kaiko-ai/eva issues and pull requests

#605 - Solve `exceptiongroup` dependency issue in CI

Pull Request - State: open - Opened by nkaenzig 6 months ago
Labels: ci

#604 - Fix CI issue (No module named `exceptiongroup`)

Issue - State: open - Opened by nkaenzig 6 months ago

#603 - Add support for plug & play backbones

Pull Request - State: open - Opened by nkaenzig 6 months ago

#602 - Plug & play backbones

Issue - State: open - Opened by nkaenzig 6 months ago

#601 - Add option to load `model_kwargs` from env variable

Pull Request - State: closed - Opened by nkaenzig 6 months ago

#600 - Add `Prov-GigaPath` model to registry

Pull Request - State: open - Opened by nkaenzig 6 months ago
Labels: model

#599 - Add `H-optimus-0` model to registry

Pull Request - State: open - Opened by nkaenzig 6 months ago
Labels: model

#598 - Use `core.models.wrappers` API to load encoder models

Pull Request - State: closed - Opened by nkaenzig 6 months ago

#597 - Add BCSS to leaderboard

Issue - State: open - Opened by roman807 6 months ago

#596 - update leaderboard and documentation with WSI segmentation datasets

Pull Request - State: closed - Opened by roman807 6 months ago

#595 - Unify encoder API among classification & segmentation

Issue - State: closed - Opened by nkaenzig 6 months ago
Labels: refactoring

#594 - Fix `LiTS` transforms

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#593 - Fix LiTS transforms

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#592 - Provide scripts for running model evals

Issue - State: open - Opened by nkaenzig 7 months ago

#591 - Add model registry for accessing backbones by name

Pull Request - State: closed - Opened by nkaenzig 7 months ago - 1 comment
Labels: vision, configs

#590 - 589 fix dice loss function for ignore index argument

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#589 - Fix DICE loss function for `ignore_index` argument

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: bug

#588 - Experiment with more powerful decoders

Issue - State: open - Opened by ioangatop 7 months ago
Labels: enhancement

#587 - Add `Dice` segmentation loss

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#586 - Experiment with more sophisticated loss functions

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#585 - Update dependency torch to v2.4.0

Pull Request - State: open - Opened by renovate[bot] 7 months ago
Labels: renovate

#584 - Onboard `Prov-GigaPath` model

Issue - State: open - Opened by nkaenzig 7 months ago
Labels: model

#583 - Onboard `H-optimus-0` model

Issue - State: open - Opened by nkaenzig 7 months ago
Labels: model

#582 - Add PanNuke segmentation dataset

Issue - State: open - Opened by ioangatop 7 months ago
Labels: enhancement, vision, dataset

#581 - Remove `cpu` accelerator from `LiTS` config

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: configs

#580 - Remove the default cpu accelerator in LiTS offline config

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#579 - Fix the embeddings saving dataset

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#578 - Issue with the offline `LiTS` workflow

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: bug

#577 - Fix LiTS dataset validation

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#576 - Fix LiTS validation dataset error

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: bug

#575 - Create native API support for vision models

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#574 - Add `ignore_index` functionality in segmentation metrics

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: bug, enhancement, vision

#573 - Fix MoNuSAC offline condif

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#572 - Update dependency jsonargparse to v4.32.0

Pull Request - State: open - Opened by renovate[bot] 7 months ago
Labels: renovate

#571 - Update segmentation metrics

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: vision

#570 - Add support for `phikon` as encoder for segmentation tasks

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#569 - Add phikon encoder

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#568 - Move `width` & `height` from dataset to sampler `init`

Issue - State: open - Opened by nkaenzig 7 months ago
Labels: vision

#567 - Add `LiTS` radiology ct segmentation dataset and task

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: vision, dataset

#566 - Allow local checkpoint to be loaded in `TimmEncoder`

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement, vision

#565 - Support local model checkpoints in timm model encoder

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: enhancement

#564 - Add LITS radiology CT segmentation dataset

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: dataset

#563 - Update main README

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: documentation

#562 - Update main README

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: documentation

#561 - Nuclei Segmentation in Melanoma Histopathology dataset

Issue - State: open - Opened by ioangatop 7 months ago
Labels: vision, dataset

#560 - Update dependency jsonargparse to v4.31.0

Pull Request - State: closed - Opened by renovate[bot] 7 months ago
Labels: renovate

#559 - Add `BCSS` dataset

Pull Request - State: closed - Opened by nkaenzig 7 months ago
Labels: dataset

#558 - Change `overwrite` default value to True in `EmbeddingWriter`

Pull Request - State: closed - Opened by nkaenzig 7 months ago

#557 - `overwrite=False` in `EmbeddingsWriter` doesn't work

Issue - State: closed - Opened by nkaenzig 7 months ago

#556 - Speed up segmentation metrics calculation

Issue - State: closed - Opened by ioangatop 7 months ago - 1 comment
Labels: vision

#555 - Fix normalisation in `ResizeAndClamp` transform

Pull Request - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#554 - Wrong normalisation in `ResizeAndClamp` transform

