, Segmenting ] Segmenting tissue: 56%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 309/547 [1:47:09<1:00:04, 15.14s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 310/547 [1:47:23<59:00, 14.94s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 310/547 [1:47:23<59:00, 14.94s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 311/547 [1:47:34<53:57, 13.72s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 311/547 [1:47:34<53:57, 13.72s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 312/547 [1:47:51<57:40, 14.72s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 312/547 [1:47:51<57:40, 14.72s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 313/547 [1:48:11<1:04:06, 16.44s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 313/547 [1:48:11<1:04:06, 16.44s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 314/547 [1:48:31<1:07:29, 17.38s/it, Segmenting ] Segmenting tissue: 57%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 314/547 [1:48:31<1:07:29, 17.38s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 315/547 [1:48:48<1:06:21, 17.16s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 315/547 [1:48:48<1:06:21, 17.16s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 316/547 [1:49:12<1:14:31, 19.36s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 316/547 [1:49:12<1:14:31, 19.36s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 317/547 [1:49:31<1:13:21, 19.14s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 317/547 [1:49:31<1:13:21, 19.14s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 318/547 [1:49:55<1:18:35, 20.59s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 318/547 [1:49:55<1:18:35, 20.59s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 319/547 [1:50:28<1:32:58, 24.47s/it, Segmenting ] Segmenting tissue: 58%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 319/547 [1:50:28<1:32:58, 24.47s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 320/547 [1:50:50<1:29:48, 23.74s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 320/547 [1:50:50<1:29:48, 23.74s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 321/547 [1:51:05<1:19:01, 20.98s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 321/547 [1:51:05<1:19:01, 20.98s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 322/547 [1:51:21<1:12:54, 19.44s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 322/547 [1:51:21<1:12:54, 19.44s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 323/547 [1:51:33<1:05:01, 17.42s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 323/547 [1:51:33<1:05:01, 17.42s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 324/547 [1:51:54<1:08:18, 18.38s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 324/547 [1:51:54<1:08:18, 18.38s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 325/547 [1:52:13<1:08:52, 18.61s/it, Segmenting ] Segmenting tissue: 59%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 325/547 [1:52:13<1:08:52, 18.61s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 326/547 [1:52:28<1:04:28, 17.50s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 326/547 [1:52:28<1:04:28, 17.50s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 327/547 [1:52:46<1:04:31, 17.60s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 327/547 [1:52:46<1:04:31, 17.60s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 328/547 [1:53:08<1:09:06, 18.93s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 328/547 [1:53:08<1:09:06, 18.93s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 329/547 [1:53:29<1:11:33, 19.69s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 329/547 [1:53:29<1:11:33, 19.69s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 330/547 [1:53:39<59:55, 16.57s/it, Segmenting ] Segmenting tissue: 60%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 330/547 [1:53:39<59:55, 16.57s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 331/547 [1:53:57<1:01:35, 17.11s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 331/547 [1:53:57<1:01:35, 17.11s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 332/547 [1:54:17<1:04:37, 18.04s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 332/547 [1:54:17<1:04:37, 18.04s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 333/547 [1:54:36<1:05:32, 18.38s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 333/547 [1:54:36<1:05:32, 18.38s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 334/547 [1:54:51<1:01:03, 17.20s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 334/547 [1:54:51<1:01:03, 17.20s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 335/547 [1:55:13<1:05:39, 18.58s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 335/547 [1:55:13<1:05:39, 18.58s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 336/547 [1:55:36<1:10:07, 19.94s/it, Segmenting ] Segmenting tissue: 61%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 336/547 [1:55:36<1:10:07, 19.94s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 337/547 [1:55:46<59:31, 17.01s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 337/547 [1:55:46<59:31, 17.01s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 338/547 [1:56:11<1:07:53, 19.49s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 338/547 [1:56:11<1:07:53, 19.49s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 339/547 [1:56:26<1:02:24, 18.00s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 339/547 [1:56:26<1:02:24, 18.00s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 340/547 [1:56:49<1:07:49, 