From a81f49a28f23823d7f5b86623b5ff2e26cef31cd Mon Sep 17 00:00:00 2001 From: "pre-commit-ci[bot]" <66853113+pre-commit-ci[bot]@users.noreply.github.com> Date: Mon, 25 Sep 2023 21:53:55 +0000 Subject: [PATCH 1/2] [pre-commit.ci] pre-commit autoupdate MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit updates: - [github.com/psf/black: 23.7.0 → 23.9.1](https://github.com/psf/black/compare/23.7.0...23.9.1) - [github.com/pre-commit/mirrors-prettier: v3.0.2 → v3.0.3](https://github.com/pre-commit/mirrors-prettier/compare/v3.0.2...v3.0.3) - [github.com/PyCQA/autoflake: v2.2.0 → v2.2.1](https://github.com/PyCQA/autoflake/compare/v2.2.0...v2.2.1) - [github.com/asottile/pyupgrade: v3.10.1 → v3.13.0](https://github.com/asottile/pyupgrade/compare/v3.10.1...v3.13.0) --- .pre-commit-config.yaml | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 9775c3b..c059ebc 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -14,11 +14,11 @@ repos: - id: nbqa-black - id: nbqa-isort - repo: https://github.com/psf/black - rev: 23.7.0 + rev: 23.9.1 hooks: - id: black - repo: https://github.com/pre-commit/mirrors-prettier - rev: v3.0.2 + rev: v3.0.3 hooks: - id: prettier - repo: https://github.com/asottile/blacken-docs @@ -51,7 +51,7 @@ repos: - id: trailing-whitespace - id: check-case-conflict - repo: https://github.com/PyCQA/autoflake - rev: v2.2.0 + rev: v2.2.1 hooks: - id: autoflake args: @@ -71,7 +71,7 @@ repos: - flake8-bugbear - flake8-blind-except - repo: https://github.com/asottile/pyupgrade - rev: v3.10.1 + rev: v3.13.0 hooks: - id: pyupgrade args: [--py3-plus, --py38-plus, --keep-runtime-typing] From e4d09f581d6cb9e6cfbe48acaec50e0c05d9e499 Mon Sep 17 00:00:00 2001 From: "pre-commit-ci[bot]" <66853113+pre-commit-ci[bot]@users.noreply.github.com> Date: Mon, 25 Sep 2023 21:54:34 +0000 Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci --- datasets/README.md | 26 +++++++++++++------------- 1 file changed, 13 insertions(+), 13 deletions(-) diff --git a/datasets/README.md b/datasets/README.md index 0f5af25..ae3da53 100644 --- a/datasets/README.md +++ b/datasets/README.md @@ -4,19 +4,19 @@ The example notebooks operate on a set of spatial omics datasets that can be dow Here you can find the dataset hosted in S3 object storage. -| Dataset | .zarr.zip | S3 (see note below!) | -| :----------------------------------------------------------------------------------------------------------------------------------------------------------------: | :----------------------------------------------------------------------------------: | :-----------------------------------------------------------------------------------: | -| cosmx_io | | | -| mcmicro_io | | | -| merfish | | | -| mibitof | | | -| steinbock_io | | | -| toy | | | -| visium | | | -| visium_io | | | -| visium_associated_xenium_io | | | -| xenium_rep1_io | | | -| xenium_rep2_io | | | +| Dataset | .zarr.zip | S3 (see note below!) | +| :------------------------------------------------------------------------------------------------------------------------------------------------------: | :----------------------------------------------------------------------------------: | :-----------------------------------------------------------------------------------: | +| cosmx_io | | | +| mcmicro_io | | | +| merfish | | | +| mibitof | | | +| steinbock_io | | | +| toy | | | +| visium | | | +| visium_io | | | +| visium_associated_xenium_io | | | +| xenium_rep1_io | | | +| xenium_rep2_io | | | | [additional resources for methods developers](https://github.com/scverse/spatialdata-notebooks/blob/main/notebooks/developers_resources/storage_format/) | - | - | ## Note