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48d2aab
feat: correction tiles
ejdam87 Mar 9, 2026
84a2ca1
feat: correct metadata
ejdam87 Mar 9, 2026
79e2005
feat: add docstring
ejdam87 Mar 11, 2026
e33873c
feat: rebase
ejdam87 Mar 16, 2026
33c574e
fix: lm notes
ejdam87 Mar 16, 2026
069930b
feat: prepare modules
ejdam87 Mar 17, 2026
d062de9
feat: prepare for training
ejdam87 Mar 17, 2026
3e453f8
fix: add unlabeled processor
ejdam87 Mar 17, 2026
e20f94f
fix: prefix
ejdam87 Mar 17, 2026
483f9e1
fix: import
ejdam87 Mar 17, 2026
25c6193
fix: typo
ejdam87 Mar 17, 2026
7c5eb79
feat: google vit inference configs
ejdam87 Mar 19, 2026
b60682e
feat: different Lr
ejdam87 Mar 19, 2026
5c88dc0
feat: warmuup
ejdam87 Mar 21, 2026
14e4ce1
fix: add imports
ejdam87 Mar 21, 2026
f0bb3e6
feat: basic augments
ejdam87 Mar 22, 2026
0725828
feat: use standard decomposition
ejdam87 Mar 23, 2026
1c35e22
fix: import
ejdam87 Mar 23, 2026
fb654f4
feat: module hierarchy
ejdam87 Mar 23, 2026
0d0782c
feat: classifier hierarchy
ejdam87 Mar 23, 2026
2b8d133
fix: add pooling
ejdam87 Mar 23, 2026
0468fa8
feat: clean dataset configs
ejdam87 Mar 23, 2026
b05172c
feat: rebase
ejdam87 Mar 24, 2026
0aec425
feat: new staining augmentation
ejdam87 Mar 24, 2026
0998544
feat: fix param name
ejdam87 Mar 24, 2026
07fe542
fix: do not include backbone in embedding models
ejdam87 Mar 25, 2026
7bd17d0
fix: importing old model
ejdam87 Mar 25, 2026
3c5431a
feat: use just backbone directly
ejdam87 Mar 25, 2026
31db90d
feat: add new checkpoint
ejdam87 Mar 27, 2026
9bd3d02
feat: ruff
ejdam87 Mar 27, 2026
fda9da7
fix: mypy
ejdam87 Mar 27, 2026
3647ea0
fix: ruff
ejdam87 Mar 27, 2026
9ef606a
fix: comments
ejdam87 Mar 27, 2026
2726712
feat: new checkpoint
ejdam87 Mar 31, 2026
398472d
feat: rebase
ejdam87 Apr 1, 2026
4ba973e
feat: set estimated tl threshold
ejdam87 Apr 1, 2026
7e67938
feat: rebase
ejdam87 Apr 21, 2026
04ea6d4
feat: MIL module
ejdam87 Apr 21, 2026
c927cf8
feat: mil forward
ejdam87 Apr 24, 2026
da13b0c
feat: separate tile embedding data
ejdam87 Apr 24, 2026
c0f8eeb
feat: datamodule strucutre
ejdam87 Apr 24, 2026
6e317c7
feat: datamodule configs
ejdam87 Apr 24, 2026
e50a2f4
feat: mil training config
ejdam87 Apr 24, 2026
14c7a13
feat: prepare training mil
ejdam87 Apr 24, 2026
b74bf20
feat: use uris
ejdam87 Apr 24, 2026
9b78335
feat: update embeds
ejdam87 Apr 24, 2026
2efe663
fix: index
ejdam87 Apr 26, 2026
ee6bbce
fix: collate
ejdam87 Apr 26, 2026
14a3368
feat: increase epochs
ejdam87 Apr 27, 2026
1e9de83
feat: replace linear with embedding classifier
ejdam87 Apr 27, 2026
feb8e6a
feat: revert to linear
ejdam87 Apr 27, 2026
2a15dd4
feat: mil pred callback
ejdam87 Apr 27, 2026
8d1e866
feat: mil callback configs
ejdam87 Apr 27, 2026
e316aae
fix: name
ejdam87 Apr 29, 2026
8c8f1cd
feat: rebase
ejdam87 May 16, 2026
ddbbc8b
feat: nest model
ejdam87 May 16, 2026
289e485
fix: path
ejdam87 May 16, 2026
dfdc710
fix: add stats
ejdam87 May 16, 2026
ed1da44
feat: do not enforce tl threshold
ejdam87 May 16, 2026
73fce9f
chore: debug
ejdam87 May 16, 2026
c71fe76
feat: another debug
ejdam87 May 16, 2026
a0d7312
chore: debug
ejdam87 May 16, 2026
8d51cbb
feat: custom collate
ejdam87 May 16, 2026
1655d02
fix: cpu migrate
ejdam87 May 16, 2026
4fbbd67
feat: tl sl train
ejdam87 May 18, 2026
6227786
feat: tl sl tran
ejdam87 May 19, 2026
7ce545c
feat: train data
ejdam87 May 20, 2026
5fe861d
fix: add tl th
ejdam87 May 20, 2026
101cd31