19.66s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 340/547 [1:56:49<1:07:49, 19.66s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 341/547 [1:57:04<1:02:20, 18.16s/it, Segmenting ] Segmenting tissue: 62%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 341/547 [1:57:04<1:02:20, 18.16s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 342/547 [1:57:23<1:03:19, 18.53s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 342/547 [1:57:23<1:03:19, 18.53s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 343/547 [1:57:49<1:10:41, 20.79s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 343/547 [1:57:49<1:10:41, 20.79s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 344/547 [1:58:03<1:03:24, 18.74s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 344/547 [1:58:03<1:03:24, 18.74s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 345/547 [1:58:11<52:04, 15.47s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 345/547 [1:58:11<52:04, 15.47s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 346/547 [1:58:20<44:49, 13.38s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 346/547 [1:58:20<44:49, 13.38s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 347/547 [1:58:35<46:35, 13.98s/it, Segmenting ] Segmenting tissue: 63%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 347/547 [1:58:35<46:35, 13.98s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 348/547 [1:58:51<48:17, 14.56s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 348/547 [1:58:51<48:17, 14.56s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 349/547 [1:59:06<48:17, 14.64s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 349/547 [1:59:06<48:17, 14.64s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 350/547 [1:59:23<50:43, 15.45s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 350/547 [1:59:23<50:43, 15.45s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 351/547 [1:59:39<50:52, 15.57s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 351/547 [1:59:39<50:52, 15.57s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 352/547 [2:00:03<58:34, 18.02s/it, Segmenting ] Segmenting tissue: 64%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 352/547 [2:00:03<58:34, 18.02s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 353/547 [2:00:15<53:04, 16.41s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 353/547 [2:00:15<53:04, 16.41s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 354/547 [2:00:23<44:06, 13.71s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 354/547 [2:00:23<44:06, 13.71s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 355/547 [2:00:34<41:03, 12.83s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 355/547 [2:00:34<41:03, 12.83s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 356/547 [2:01:01<54:50, 17.23s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 356/547 [2:01:01<54:50, 17.23s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 357/547 [2:01:28<1:03:59, 20.21s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 357/547 [2:01:28<1:03:59, 20.21s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 358/547 [2:01:59<1:13:30, 23.33s/it, Segmenting ] Segmenting tissue: 65%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 358/547 [2:01:59<1:13:30, 23.33s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 359/547 [2:02:20<1:11:24, 22.79s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 359/547 [2:02:20<1:11:24, 22.79s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 360/547 [2:02:40<1:08:17, 21.91s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 360/547 [2:02:40<1:08:17, 21.91s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 361/547 [2:02:57<1:03:13, 20.40s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 361/547 [2:02:57<1:03:13, 20.40s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 362/547 [2:03:16<1:01:47, 20.04s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 362/547 [2:03:16<1:01:47, 20.04s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 363/547 [2:03:29<54:47, 17.87s/it, Segmenting ] Segmenting tissue: 66%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 363/547 [2:03:29<54:47, 17.87s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 364/547 [2:03:59<1:05:40, 21.53s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 364/547 [2:03:59<1:05:40, 21.53s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 365/547 [2:04:14<59:29, 19.61s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 365/547 [2:04:14<59:29, 19.61s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 366/547 [2:04:23<49:34, 16.44s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 366/547 [2:04:23<49:34, 16.44s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 367/547 [2:04:43<51:46, 17.26s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 367/547 [2:04:43<51:46, 17.26s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 368/547 [2:05:08<58:30, 19.61s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 368/547 [2:05:08<58:30, 19.61s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 369/547 [2:05:30<1:00:27, 20.38s/it, Segmenting ] Segmenting tissue: 67%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 369/547 [2:05:30<1:00:27, 20.38s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 370/547 [2:06:01<1:09:26, 23.54s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 370/547 [2:06:01<1:09:26, 23.54s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 371/547 [2:06:17<1:02:35, 21.34s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 371/547 [2:06:17<1:02:35, 