toffy and alpineer version conflicts

[camisowers]

Please refer to our FAQ and look at our known issues before opening a bug report.

Describe the bug
The current workflow for updating the toffy_env (according to the readme) consists of pulling the latest changes and then recreating the toffy_env using environment.yml. While any recent code changes in toffy get updated in the user's toffy repo, the environment.yml file itself uses pip to install toffy and alpineer which will default to the latest releases for each. We do not currently pin the helper repos to a specific version in the conda environment like we do for poetry.

If changes are made and released to alpineer without an immediate toffy release, this will cause issues. For example, currently the stitching notebook uses an old version of the stitch_images function that doesn't account for multiple tiles, but the alpineer helper functions within it expect that logic.

Expected behavior
We should decide on a method to explicitly pin the helper repo versions (alpineer, mibi-bin-tools) that toffy uses in the conda environment.

To Reproduce
Git pull toffy, recreate the toffy_env, and try to stitch a tiled run.