feat: do not use series
ejdam87 May 21, 2026
6ab94cb
fix: padding
ejdam87 May 21, 2026
e4c164d
feat: extended mil model
ejdam87 May 22, 2026
6522599
fix: add tl threshold
ejdam87 May 22, 2026
5211743
fix: typo
ejdam87 May 22, 2026
b663b02
feat: generalize
ejdam87 May 22, 2026
209457a
feat: show also attention
ejdam87 May 22, 2026
e746d36
feat: rescale attn
ejdam87 May 25, 2026
267b570
feat: rebase
ejdam87 Jun 5, 2026
59cde6a
feat: add sl
ejdam87 Jun 5, 2026
4e61bfe
feat: rebase
ejdam87 Jun 9, 2026
3ed778e
feat: training
ejdam87 Jun 9, 2026
050701b
fix: module
ejdam87 Jun 9, 2026
4b7576a
feat: per task loss
ejdam87 Jun 9, 2026
67c0627
feat: weighted tl loss
ejdam87 Jun 9, 2026
bea3819
feat: drop dropout
ejdam87 Jun 10, 2026
3fe8e36
feat: add partial losses log
ejdam87 Jun 11, 2026
6ae3fe9
fix: lint
ejdam87 Jun 11, 2026
f1e9ef9
feat: renaming
ejdam87 Jun 12, 2026
9b0e882
feat: comment
ejdam87 Jun 12, 2026
cd8c6cf
feat: models
ejdam87 Jun 12, 2026
bbda8d2
fix: bool array
ejdam87 Jun 12, 2026
ef7068b
feat: tile filtering
ejdam87 Jun 13, 2026
d5fad1b
feat: mmci sl
ejdam87 Jun 13, 2026
74c15d4
feat: filtering
ejdam87 Jun 14, 2026
8fa58b9
fix: apply fixes
ejdam87 Jun 14, 2026
3043a84
feat: fixed dim
ejdam87 Jun 14, 2026
335da9a
feat: no norm
ejdam87 Jun 14, 2026
b192caf
fix: log embeds
ejdam87 Jun 14, 2026
0c94ce4
fix: nest
ejdam87 Jun 14, 2026
e1730f2
feat: filtered uris
ejdam87 Jun 14, 2026
3ce29c1
fix: not filter carcinoma
ejdam87 Jun 14, 2026
8f0eefe
feat: new uris
ejdam87 Jun 14, 2026
b66a7a6
feat: mergig
ejdam87 Jun 15, 2026
a179cf5
fix: lint
ejdam87 Jun 15, 2026
3ac86da
fix: param name
ejdam87 Jun 15, 2026
970b398
feat: merged parquets
ejdam87 Jun 16, 2026
ebb797b
fix: tl macro avg
ejdam87 Jun 16, 2026
6183794
feat: rebase
ejdam87 Jun 16, 2026
223b4d4
feat: rebase
ejdam87 Jun 17, 2026
6634bec
feat: remove filtering
ejdam87 Jun 17, 2026
cd159f1
feat: HF dataset
ejdam87 Jun 17, 2026
e41cdac
fix: typo
ejdam87 Jun 17, 2026
d2bde8a
fix: rem assert
ejdam87 Jun 17, 2026
3904ee0
fix: callbacks
ejdam87 Jun 17, 2026
1977d60
fix: downgrade mlkit
ejdam87 Jun 17, 2026
7bc7c08
fix: datasets
ejdam87 Jun 17, 2026
586d0c3
fix: proper glob
ejdam87 Jun 17, 2026
d38c8e2
fix: proper glob
ejdam87 Jun 17, 2026
aa69e1f
fix: type
ejdam87 Jun 17, 2026
d0a0c22
fix: rem comment
ejdam87 Jun 17, 2026
68a9ee8
feat: classic
ejdam87 Jun 17, 2026
b7fc3ee
feat: rebase
ejdam87 Jun 17, 2026
ae70f9a
feat: replace log table
ejdam87 Jun 17, 2026
4a27cbb
fix: setup
ejdam87 Jun 17, 2026
c19c25e
feat: replace log table
ejdam87 Jun 18, 2026
211a309
fix: meta
ejdam87 Jun 18, 2026
6eff997
fix: filtering
ejdam87 Jun 18, 2026
b78209c
feat: freeze
ejdam87 Jun 18, 2026
37e290a
fix: filter
ejdam87 Jun 18, 2026
4945468
fix: index
ejdam87 Jun 18, 2026
8227536
fix: missing import
ejdam87 Jun 18, 2026
4a0f6ba
fix: sampler bag
ejdam87 Jun 18, 2026
21d7ebf
fix: mypy
ejdam87 Jun 18, 2026
a7f4177
fix: lint
ejdam87 Jun 18, 2026
3fd03f7
fix: patch mlflow
ejdam87 Jun 20, 2026
9266145
fix: lint
ejdam87 Jun 20, 2026
9cbd268
fix: downgrade
ejdam87 Jun 20, 2026
0e775bc
feat: resolve comments
ejdam87 Jun 21, 2026
4367cc6
feat: try builtin
ejdam87 Jun 21, 2026
beef126
fix: lint and indexing
ejdam87 Jun 21, 2026
9b507c6
feat: try gene
ejdam87 Jun 21, 2026
6a71bd6
feat: invoke check
ejdam87 Jun 22, 2026
8183dc8
fix: meta
ejdam87 Jun 22, 2026
f1e5186
fix: missing bs
ejdam87 Jun 22, 2026
a10b5e7
feat: erase thresholds from main config