Issue - State: closed - Opened by ioangatop 7 months ago
Labels: bug, vision

#553 - Add `BCSS` segmentation dataset

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, dataset

#552 - Add `PAIP2019` segmentation dataset

Issue - State: open - Opened by ioangatop 8 months ago
Labels: vision, dataset

#551 - `EncoderWrapper` model and fixes for segmentation tasks

Pull Request - State: closed - Opened by roman807 8 months ago - 1 comment

#550 - Add visiontransformer-wrapper for segmentation tasks

Issue - State: closed - Opened by roman807 8 months ago - 1 comment

#549 - Add `MoNuSac` segmentation dataset

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, dataset

#548 - add online-config for consep

Pull Request - State: closed - Opened by roman807 8 months ago

#547 - Add `CoNSeP` dataset with patching

Pull Request - State: closed - Opened by nkaenzig 8 months ago
Labels: dataset

#546 - Add MoNuSAC dataset

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: dataset

#545 - make sure multiwsidatasets are validated (updated)

Pull Request - State: closed - Opened by roman807 8 months ago

#544 - 175v2 add consep segmentation dataset

Pull Request - State: closed - Opened by roman807 8 months ago - 1 comment

#543 - update leaderboard with complete reruns

Pull Request - State: closed - Opened by roman807 8 months ago

#542 - Add support for WSI-level classification

Pull Request - State: closed - Opened by roman807 8 months ago

#541 - Allow head model as `dict` and parse it as object in `configure_model`

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: core

#540 - Update dependency jsonargparse to v4.30.0

Pull Request - State: closed - Opened by renovate[bot] 8 months ago - 1 comment
Labels: renovate

#539 - updated camelyon16 configs to save embeddings less frequent

Pull Request - State: closed - Opened by roman807 8 months ago

#538 - 532 update leaderboard results with slide level tasks

Pull Request - State: closed - Opened by roman807 8 months ago

#537 - Fix memory leak embeddingswriter

Issue - State: closed - Opened by roman807 8 months ago

#536 - Update actions/checkout digest to 692973e

Pull Request - State: closed - Opened by renovate[bot] 8 months ago - 1 comment
Labels: renovate

#535 - Support the full `TotalSegmentator2D` dataset

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature, dataset

#534 - Rename `DOWNLOAD` env var to `DOWNLOAD_DATA`

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: configs

#533 - Rename `DOWNLOAD` to `DOWNLOAD_DATA` and add env var to online configs as well

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: configs

#532 - Update leaderboard results with slide-level tasks

Issue - State: closed - Opened by roman807 8 months ago

#531 - Updated documentation with new datasets and leaderboard

Pull Request - State: closed - Opened by roman807 8 months ago

#530 - Support the full `TotalSegmentator` dataset

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature, dataset

#529 - Add DigestPath2019 dataset

Issue - State: open - Opened by ioangatop 8 months ago
Labels: vision, dataset

#528 - update documentation with new datasets and leaderboard

Issue - State: closed - Opened by roman807 8 months ago - 1 comment

#527 - update 360-aggregated-feature before PR to main

Pull Request - State: closed - Opened by roman807 8 months ago

#526 - reload head every fit run

Pull Request - State: closed - Opened by roman807 8 months ago - 1 comment

#525 - Minor fixes in `SemanticSegmentationModule`

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#524 - Minor fixes in `SemanticSegmentationModule` of 402

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#523 - Add `ModelCheckpoint` and `EarlyStopping` in `TotalSegmentator2D` task

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#522 - Add `ModelCheckpoint` and `EarlyStopping` in `TotalSegmentator2D` task

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#521 - Fix SemanticSegmentationLogger callback write frequency

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#520 - Fix `SemanticSegmentationLogger` write frequency

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#519 - Minor updates on semantic segmentation tasks

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#518 - Minor fixes and updates on Semantic Segmentation tasks

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#517 - Support semantic segmentation downstream evaluation tasks

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: vision, radiology, aggregated-feature

#516 - Add licence print and env var for download in `TotalSegmentator2D`

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: aggregated-feature

#515 - Add licence print and env var for download in `TotalSegmentator2D`

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: vision, aggregated-feature

#514 - support setting download as env-variable

Pull Request - State: closed - Opened by roman807 8 months ago

#513 - Parametrize environment variable for data download

Issue - State: closed - Opened by roman807 8 months ago

#512 - make sure multiwsidatasets are validated

Pull Request - State: closed - Opened by roman807 8 months ago - 1 comment

#511 - 475 define slide level evaluation protocol

Pull Request - State: closed - Opened by roman807 8 months ago

#510 - 402 aggregated feature segmentation downstream evaluation tasks

Pull Request - State: closed - Opened by ioangatop 8 months ago

#509 - Update 402 with later main

Issue - State: closed - Opened by ioangatop 8 months ago
Labels: aggregated-feature

#508 - 402 aggregated feature segmentation downstream evaluation tasks

Pull Request - State: closed - Opened by ioangatop 8 months ago

#507 - Update `402` branch with latest `main`

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: aggregated-feature

#506 - Merge 402 with the latest main

Pull Request - State: closed - Opened by ioangatop 8 months ago
Labels: aggregated-feature

GitHub / kaiko-ai/eva issues and pull requests