feat: reuse_pyramid option for Imaris#18
Merged
Conversation
Add to_ome_zarr(..., reuse_pyramid=True): for .ims inputs, copy the file's own ResolutionLevels as the OME-ZARR pyramid (each with its native scale) instead of rebuilding — faster, no recompute. Ignored for non-Imaris inputs; falls back to a rebuild if the levels can't be read. Default stays False (consistent XY-only rebuild). Docs + test updated. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
to_ome_zarr("scan.ims", "out.zarr", reuse_pyramid=True)copies the Imaris file's own resolution levels as the OME-ZARR pyramid (each with its native scale) — faster, no recompute. DefaultFalsekeeps the consistent XY-only nearest-neighbour rebuild. Ignored for non-.imsinputs; falls back to a rebuild if the Imaris levels can't be read.Docs (guide note) + test added. ruff + mkdocs --strict clean, suite green.
🤖 Generated with Claude Code