ejdam87 Jun 22, 2026
467cc18
feat: my filter
ejdam87 Jun 22, 2026
f17cd75
fix: carcinoma t
ejdam87 Jun 22, 2026
38d9515
feat: rebase
ejdam87 Jun 22, 2026
18ed506
feat: stricter typing
ejdam87 Jun 23, 2026
a1ba10e
feat: pgp augmented training
ejdam87 Jun 23, 2026
0afc18d
fix: model path
ejdam87 Jun 23, 2026
b084a11
fix: proper import
ejdam87 Jun 23, 2026
790ff07
fix: name
ejdam87 Jun 23, 2026
4cf6644
fix: eval
ejdam87 Jun 23, 2026
b66555a
fix: freeze
ejdam87 Jun 23, 2026
3127e2d
fix: freezing
ejdam87 Jun 23, 2026
22a0610
feat: light checkpoint
ejdam87 Jun 24, 2026
44f2237
feat: pgp stain model
ejdam87 Jun 25, 2026
d957b18
feat: try preds
ejdam87 Jun 25, 2026
e67036a
fix: model name
ejdam87 Jun 25, 2026
d3e5eb9
fix: nest
ejdam87 Jun 25, 2026
dec4097
feat: prepare virchow2 training
ejdam87 Jun 25, 2026
4d90926
feat: redesign
ejdam87 Jun 29, 2026
4d7f215
feat: add full stain trained variant
ejdam87 Jun 29, 2026
0735533
fix: proper inheritance
ejdam87 Jun 29, 2026
91c3f00
feat: try smaller bs
ejdam87 Jun 30, 2026
5cdb54d
feat: fix mlkit
ejdam87 Jun 30, 2026
eaa1c8d
feat: advanced setup
ejdam87 Jul 1, 2026
b51c34e
feat: virchow2 stain
ejdam87 Jul 1, 2026
a0b15f2
feat: move to embeds
ejdam87 Jul 1, 2026
d63b20c
feat: heatmaps
ejdam87 Jul 1, 2026
2e41cd9
feat: tl test
ejdam87 Jul 1, 2026
d5d492e
feat: v2stain heat and amx
ejdam87 Jul 2, 2026
656e2ce
fix: last slide
ejdam87 Jul 2, 2026
d1183e1
fix: super call
ejdam87 Jul 2, 2026
b47a692
feat: use main mlkit
ejdam87 Jul 2, 2026
7db49fd
feat: update lock
ejdam87 Jul 2, 2026
c0563c7
feat: loader
ejdam87 Jul 2, 2026
b91ba01
fix: id
ejdam87 Jul 2, 2026
f36850f
fix: tl t v2s
ejdam87 Jul 3, 2026
c5659de
feat: ps
ejdam87 Jul 3, 2026
1f52750
feat: ps heatmaps
ejdam87 Jul 3, 2026
68a5bc1
feat: pgp tl t
ejdam87 Jul 3, 2026
4e21497
feat: rebase
ejdam87 Jul 3, 2026
8bc23e9
feat: pgp stain
ejdam87 Jul 3, 2026
c0c9087
feat: max aggr
ejdam87 Jul 3, 2026
cab2ec0
feat: estimations
ejdam87 Jul 3, 2026
39144ad
feat: up to topk
ejdam87 Jul 4, 2026
f534822
feat: span
ejdam87 Jul 4, 2026
d8fd4aa
feat: evals
ejdam87 Jul 4, 2026
b44032e
feat: sl test tl test
ejdam87 Jul 5, 2026
f7bb19d
feat: mmci tl eval
ejdam87 Jul 5, 2026
80cf5fe
feat: update non inferiority
ejdam87 Jul 5, 2026
f744bef
feat: rebase
ejdam87 Jul 7, 2026
557d9aa
feat: rebase
ejdam87 Jul 7, 2026
62ee45a
feat: rebase
ejdam87 Jul 7, 2026
218c73e
feat: remove full fine tune
ejdam87 Jul 7, 2026
07e12e5
fix: checkpoint loading
ejdam87 Jul 8, 2026
3abff4c
feat: test non strict load
ejdam87 Jul 8, 2026
e197851
fix: header
ejdam87 Jul 8, 2026
e28c5d9
fix: mapping
ejdam87 Jul 8, 2026
e091df6
fix: lint
ejdam87 Jul 8, 2026
3ff3901
feat: remove test pgp
ejdam87 Jul 8, 2026
9f016f5
feat: smaller patch size
ejdam87 Jul 8, 2026
3f198e8
feat: rebase
ejdam87 Jul 9, 2026
4f85267
feat: rename
ejdam87 Jul 9, 2026
0b52b7e
fix: missing brace
ejdam87 Jul 9, 2026
bfa044d
feat: TL thresholds
ejdam87 Jul 16, 2026
c712550
feat: estimations
ejdam87 Jul 16, 2026
7b5ae1f
feat: rebase
ejdam87 Jul 16, 2026
db84213
feat: update TL thresholds
ejdam87 Jul 16, 2026
9be08ec
feat: add new est. runs
ejdam87 Jul 17, 2026
da35f0a
feat: rename to 224x224
ejdam87 Jul 17, 2026
2089426
feat: revert to 512x512
ejdam87 Jul 17, 2026
13e6cf3
feat: 224 traning configs
ejdam87 Jul 17, 2026
a6e1e00
feat: resnet configs
ejdam87 Jul 17, 2026
23dff27
feat: bring back 512 models
ejdam87 Jul 17, 2026
1d45334
feat: test add 224
ejdam87 Jul 17, 2026