21.34s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 372/547 [2:06:31<55:46, 19.12s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 372/547 [2:06:31<55:46, 19.12s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 373/547 [2:06:49<54:59, 18.97s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 373/547 [2:06:49<54:59, 18.97s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 374/547 [2:07:13<58:34, 20.32s/it, Segmenting ] Segmenting tissue: 68%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 374/547 [2:07:13<58:34, 20.32s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 375/547 [2:07:38<1:02:40, 21.87s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 375/547 [2:07:38<1:02:40, 21.87s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 376/547 [2:07:57<59:38, 20.93s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 376/547 [2:07:57<59:38, 20.93s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 377/547 [2:08:17<58:31, 20.65s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 377/547 [2:08:17<58:31, 20.65s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 378/547 [2:08:37<57:17, 20.34s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 378/547 [2:08:37<57:17, 20.34s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 379/547 [2:08:59<58:14, 20.80s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 379/547 [2:08:59<58:14, 20.80s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 380/547 [2:09:23<1:00:38, 21.79s/it, Segmenting ] Segmenting tissue: 69%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 380/547 [2:09:23<1:00:38, 21.79s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 381/547 [2:09:43<58:34, 21.17s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 381/547 [2:09:43<58:34, 21.17s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 382/547 [2:10:01<55:50, 20.31s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 382/547 [2:10:01<55:50, 20.31s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 383/547 [2:10:16<51:22, 18.79s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 383/547 [2:10:16<51:22, 18.79s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 384/547 [2:10:37<52:48, 19.44s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 384/547 [2:10:37<52:48, 19.44s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 385/547 [2:10:55<51:38, 19.13s/it, Segmenting ] Segmenting tissue: 70%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 385/547 [2:10:55<51:38, 19.13s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 386/547 [2:11:19<54:46, 20.41s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 386/547 [2:11:19<54:46, 20.41s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 387/547 [2:11:33<49:21, 18.51s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 387/547 [2:11:33<49:21, 18.51s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 388/547 [2:11:57<53:16, 20.11s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 388/547 [2:11:57<53:16, 20.11s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 389/547 [2:12:21<56:01, 21.28s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 389/547 [2:12:21<56:01, 21.28s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 390/547 [2:12:36<50:56, 19.47s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 390/547 [2:12:36<50:56, 19.47s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 391/547 [2:12:53<48:43, 18.74s/it, Segmenting ] Segmenting tissue: 71%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 391/547 [2:12:53<48:43, 18.74s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 392/547 [2:13:10<47:19, 18.32s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 392/547 [2:13:10<47:19, 18.32s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 393/547 [2:13:34<51:30, 20.07s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 393/547 [2:13:34<51:30, 20.07s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 394/547 [2:14:00<55:11, 21.65s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 394/547 [2:14:00<55:11, 21.65s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 395/547 [2:14:19<53:07, 20.97s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 395/547 [2:14:19<53:07, 20.97s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 396/547 [2:14:35<49:10, 19.54s/it, Segmenting ] Segmenting tissue: 72%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 396/547 [2:14:35<49:10, 19.54s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 397/547 [2:14:58<51:02, 20.42s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 397/547 [2:14:58<51:02, 20.42s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 398/547 [2:15:24<54:53, 22.10s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 398/547 [2:15:24<54:53, 22.10s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 399/547 [2:15:43<52:20, 21.22s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 399/547 [2:15:43<52:20, 21.22s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 400/547 [2:16:02<50:13, 20.50s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 400/547 [2:16:02<50:13, 20.50s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 401/547 [2:16:24<51:23, 21.12s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 401/547 [2:16:24<51:23, 21.12s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 402/547 [2:16:45<50:38, 20.96s/it, Segmenting ] Segmenting tissue: 73%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 402/547 [2:16:45<50:38, 20.96s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 403/547 [2:17:12<54:42, 