DEVELOPMENT.md

wsianon Development Notes

Building Python Package

New module code written in src/wsianon directory.

Syncing C library from remote

git clone -b macos-support https://github.com/luciorq/wsi-anon ./temp/;
rm -rf ./include/*;
cp -r temp/src/* ./include/;
cp temp/LICENSE ./include/;
rm -rf ./temp;

Test data

Test data is acquired from the Openslide project.

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Adding features to Upstream project on GitLab

Adding suport for MacOS in the Upstream EMPAIA WSI Anon project on GitLab.

Fork to https://gitlab.com/luciorq/wsi-anon

git clone https://gitlab.com/luciorq/wsi-anon ~/projects/forks/wsi-anon;
cd ~/projects/forks/wsi-anon;
git branch;
git checkout -b <BRANCH_NAME>;

Make necessary edits to the branch.

Check if everything is working with make.

make

Commit and push.

git add -p <FILES_TO_ADD>
git commit -m "...";

git push origin <BRANCH_NAME>

This will push the changes to your personal fork, you still need to create the Pull Request in the original repository.

Testing WSI Anon Python Wrapper

conda create -n wsi-anon-env -c conda-forge -c bioconda openslide python pytest tiffslide openslide-python


cp bin/libwsianon.dylib ./
conda run -n wsi-anon-env python -m pytest ./wrapper/python/test

Add additional remote on GitHub

git remote -v;
git remote add origin-gh https://github.com/luciorq/wsi-anon;
git remote -v;
git push origin-gh --all;

gh repo view --web;