8cd6fb2
feat: estimations nest
ejdam87 Jul 17, 2026
ced444f
feat: restructure and delete
ejdam87 Jul 17, 2026
e5a91d2
feat: aggr eval
ejdam87 Jul 18, 2026
d324277
feat: mmci sl group 1 work
ejdam87 Jul 19, 2026
9624773
feat: non inferiority
ejdam87 Jul 19, 2026
6916774
feat: tl val heatmaps
ejdam87 Jul 19, 2026
bd78d3c
feat: resnet50
ejdam87 Jul 19, 2026
9b16004
feat: rebase
ejdam87 Jul 19, 2026
807541e
feat: tl test
ejdam87 Jul 19, 2026
a595f81
fix: mmci tl
ejdam87 Jul 19, 2026
f40091c
feat: rebase
ejdam87 Jul 20, 2026
363d6ae
feat: fix kernel size
ejdam87 Jul 21, 2026
ec36a86
feat: new threshold
ejdam87 Jul 21, 2026
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Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/mpm/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/resnet50_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/mpm/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/mpm/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/vgg16_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/mpm/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/vgg16_stain_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/span/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/resnet50_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/span/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/span/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/vgg16_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/span/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/vgg16_stain_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/top_k/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/resnet50_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/top_k/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/top_k/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/vgg16_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/eval_estimation/top_k/base
- /data/mmci/sl_group_1@data
- /model/checkpoints/mmci_tl/vgg16_stain_224@model_data
- _self_
Original file line number Diff line number Diff line change
@@ -0,0 +1,5 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/base
- /model/checkpoints/mmci_tl/resnet50_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,5 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/base
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/resnet50/base_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.max.mmci_sl_group_1}
Original file line number Diff line number Diff line change
@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/resnet50/base_stain_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.max.mmci_sl_group_1}
Original file line number Diff line number Diff line change
@@ -0,0 +1,5 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/base
- /model/checkpoints/mmci_tl/vgg16_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,5 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/base
- /model/checkpoints/mmci_tl/vgg16_stain_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/vgg16/base_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.max.mmci_sl_group_1}
Original file line number Diff line number Diff line change
@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/max_aggregations/vgg16/base_stain_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.max.mmci_sl_group_1}
Original file line number Diff line number Diff line change
@@ -0,0 +1,4 @@
# @package _global_