22.80s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 403/547 [2:17:12<54:42, 22.80s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 404/547 [2:17:43<1:00:04, 25.21s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 404/547 [2:17:43<1:00:04, 25.21s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 405/547 [2:18:08<59:16, 25.05s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 405/547 [2:18:08<59:16, 25.05s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 406/547 [2:18:32<58:34, 24.93s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 406/547 [2:18:32<58:34, 24.93s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 407/547 [2:18:50<53:07, 22.77s/it, Segmenting ] Segmenting tissue: 74%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 407/547 [2:18:50<53:07, 22.77s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 408/547 [2:19:00<43:48, 18.91s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 408/547 [2:19:00<43:48, 18.91s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 409/547 [2:19:16<41:27, 18.02s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 409/547 [2:19:16<41:27, 18.02s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 410/547 [2:19:43<47:32, 20.82s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 410/547 [2:19:43<47:32, 20.82s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 411/547 [2:20:06<48:43, 21.50s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 411/547 [2:20:06<48:43, 21.50s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 412/547 [2:20:27<47:34, 21.14s/it, Segmenting ] Segmenting tissue: 75%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 412/547 [2:20:27<47:34, 21.14s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 413/547 [2:20:43<43:58, 19.69s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 413/547 [2:20:43<43:58, 19.69s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 414/547 [2:21:05<45:24, 20.49s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 414/547 [2:21:05<45:24, 20.49s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 415/547 [2:21:27<46:10, 20.99s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 415/547 [2:21:27<46:10, 20.99s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 416/547 [2:21:39<39:20, 18.02s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 416/547 [2:21:39<39:20, 18.02s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 417/547 [2:21:54<37:22, 17.25s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 417/547 [2:21:54<37:22, 17.25s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 418/547 [2:22:16<39:51, 18.54s/it, Segmenting ] Segmenting tissue: 76%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 418/547 [2:22:16<39:51, 18.54s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 419/547 [2:22:20<30:24, 14.25s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 419/547 [2:22:20<30:24, 14.25s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 420/547 [2:22:31<28:11, 13.32s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 420/547 [2:22:31<28:11, 13.32s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 421/547 [2:22:46<29:24, 14.00s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 421/547 [2:22:47<29:24, 14.00s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 422/547 [2:23:00<29:09, 14.00s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 422/547 [2:23:00<29:09, 14.00s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 423/547 [2:23:11<26:50, 12.99s/it, Segmenting ] Segmenting tissue: 77%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 423/547 [2:23:11<26:50, 12.99s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 424/547 [2:23:25<27:04, 13.20s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 424/547 [2:23:25<27:04, 13.20s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 425/547 [2:23:30<21:54, 10.78s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 425/547 [2:23:30<21:54, 10.78s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 426/547 [2:23:43<23:15, 11.53s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 426/547 [2:23:43<23:15, 11.53s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 427/547 [2:23:58<25:15, 12.63s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 427/547 [2:23:58<25:15, 12.63s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 428/547 [2:24:08<23:05, 11.64s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 428/547 [2:24:08<23:05, 11.64s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 429/547 [2:24:17<21:35, 10.98s/it, Segmenting ] Segmenting tissue: 78%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 429/547 [2:24:17<21:35, 10.98s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 430/547 [2:24:26<20:09, 10.33s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 430/547 [2:24:26<20:09, 10.33s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 431/547 [2:24:40<22:19, 11.55s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 431/547 [2:24:40<22:19, 11.55s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 432/547 [2:25:03<28:32, 14.90s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 432/547 [2:25:03<28:32, 14.90s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 433/547 [2:25:23<30:53, 16.26s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 433/547 [2:25:23<30:53, 16.26s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 434/547 [2:25:48<35:35, 18.90s/it, Segmenting ] Segmenting tissue: 79%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 434/547 [2:25:48<35:35, 18.90s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 