Ecosyste.ms: Issues

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GitHub / TissueImageAnalytics/tiatoolbox issues and pull requests

#757 - 🔖 Release 1.5.0

Pull Request - State: closed - Opened by shaneahmed 12 months ago - 2 comments
Labels: release

#756 - Nucleus instance segmentation classification performance very poor

Issue - State: closed - Opened by deeplearningmaniac 12 months ago - 4 comments

#755 - :white_check_mark: Add `mypy` checks to `visualization.py`

Pull Request - State: closed - Opened by shaneahmed 12 months ago - 1 comment
Labels: dev tools

#754 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 12 months ago - 1 comment

#753 - :white_check_mark: Add `mypy` checks to `image.py`

Pull Request - State: closed - Opened by shaneahmed 12 months ago - 4 comments
Labels: dev tools

#752 - 🩹 Fix `save_tiles`

Pull Request - State: closed - Opened by measty 12 months ago - 3 comments
Labels: bug

#751 - 🐛 Fix `HoVer-Net` Class Output Information in `docs`

Pull Request - State: closed - Opened by adamshephard 12 months ago - 5 comments
Labels: documentation

#750 - Nucleus instance segmentation model output labels

Issue - State: closed - Opened by deeplearningmaniac 12 months ago - 4 comments

#748 - :bug: Return `masks` Instead of `[mask]` in Tissue Masker

Pull Request - State: closed - Opened by Abdol 12 months ago - 1 comment
Labels: bug

#746 - :pushpin: Update Dependency Link for `pytorch cuda` Version

Pull Request - State: closed - Opened by shaneahmed 12 months ago - 1 comment
Labels: dev tools

#745 - cannot import name 'Units' from 'tiatoolbox.wsicore.wsireader'

Issue - State: closed - Opened by Czzh1 almost 1 year ago - 6 comments

#744 - :hammer: Add `utils/misc.py` to mypy

Pull Request - State: closed - Opened by Jiaqi-Lv about 1 year ago - 1 comment
Labels: dev tools

#743 - :hammer: Dev type check `tiatoolbox/utils/misc.py`

Pull Request - State: closed - Opened by Jiaqi-Lv about 1 year ago

#742 - :children_crossing: Handle Multidimensional `Features` in `WSIReader`

Pull Request - State: closed - Opened by behnazelhaminia about 1 year ago - 2 comments
Labels: enhancement

#741 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#740 - :hammer: Add `mypy` Checks

Pull Request - State: closed - Opened by Jiaqi-Lv about 1 year ago - 2 comments
Labels: dev tools

#739 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#737 - ✨ Add WSI processing to `EngineABC`

Pull Request - State: closed - Opened by AbishekRajVG about 1 year ago - 5 comments
Labels: enhancement

#736 - 📝 Fix Example 05

Pull Request - State: closed - Opened by measty about 1 year ago - 2 comments

#735 - example 05 is broken

Issue - State: closed - Opened by measty about 1 year ago - 3 comments

#734 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago

#733 - ♻️ Update `model_to()` and `load_torch_model()` methods in `ModelABC`

Pull Request - State: closed - Opened by AbishekRajVG about 1 year ago - 1 comment
Labels: enhancement

#732 - Tissue masker on multiple images

Issue - State: closed - Opened by measty about 1 year ago
Labels: bug

#731 - :hammer: Add `typing.py` and `env_detection.py` to `mypy` Type Check

Pull Request - State: closed - Opened by Jiaqi-Lv about 1 year ago - 2 comments
Labels: code readability

#730 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago

#728 - Update model_to() and load_torch_model() methods in ModelABC

Pull Request - State: closed - Opened by AbishekRajVG about 1 year ago - 2 comments
Labels: enhancement

#727 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#726 - :recycle: Add typehints for dataset_abc.py

Pull Request - State: closed - Opened by blaginin about 1 year ago - 2 comments

#725 - :hammer: Add `mypy` Checks to `exceptions.py`

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: dev tools

#724 - ❇️ Add Function to Save Engines Output in the `zarr` Format

Pull Request - State: closed - Opened by AbishekRajVG about 1 year ago - 4 comments
Labels: dev tools

#723 - :construction: Add type checking using `mypy`

Pull Request - State: closed - Opened by Jiaqi-Lv about 1 year ago - 1 comment

#722 - WSIReader Tile Sizes Issue - SVS Format

Issue - State: closed - Opened by TomastpPereira about 1 year ago - 6 comments
Labels: bug

#721 - ✨ Add Support for `QuPath` Annotation Imports

Pull Request - State: closed - Opened by measty about 1 year ago - 2 comments
Labels: enhancement

#720 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#719 - :arrow_up: Update `torch` Dependency

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: dependencies

#718 - ❇️ Add Convert `patches` Output to `AnnotationStore`

Pull Request - State: closed - Opened by measty about 1 year ago - 1 comment
Labels: enhancement

#717 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#716 - ⚡️Add `torch.compile` Functionality

Pull Request - State: open - Opened by Abdol about 1 year ago - 10 comments
Labels: enhancement

#715 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#714 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#713 - 🚨 Fix `flake8-annotation` Linter Errors

Pull Request - State: closed - Opened by Abdol about 1 year ago - 2 comments
Labels: code readability

#712 - 🐛 Fix `patch_coords`

Pull Request - State: closed - Opened by measty about 1 year ago - 1 comment
Labels: bug

#711 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] about 1 year ago - 1 comment