defaults:
- /model/checkpoints/mmci_tl/resnet50_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,4 @@
# @package _global_

defaults:
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,9 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/mean_pool_max_aggregations/resnet50/base_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.mean_pool_max.mmci_sl_group_1}
pred_column: "pred_kernel_size=6"
Original file line number Diff line number Diff line change
@@ -0,0 +1,9 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/mean_pool_max_aggregations/resnet50/base_stain_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.mean_pool_max.mmci_sl_group_1}
pred_column: "pred_kernel_size=1"
Original file line number Diff line number Diff line change
@@ -0,0 +1,4 @@
# @package _global_

defaults:
- /model/checkpoints/mmci_tl/vgg16_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,4 @@
# @package _global_

defaults:
- /model/checkpoints/mmci_tl/vgg16_stain_224@model_data
Original file line number Diff line number Diff line change
@@ -0,0 +1,9 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/mean_pool_max_aggregations/vgg16/base_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.mean_pool_max.mmci_sl_group_1}
pred_column: "pred_kernel_size=7"
Original file line number Diff line number Diff line change
@@ -0,0 +1,9 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/mean_pool_max_aggregations/vgg16/base_stain_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.mean_pool_max.mmci_sl_group_1}
pred_column: "pred_kernel_size=1"
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# @package _global_