435/547 [2:26:15<40:03, 21.46s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 435/547 [2:26:15<40:03, 21.46s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 436/547 [2:26:46<45:05, 24.37s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 436/547 [2:26:46<45:05, 24.37s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 437/547 [2:27:10<44:08, 24.08s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 437/547 [2:27:10<44:08, 24.08s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 438/547 [2:27:37<45:32, 25.07s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 438/547 [2:27:37<45:32, 25.07s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 439/547 [2:27:53<40:00, 22.22s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 439/547 [2:27:53<40:00, 22.22s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 440/547 [2:28:11<37:44, 21.16s/it, Segmenting ] Segmenting tissue: 80%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 440/547 [2:28:11<37:44, 21.16s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 441/547 [2:28:36<39:03, 22.11s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 441/547 [2:28:36<39:03, 22.11s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 442/547 [2:28:59<39:33, 22.61s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 442/547 [2:28:59<39:33, 22.61s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 443/547 [2:29:17<36:36, 21.12s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 443/547 [2:29:17<36:36, 21.12s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 444/547 [2:29:43<38:32, 22.45s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 444/547 [2:29:43<38:32, 22.45s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 445/547 [2:30:01<36:11, 21.29s/it, Segmenting ] Segmenting tissue: 81%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 445/547 [2:30:01<36:11, 21.29s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 446/547 [2:30:24<36:46, 21.84s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 446/547 [2:30:24<36:46, 21.84s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 447/547 [2:30:56<41:26, 24.87s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 447/547 [2:30:56<41:26, 24.87s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 448/547 [2:31:22<41:42, 25.27s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 448/547 [2:31:22<41:42, 25.27s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 449/547 [2:31:49<42:05, 25.77s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 449/547 [2:31:49<42:05, 25.77s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 450/547 [2:32:13<40:24, 24.99s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 450/547 [2:32:13<40:24, 24.99s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 451/547 [2:32:30<36:31, 22.83s/it, Segmenting ] Segmenting tissue: 82%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 451/547 [2:32:30<36:31, 22.83s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 452/547 [2:32:51<35:03, 22.14s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 452/547 [2:32:51<35:03, 22.14s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 453/547 [2:33:10<33:18, 21.26s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 453/547 [2:33:10<33:18, 21.26s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 454/547 [2:33:30<32:08, 20.73s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 454/547 [2:33:30<32:08, 20.73s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 455/547 [2:33:55<33:45, 22.01s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 455/547 [2:33:55<33:45, 22.01s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 456/547 [2:34:15<32:48, 21.63s/it, Segmenting ] Segmenting tissue: 83%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 456/547 [2:34:15<32:48, 21.63s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 457/547 [2:34:41<34:30, 23.01s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 457/547 [2:34:41<34:30, 23.01s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 458/547 [2:35:04<33:51, 22.83s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž | 458/547 [2:35:04<33:51, 22.83s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 459/547 [2:35:22<31:34, 21.53s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 459/547 [2:35:22<31:34, 21.53s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 460/547 [2:35:32<25:51, 17.83s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 460/547 [2:35:32<25:51, 17.83s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 461/547 [2:35:47<24:41, 17.23s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 461/547 [2:35:47<24:41, 17.23s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 462/547 [2:35:57<21:06, 14.90s/it, Segmenting ] Segmenting tissue: 84%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 462/547 [2:35:57<21:06, 14.90s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 463/547 [2:36:15<22:11, 15.85s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 463/547 [2:36:15<22:11, 15.85s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 464/547 [2:36:28<20:38, 14.92s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ– | 464/547 [2:36:28<20:38, 14.92s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 465/547 [2:36:46<21:39, 15.84s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 465/547 [2:36:46<21:39, 15.84s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 466/547 [2:37:05<22:38, 16.77s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 466/547 [2:37:05<22:38, 