[pre-commit.ci] pre-commit autoupdate (icbi-lab#26)

* [pre-commit.ci] pre-commit autoupdate updates: - [github.com/mwouts/jupytext: v1.14.6 → v1.15.0](mwouts/jupytext@v1.14.6...v1.15.0) - [github.com/psf/black: 23.3.0 → 23.7.0](psf/black@23.3.0...23.7.0) - [github.com/asottile/blacken-docs: 1.14.0 → 1.15.0](adamchainz/blacken-docs@1.14.0...1.15.0) - [github.com/pre-commit/mirrors-prettier: v3.0.0-alpha.9-for-vscode → v3.0.1](pre-commit/mirrors-prettier@v3.0.0-alpha.9-for-vscode...v3.0.1) - https://github.com/charliermarsh/ruff-pre-commit → https://github.com/astral-sh/ruff-pre-commit - [github.com/astral-sh/ruff-pre-commit: v0.0.275 → v0.0.284](astral-sh/ruff-pre-commit@v0.0.275...v0.0.284) * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci --------- Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
vjmarteau · Aug 16, 2023 · 46f9ac0 · 46f9ac0
1 parent 5ee0334
commit 46f9ac0
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Showing 13 changed files with 18 additions and 18 deletions.
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
@@ -7,7 +7,7 @@ default_stages:
 minimum_pre_commit_version: 2.16.0
 repos:
     - repo: https://github.com/mwouts/jupytext
-      rev: v1.14.6
+      rev: v1.15.0
       hooks:
           - id: jupytext
             args:
@@ -25,15 +25,15 @@ repos:
                 - ruff==0.0.261
             files: "^(docs/notebooks|_preprocessing)/.*$"
     - repo: https://github.com/psf/black
-      rev: "23.3.0"
+      rev: "23.7.0"
       hooks:
           - id: black
     - repo: https://github.com/asottile/blacken-docs
-      rev: 1.14.0
+      rev: 1.15.0
       hooks:
           - id: blacken-docs
     - repo: https://github.com/pre-commit/mirrors-prettier
-      rev: v3.0.0-alpha.9-for-vscode
+      rev: v3.0.1
       hooks:
           - id: prettier
             # Newer versions of node don't work on systems that have an older version of GLIBC
@@ -42,8 +42,8 @@ repos:
             # See https://github.com/scverse/cookiecutter-scverse/issues/143 and
             # https://github.com/jupyterlab/jupyterlab/issues/12675
             language_version: "17.9.1"
-    - repo: https://github.com/charliermarsh/ruff-pre-commit
-      rev: v0.0.275
+    - repo: https://github.com/astral-sh/ruff-pre-commit
+      rev: v0.0.284
       hooks:
           - id: ruff
             args: [--fix, --exit-non-zero-on-fix]

diff --git a/_preprocessing/prepare_input_datasets.py b/_preprocessing/prepare_input_datasets.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/_preprocessing/subsample_luca.py b/_preprocessing/subsample_luca.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:.conda-pircher-sc-integrate2]
 #     language: python

diff --git a/docs/notebooks/01_merge.py b/docs/notebooks/01_merge.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 # ---
 
 # %% [markdown]

diff --git a/docs/notebooks/02_qc.py b/docs/notebooks/02_qc.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/docs/notebooks/03_seed_annotation.py b/docs/notebooks/03_seed_annotation.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/docs/notebooks/04_integrate_scvi.py b/docs/notebooks/04_integrate_scvi.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 # ---
 
 # %% [markdown]

diff --git a/docs/notebooks/05_cell_type_annotation.py b/docs/notebooks/05_cell_type_annotation.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/docs/notebooks/06_differential_expression.py b/docs/notebooks/06_differential_expression.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/docs/notebooks/09_compositional.py b/docs/notebooks/09_compositional.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/docs/notebooks/10_bulk_integration.py b/docs/notebooks/10_bulk_integration.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: Python [conda env:conda-2023-atlas-protocol]
 #     language: python

diff --git a/docs/notebooks/10_functional_analysis.py b/docs/notebooks/10_functional_analysis.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: 'SSH apollo-15 apollo-15: mmCD45'
 #     language: ''

diff --git a/docs/notebooks/15_cell_cell_communication.py b/docs/notebooks/15_cell_cell_communication.py
@@ -5,7 +5,7 @@
 #       extension: .py
 #       format_name: percent
 #       format_version: '1.3'
-#       jupytext_version: 1.14.6
+#       jupytext_version: 1.15.0
 #   kernelspec:
 #     display_name: atlas_protocol
 #     language: python