defaults:
- /model/checkpoints/mmci_tl/resnet50_224@model_data
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# @package _global_

defaults:
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/top_k_aggregations/resnet50/base_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.top_k.mmci_sl_group_1}
pred_column: "pred_kernel_size=5_k=4"
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/top_k_aggregations/resnet50/base_stain_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.top_k.mmci_sl_group_1}
pred_column: "pred_kernel_size=1_k=2"
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# @package _global_

defaults:
- /model/checkpoints/mmci_tl/vgg16_224@model_data
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# @package _global_

defaults:
- /model/checkpoints/mmci_tl/vgg16_stain_224@model_data
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@@ -0,0 +1,9 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/top_k_aggregations/vgg16/base_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.top_k.mmci_sl_group_1}
pred_column: "pred_kernel_size=5_k=4"
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@@ -0,0 +1,9 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_curves/top_k_aggregations/vgg16/base_stain_224
- /data/mmci/sl_group_1@data
- _self_

preds_uri: ${model_data.slide_level_prediction_uris.top_k.mmci_sl_group_1}
pred_column: "pred_kernel_size=1_k=4"
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@@ -0,0 +1,4 @@
# @package _global_

defaults:
- /model/checkpoints/mmci_tl/resnet50_224@model_data
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@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/base

aggregation_method: "Max"
pred_column: "prediction"
t: ${model_data.slide_max_threshold}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/max_aggregations/base
- /data/mmci/sl_group_1@data

preds_uri: ${model_data.slide_level_prediction_uris.max.mmci_sl_group_1}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/max_aggregations/base
- /data/mmci/tl_test@data

preds_uri: null
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/base

aggregation_method: "Mean Pool Max"
pred_column: "pred_kernel_size=6"
t: ${model_data.slide_mpm_threshold}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/mean_pool_max_aggregations/base
- /data/mmci/sl_group_1@data

preds_uri: ${model_data.slide_level_prediction_uris.mean_pool_max.mmci_sl_group_1}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/base

aggregation_method: "Span"
pred_column: "pred_k=5"
t: ${model_data.slide_span_threshold}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/span_aggregations/base
- /data/mmci/sl_group_1@data

preds_uri: ${model_data.slide_level_prediction_uris.span.mmci_sl_group_1}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/base

aggregation_method: "Top-k"
pred_column: "pred_kernel_size=5_k=4"
t: ${model_data.slide_top_k_threshold}
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# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_224/top_k_aggregations/base
- /data/mmci/sl_group_1@data

preds_uri: ${model_data.slide_level_prediction_uris.top_k.mmci_sl_group_1}
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@@ -0,0 +1,4 @@
# @package _global_

defaults:
- /model/checkpoints/mmci_tl/resnet50_stain_224@model_data
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@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_stain_224/base

aggregation_method: "Max"
pred_column: "prediction"
t: ${model_data.slide_max_threshold}
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@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_stain_224/max_aggregations/base
- /data/mmci/sl_group_1@data

preds_uri: ${model_data.slide_level_prediction_uris.max.mmci_sl_group_1}
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@@ -0,0 +1,7 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_stain_224/max_aggregations/base
- /data/mmci/tl_test@data

preds_uri: null
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@@ -0,0 +1,8 @@
# @package _global_

defaults:
- /experiment/postprocessing/slide_level_eval/resnet50_stain_224/base

aggregation_method: "Mean Pool Max"
pred_column: "pred_kernel_size=1"
t: ${model_data.slide_mpm_threshold}
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