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Updated skimage version for importing the graph module and trigger tests #390

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Dana-Farber and others added 30 commits December 16, 2022 11:07
Bumps [ipython](https://github.com/ipython/ipython) from 7.31.1 to 8.10.0.
- [Release notes](https://github.com/ipython/ipython/releases)
- [Commits](ipython/ipython@7.31.1...8.10.0)

---
updated-dependencies:
- dependency-name: ipython
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
…thon-8.10.0

Bump ipython from 7.31.1 to 8.10.0 in /docs
Add instructions for Google colab
Added new build, due to conflicts with urllib3 recent updates.
Update version
Updated Ubuntu OS
Changed ubuntu version to 22.04
Changed Ubuntu version
Update GitHub Actions workflow to use mamba for dependency management
Excluding python=3.9 to resolve the following issue is github action runs:

 Could not solve for environment specs
  The following packages are incompatible
  ├─ python 3.8  is requested and can be installed;
  └─ python 3.9**  is uninstallable because it conflicts with any installable versions previously reported.
Added python 3.9 to test the environment
Excluding python 3.8 as requirement
Excluded python version as dependency
VarunUllanat and others added 27 commits November 15, 2023 06:15
bugfix in colab installation instructions in README.md
Adding graph API codebase, tests and notebooks
Cleaned up code and added comments and exception handling
Remove torchvision dependency in tests and added nn.Module input for …
Make flake8 compliant and update tests
Updated environment.yml to include flexible numpy and scipy versions
Added capabilities for all possible versions of skimage and flake8 co…
Changes spams installation in github workflows
Updated skimage version for importing the graph module
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Codecov Report

Attention: 528 lines in your changes are missing coverage. Please review.

Comparison is base (d95ff9b) 86.18% compared to head (fc0e8b3) 76.47%.

Files Patch % Lines
pathml/ml/models/hovernet.py 22.57% 271 Missing ⚠️
pathml/datasets/datasets.py 67.31% 67 Missing ⚠️
pathml/graph/preprocessing.py 79.87% 63 Missing ⚠️
pathml/graph/utils.py 50.45% 54 Missing ⚠️
pathml/datasets/utils.py 53.92% 47 Missing ⚠️
pathml/ml/utils.py 39.53% 26 Missing ⚠️

❗ Your organization needs to install the Codecov GitHub app to enable full functionality.

Additional details and impacted files
@@            Coverage Diff             @@
##              dev     #390      +/-   ##
==========================================
- Coverage   86.18%   76.47%   -9.71%     
==========================================
  Files          25       34       +9     
  Lines        2359     3703    +1344     
==========================================
+ Hits         2033     2832     +799     
- Misses        326      871     +545     

☔ View full report in Codecov by Sentry.
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@VarunUllanat
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Successful test run, closing PR and getting ready for merges

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5 participants