16.77s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 467/547 [2:37:28<25:00, 18.76s/it, Segmenting ] Segmenting tissue: 85%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 467/547 [2:37:28<25:00, 18.76s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 468/547 [2:37:40<22:02, 16.74s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 468/547 [2:37:40<22:02, 16.74s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 469/547 [2:37:59<22:48, 17.55s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 469/547 [2:37:59<22:48, 17.55s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 470/547 [2:38:20<23:37, 18.41s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 470/547 [2:38:20<23:37, 18.41s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 471/547 [2:38:35<22:12, 17.53s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ | 471/547 [2:38:35<22:12, 17.53s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 472/547 [2:38:51<21:05, 16.87s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 472/547 [2:38:51<21:05, 16.87s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 473/547 [2:39:09<21:12, 17.20s/it, Segmenting ] Segmenting tissue: 86%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 473/547 [2:39:09<21:12, 17.20s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 474/547 [2:39:35<24:03, 19.78s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 474/547 [2:39:35<24:03, 19.78s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 475/547 [2:40:07<28:15, 23.55s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 475/547 [2:40:07<28:15, 23.55s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 476/547 [2:40:33<28:38, 24.20s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 476/547 [2:40:33<28:38, 24.20s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 477/547 [2:40:45<24:05, 20.65s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 477/547 [2:40:45<24:05, 20.65s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 478/547 [2:40:59<21:30, 18.70s/it, Segmenting ] Segmenting tissue: 87%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹ | 478/547 [2:40:59<21:30, 18.70s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 479/547 [2:41:11<18:54, 16.69s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 479/547 [2:41:11<18:54, 16.69s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 480/547 [2:41:32<20:00, 17.92s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 480/547 [2:41:32<20:00, 17.92s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 481/547 [2:42:05<24:51, 22.61s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 481/547 [2:42:05<24:51, 22.61s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 482/547 [2:42:38<27:35, 25.46s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 482/547 [2:42:38<27:35, 25.46s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 483/547 [2:43:06<28:05, 26.33s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 483/547 [2:43:06<28:05, 26.33s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 484/547 [2:43:19<23:34, 22.46s/it, Segmenting ] Segmenting tissue: 88%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 484/547 [2:43:19<23:34, 22.46s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 485/547 [2:43:29<19:22, 18.75s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š | 485/547 [2:43:29<19:22, 18.75s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 486/547 [2:43:44<17:48, 17.52s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 486/547 [2:43:44<17:48, 17.52s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 487/547 [2:43:55<15:36, 15.62s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 487/547 [2:43:55<15:36, 15.62s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 488/547 [2:44:10<15:10, 15.44s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 488/547 [2:44:10<15:10, 15.44s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 489/547 [2:44:25<14:49, 15.33s/it, Segmenting ] Segmenting tissue: 89%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 489/547 [2:44:25<14:49, 15.33s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 490/547 [2:44:41<14:43, 15.51s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 490/547 [2:44:41<14:43, 15.51s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 491/547 [2:45:11<18:35, 19.92s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 491/547 [2:45:11<18:35, 19.92s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 492/547 [2:45:28<17:19, 18.90s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰ | 492/547 [2:45:28<17:19, 18.90s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 493/547 [2:45:58<19:55, 22.13s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 493/547 [2:45:58<19:55, 22.13s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 494/547 [2:46:40<24:57, 28.26s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 494/547 [2:46:40<24:57, 28.26s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 495/547 [2:47:25<28:41, 33.10s/it, Segmenting ] Segmenting tissue: 90%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 495/547 [2:47:25<28:41, 33.10s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 496/547 [2:48:11<31:31, 37.09s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 496/547 [2:48:11<31:31, 37.09s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 497/547 [2:48:51<31:39, 38.00s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 497/547 [2:48:51<31:39, 38.00s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 498/547 [2:49:30<31:08, 38.13s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 