Tags: WayScience/ome-arrow
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Add torch/jax array ingest support to OMEArrow (#56) * Add torch/jax array ingest support to OMEArrow * copilot review changes + docs fixes * coderabbit review changes * better docs and zyx default Co-Authored-By: Gregory Way <[email protected]> * better docs for channel names Co-Authored-By: Gregory Way <[email protected]> * better clarity Co-Authored-By: Gregory Way <[email protected]> * better docs Co-Authored-By: Gregory Way <[email protected]> * address coderabbit review * better docs Co-Authored-By: Cameron Mattson <[email protected]> * better docs Co-Authored-By: Cameron Mattson <[email protected]> * better docs Co-Authored-By: Cameron Mattson <[email protected]> * better error Co-Authored-By: Gregory Way <[email protected]> * better docs Co-Authored-By: Gregory Way <[email protected]> * better docs Co-Authored-By: Gregory Way <[email protected]> * better docs Co-Authored-By: Gregory Way <[email protected]> * address coderabbit review * [pre-commit.ci lite] apply automatic fixes * address coderabbit review * [pre-commit.ci lite] apply automatic fixes --------- Co-authored-by: Gregory Way <[email protected]> Co-authored-by: Cameron Mattson <[email protected]> Co-authored-by: pre-commit-ci-lite[bot] <117423508+pre-commit-ci-lite[bot]@users.noreply.github.com>
Add lazy read capabilities (#43) * add lazy read capabilities * address copilot and coderabbit reviews * ignore warnings * address coderabbit review comments * address coderabbit review comment * address coderabbit comments * address mikes review comments Co-Authored-By: Mike Lippincott <[email protected]> * make ome-arrow internals lazy; benchmark * [pre-commit.ci lite] apply automatic fixes * lint --------- Co-authored-by: Mike Lippincott <[email protected]> Co-authored-by: pre-commit-ci-lite[bot] <117423508+pre-commit-ci-lite[bot]@users.noreply.github.com>
Provide tensor-friendly methods for `torch` and `jax` through `OMEArr… …ow.to_dlpack` (#34) * add dlpack for zero-copy capability with tensors * linting * address coderabbit review suggestions * address coderabbit review suggestions * address minor review comments * address copilot review suggestions * address coderabbit review suggestions * address coderabbit review comments * address coderabbit review suggestions; fix warns * linting * docs and hw / 2-dim optionality Co-Authored-By: Mike Lippincott <[email protected]> * linting * docs clarifications on roi and canon dims Co-Authored-By: Mike Lippincott <[email protected]> * accommodate 3d tiling and roi Co-Authored-By: Mike Lippincott <[email protected]> * optionality through chunk_policy Co-Authored-By: Mike Lippincott <[email protected]> * add docstrings where needed Co-Authored-By: Mike Lippincott <[email protected]> * Update README.md * linting * add 3.14 to ci --------- Co-authored-by: Mike Lippincott <[email protected]>
Add pixel chunking to specification (#24) * move to chunked pixels * linting and planes work * address comments from review * address review comments * clarify chunks as spatial in nature Co-Authored-By: Jenna Tomkinson <[email protected]> * plane_from_chunks clarifications Co-Authored-By: Jenna Tomkinson <[email protected]> * [pre-commit.ci lite] apply automatic fixes --------- Co-authored-by: Jenna Tomkinson <[email protected]> Co-authored-by: pre-commit-ci-lite[bot] <117423508+pre-commit-ci-lite[bot]@users.noreply.github.com>
Enable OME Parquet column and index specification (#9) * enable ome parquet column and index specification * add jump data for tests * add comments about data source * add clarification about project focus Co-Authored-By: Jenna Tomkinson <[email protected]> --------- Co-authored-by: Jenna Tomkinson <[email protected]>
Update readme and notebook for clarity (#7) * update readme and notebook * Update README.md Co-authored-by: Jenna Tomkinson <[email protected]> * minor adjustment * structs def * Update learning_to_fly_with_ome-arrow.ipynb --------- Co-authored-by: Jenna Tomkinson <[email protected]>