update mamba (#1445)

* update mamba

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* remove shell init

* updates actions

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

.github/workflows/codespell.yml

@@ -17,6 +17,6 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       - name: Codespell
         uses: codespell-project/actions-codespell@v2

.github/workflows/publish.yml

@@ -12,7 +12,7 @@ jobs:
       id-token: write # to authenticate as Trusted Publisher to pypi.org
     steps:
       - uses: actions/checkout@v4
-      - uses: actions/setup-python@v4
+      - uses: actions/setup-python@v5
         with:
           python-version: "3.x"
           cache: "pip"

.github/workflows/test-gpu.yml

@@ -44,7 +44,7 @@ jobs:
         shell: bash -el {0}
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -53,11 +53,9 @@ jobs:
 
       - uses: mamba-org/setup-micromamba@v1
         with:
-          micromamba-version: "1.3.1-0"
+          micromamba-version: "1.5.6-0"
           environment-file: ci/gpu_ci.yml
-          init-shell: >-
-            bash
-          generate-run-shell: false
+          post-cleanup: "all"
 
       - name: Install AnnData
         run: uv pip install -e .[dev,test,gpu]