498/547 [2:49:30<31:08, 38.13s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 499/547 [2:50:05<29:45, 37.20s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ | 499/547 [2:50:05<29:45, 37.20s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 500/547 [2:50:44<29:45, 37.99s/it, Segmenting ] Segmenting tissue: 91%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 500/547 [2:50:44<29:45, 37.99s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 501/547 [2:51:11<26:26, 34.50s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 501/547 [2:51:11<26:26, 34.50s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 502/547 [2:51:43<25:18, 33.73s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 502/547 [2:51:43<25:18, 33.73s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 503/547 [2:52:12<23:45, 32.41s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 503/547 [2:52:12<23:45, 32.41s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 504/547 [2:52:48<24:05, 33.61s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 504/547 [2:52:48<24:05, 33.61s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 505/547 [2:53:29<24:52, 35.55s/it, Segmenting ] Segmenting tissue: 92%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 505/547 [2:53:29<24:52, 35.55s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 506/547 [2:53:58<23:04, 33.77s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 506/547 [2:53:58<23:04, 33.77s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 507/547 [2:54:45<25:08, 37.70s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 507/547 [2:54:45<25:08, 37.70s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 508/547 [2:55:19<23:49, 36.65s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 508/547 [2:55:19<23:49, 36.65s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 509/547 [2:55:54<22:53, 36.15s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 509/547 [2:55:54<22:53, 36.15s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 510/547 [2:56:53<26:27, 42.91s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 510/547 [2:56:53<26:27, 42.91s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 511/547 [2:57:29<24:34, 40.95s/it, Segmenting ] Segmenting tissue: 93%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 511/547 [2:57:29<24:34, 40.95s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 512/547 [2:58:13<24:17, 41.65s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Ž| 512/547 [2:58:13<24:17, 41.65s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 513/547 [2:58:31<19:43, 34.81s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 513/547 [2:58:31<19:43, 34.81s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 514/547 [2:58:52<16:51, 30.65s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 514/547 [2:58:52<16:51, 30.65s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 515/547 [2:59:14<14:54, 27.96s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 515/547 [2:59:14<14:54, 27.96s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 516/547 [2:59:27<12:10, 23.58s/it, Segmenting ] Segmenting tissue: 94%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 516/547 [2:59:27<12:10, 23.58s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 517/547 [2:59:44<10:49, 21.63s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 517/547 [2:59:44<10:49, 21.63s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 518/547 [3:00:10<11:00, 22.78s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 518/547 [3:00:10<11:00, 22.78s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 519/547 [3:00:26<09:37, 20.61s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–| 519/547 [3:00:26<09:37, 20.61s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 520/547 [3:00:33<07:29, 16.63s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 520/547 [3:00:33<07:29, 16.63s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 521/547 [3:00:45<06:36, 15.25s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 521/547 [3:00:45<06:36, 15.25s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 522/547 [3:00:59<06:13, 14.94s/it, Segmenting ] Segmenting tissue: 95%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 522/547 [3:00:59<06:13, 14.94s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 523/547 [3:01:25<07:21, 18.38s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 523/547 [3:01:25<07:21, 18.38s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 524/547 [3:01:41<06:41, 17.46s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 524/547 [3:01:41<06:41, 17.46s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 525/547 [3:01:50<05:29, 14.96s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 525/547 [3:01:50<05:29, 14.96s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 526/547 [3:02:20<06:51, 19.58s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Œ| 526/547 [3:02:20<06:51, 19.58s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 527/547 [3:02:40<06:32, 19.61s/it, Segmenting ] Segmenting tissue: 96%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 527/547 [3:02:40<06:32, 19.61s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 528/547 [3:03:07<06:53, 21.76s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 528/547 [3:03:07<06:53, 21.76s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 529/547 [3:03:40<07:33, 25.18s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 529/547 [3:03:40<07:33, 25.18s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 530/547 [3:03:52<06:01, 21.24s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 530/547 [3:03:52<06:01, 21.24s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 531/547 [3:04:09<05:19, 19.97s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 531/547 [3:04:09<05:19, 19.97s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 532/547 [3:04:33<05:19, 21.28s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 532/547 [3:04:33<05:19, 21.28s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 533/547 [3:04:53<04:52, 20.90s/it, Segmenting ] Segmenting tissue: 97%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‹| 533/547 [3:04:53<04:52, 20.90s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 534/547 [3:05:14<04:29, 20.71s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 534/547 [3:05:14<04:29, 20.71s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 535/547 [3:05:28<03:46, 18.85s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 535/547 [3:05:28<03:46, 18.85s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 536/547 [3:05:52<03:45, 20.51s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 536/547 [3:05:52<03:45, 20.51s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 537/547 [3:06:10<03:14, 19.49s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 537/547 [3:06:10<03:14, 19.49s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 538/547 [3:06:35<03:12, 21.41s/it, Segmenting ] Segmenting tissue: 98%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 538/547 [3:06:35<03:12, 21.41s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 539/547 [3:06:54<02:43, 20.49s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 539/547 [3:06:54<02:43, 20.49s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 540/547 [3:07:08<02:09, 18.51s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–Š| 540/547 [3:07:08<02:09, 18.51s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 541/547 [3:07:24<01:47, 17.84s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 541/547 [3:07:24<01:47, 17.84s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 542/547 [3:07:37<01:22, 16.51s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 542/547 [3:07:37<01:22, 16.51s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 543/547 [3:08:00<01:13, 18.34s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 543/547 [3:08:00<01:13, 18.34s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 544/547 [3:08:18<00:54, 18.10s/it, Segmenting ] Segmenting tissue: 99%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 544/547 [3:08:18<00:54, 18.10s/it, Segmenting ] Segmenting tissue: 100%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 545/547 [3:08:35<00:36, 18.01s/it, Segmenting ] Segmenting tissue: 100%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 545/547 [3:08:35<00:36, 18.01s/it, Segmenting ] Segmenting tissue: 100%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 546/547 [3:08:57<00:19, 19.25s/it, Segmenting ] Segmenting tissue: 100%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–‰| 546/547 [3:08:57<00:19, 19.25s/it, Segmenting ] Segmenting tissue: 100%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ| 547/547 [3:09:17<00:00, 19.27s/it, Segmenting ] Segmenting tissue: 100%|β–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆβ–ˆ| 547/547 [3:09:17<00:00, 20.76s/it, Segmenting ] +Traceback (most recent call last): + File "/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/hf_cache/bundle/scripts/trident/run_batch_of_slides.py", line 21, in + from trident import Processor + ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ + File "/mnt/vast-kisski/projects/kisski-imm/thanm_WSI/hf_cache/bundle/scripts/trident/trident/__init__.py", line 8, in + from trident.wsi_objects.OpenSlideWSI import OpenSlideWSI + File "/mnt/vast-kisski/projects/kisski-imm/thanm_WSI/hf_cache/bundle/scripts/trident/trident/wsi_objects/OpenSlideWSI.py", line 7, in + from trident.wsi_objects.WSI import WSI, ReadMode +ModuleNotFoundError: No module named 'trident.wsi_objects.WSI' +Traceback (most recent call last): + File "", line 35, in + File "", line 30, in run + File "/sw/rev/25.04/rome_mofed_cuda80_rocky8/linux-rocky8-zen2/gcc-13.2.0/python-3.11.9-kukywutwnl5yzx55y6qol3awkq2g7vw6/lib/python3.11/subprocess.py", line 413, in check_call + raise CalledProcessError(retcode, cmd) +subprocess.CalledProcessError: Command '['/mnt/vast-kisski/projects/kisski-imm/thanm_WSI/env/WSI-Embedding/bin/python3', '/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/hf_cache/bundle/scripts/trident/run_batch_of_slides.py', '--task', 'coords', '--wsi_dir', '/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/hf_cache/dataset/BRACS-staging/svs', '--job_dir', '/projects/extern/kisski/kisski-imm/dir.project/thanm_WSI/runs-information/full-int-BRACS', '--segmenter', 'hest', '--gpus', '0', '--mag', '20.0', '--patch_size', '512', '--overlap', '0', '--max_workers', '4', '--batch_size', '64', '--skip_errors', '--clear_dead_locks', '--patch_encoder', 'conch_v15', '--search_nested']' returned non-zero exit status 1. diff --git a/Run-Information/runs-report/BRACS/slurm-stderr-15563745.log b/Run-Information/runs-report/BRACS/slurm-stderr-15563745.log new file mode 100644 index 0000000000000000000000000000000000000000..2c2e693f598ad70a9107506dced61150fcdefb99 --- /dev/null +++ b/Run-Information/runs-report/BRACS/slurm-stderr-15563745.log @@ -0,0 +1,5 @@ +WARNING: no mpp-override.csv -- using embedded metadata as-is. + Saving tissue coordinates to 20x_512px_0px_overlap: 0%| | 0/547 [00:00