#710 - Patch extractor can go (fully) out of bounds

Issue - State: closed - Opened by measty about 1 year ago

#709 - 🐛 Add `IOConfig` for NuClick in `pretrained_model.yaml`

Pull Request - State: closed - Opened by mostafajahanifar about 1 year ago - 1 comment
Labels: bug

#708 - ♻️ Move `DataSet` Related Tests to `test_dataset.py`

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: refactoring

#707 - 🚨 Add `flake8-annotations` to All Except `tiatoolbox/annotations`

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: code readability

#706 - 🚨 Add `flake8-annotations` to `tests\models` and `tests\"root"`

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: code readability

#705 - :recycle: Refactor Minor Changes to Keep #635 Clean

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: refactoring

#704 - :arrow_up: Upgrade `ruff` to version `0.0.286`

Pull Request - State: closed - Opened by shaneahmed about 1 year ago - 1 comment
Labels: dependencies

#703 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] over 1 year ago - 1 comment
Labels: dependencies

#702 - 🚨 Fix `flake8-annotations` Checks in `models`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#701 - :rotating_light: Add `flake8-annotations` Checks for `engine`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#700 - :rotating_light: Fix `flake8-annotations` for `wsicore`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#699 - :rotating_light: Add `flake8-annotations` Checks for `examples`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments
Labels: code readability

#698 - :arrow_up: Upgrade `ruff` to `0.0.285`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: dependencies

#697 - 📝 Fix Docstrings in `PatchExtractor`

Pull Request - State: closed - Opened by measty over 1 year ago - 3 comments
Labels: documentation

#696 - :rotating_light: Add `flake8-annotations` to `Visualization`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#695 - :fire: Remove redundant `_rm_dir` in tests.

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#694 - 🚨 Add `flake8-annotations` Checks to `tools`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#693 - 🐛 Fix `prealignment` Function

Pull Request - State: closed - Opened by ruqayya over 1 year ago - 2 comments
Labels: bug

#692 - On Windows tests raise an error `sqlite3.OperationalError: no such function: POWER`

Issue - State: closed - Opened by shaneahmed over 1 year ago - 9 comments
Labels: help wanted, dependencies

#691 - 🚨 Add `pylint` Checks

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments
Labels: code readability

#690 - :arrow_up: Upgrade `ruff` to `0.0.284`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#689 - :arrow_up: Upgrade `ruff` to `0.0.283`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments

#688 - :rotating_light: Add `flake8-unused-arguments` Checks

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments

#687 - :rotating_light: Add `flake8-bandit` Checks

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments

#686 - :rotating_light: Add `flake8-boolean-trap` Checks

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments
Labels: code readability

#685 - 🚨 Fix Linter Errors in `utils`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#684 - ✨ Add `bokeh` Visualization

Pull Request - State: closed - Opened by measty over 1 year ago - 10 comments
Labels: enhancement

#683 - :rotating_light: Fix `ANN201` Errors in `tests`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: bug, code readability

#682 - [skip ci] :rotating_light: `ruff` notebooks for #677

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#681 - :arrow_up: Update `ruff` to `0.0.282`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#680 - 🚨 Add `ruff` Checks to `cli`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#679 - 🚀 Switch to More Powerful Worker

Pull Request - State: closed - Opened by blaginin over 1 year ago
Labels: dev tools

#678 - :rotating_light: `ruff` tiatoolbox root

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment
Labels: code readability

#677 - 🚨 Add `ruff` Checks to All Files with All Selected Options

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments
Labels: code readability

#676 - 🚨 Add `ruff` Checks to All Jupyter Notebooks

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments
Labels: code readability

#675 - Cache pg

Pull Request - State: closed - Opened by blaginin over 1 year ago

#674 - 💚 Add cache for the static assets

Pull Request - State: closed - Opened by blaginin over 1 year ago - 1 comment
Labels: dev tools

#673 - :thread: Safer downloads

Pull Request - State: closed - Opened by blaginin over 1 year ago - 1 comment
Labels: enhancement

#672 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] over 1 year ago - 1 comment

#671 - 💚 Parallel tests

Pull Request - State: closed - Opened by blaginin over 1 year ago - 2 comments
Labels: dev tools

#670 - 🐛 Fix `AffineWSITransformer.read_rect()`

Pull Request - State: closed - Opened by ruqayya over 1 year ago - 2 comments
Labels: bug

#669 - [skip ci] :rotating_light: Add `ruff` checks to `examples` notebooks.

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#668 - [skip ci] 🚨 Add `ruff` checks to `examples/inference-pipelines`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#667 - 🚨 Add `ruff` Checks `10-wsi-registration`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#666 - ➖ Remove `isort` and Use `ruff` for sorting imports

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#665 - 🚨 Add `ruff` Checks to `05-patch-prediction.ipynb`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#664 - [skip ci] :rotating_light: Add `ruff` Checks 07-advanced-modeling.ipynb

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#663 - [skip ci] :rotating_light: Add `ruff` checks to `04-patch-extraction.ipynb`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#662 - :bookmark: Release v1.4.1

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#661 - 🚑 Release 1.4.1

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 2 comments
Labels: release

#660 - [skip ci]🚨 Add `ruff` Checks for `06-semantic-segmentation`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#659 - merge develop into branch

Pull Request - State: closed - Opened by adamshephard over 1 year ago - 1 comment

#658 - [skip ci]🚨 Add `ruff` Checks `03-tissue-masking.ipynb`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment

#657 - [skip ci] 🚨 Add Linter Checks `02-stain-normalization.ipynb`

Pull Request - State: closed - Opened by shaneahmed over 1 year ago - 1 comment