Merge pull request #313 from theislab/release_0_1_5

Release 0.1.5

.cookietemple.yml

@@ -15,5 +15,5 @@ full_name: Lukas Heumos
 email: [email protected]
 project_name: spapros
 project_short_description: Fully automated spatial transcriptomics probe selection.
-version: 0.1.4
+version: 0.1.5
 license: MIT

.github/release-drafter.yml

@@ -1,5 +1,5 @@
-name-template: "0.1.4 🌈" # <<COOKIETEMPLE_FORCE_BUMP>>
-tag-template: 0.1.4 # <<COOKIETEMPLE_FORCE_BUMP>>
+name-template: "0.1.5 🌈" # <<COOKIETEMPLE_FORCE_BUMP>>
+tag-template: 0.1.5 # <<COOKIETEMPLE_FORCE_BUMP>>
 categories:
     - title: "🚀 Features"
       labels:

.github/workflows/build_package.yml

@@ -9,7 +9,7 @@ jobs:
         strategy:
             matrix:
                 os: [macos-latest, ubuntu-latest, windows-latest]
-                python: [3.8, 3.9]
+                python: ["3.9", "3.10"]
 
         steps:
             - uses: actions/[email protected]

.github/workflows/main_master_branch_protection.yml

@@ -42,7 +42,7 @@ jobs:
             - name: Set up Python
               uses: actions/setup-python@v2
               with:
-                  python-version: "3.8"
+                  python-version: "3.9"
             # PRs to the repository master branch are only ok if coming from any patch or release branch
             - name: Install mlf-core
               run: pip install mlf-core

.github/workflows/master_branch_protection.yml

@@ -41,7 +41,7 @@ jobs:
             - name: Set up Python
               uses: actions/[email protected]
               with:
-                  python-version: "3.8"
+                  python-version: "3.9"
             # PRs to the repository master branch are only ok if coming from any patch or release branch
             - name: Install mlf-core
               run: pip install mlf-core

.github/workflows/publish_docs.yml

@@ -13,7 +13,7 @@ jobs:
             - name: Setup Python
               uses: actions/[email protected]
               with:
-                  python-version: 3.8
+                  python-version: 3.9
 
             - name: Install pandoc
               run: |

.github/workflows/run_tests.yml

@@ -13,50 +13,50 @@ jobs:
             matrix:
                 include:
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: ubuntu-latest,
                           session: "pre-commit",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: ubuntu-latest,
                           session: "safety",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: ubuntu-latest,
                           session: "mypy",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: ubuntu-latest,
                           session: "tests",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: windows-latest,
                           session: "tests",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: macos-latest,
                           session: "tests",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: ubuntu-latest,
                           session: "typeguard",
                       }
                     - {
-                          python-version: 3.8,
+                          python-version: 3.9,
                           os: ubuntu-latest,
                           session: "xdoctest",
                       }
-                    - {
-                          python-version: 3.8,
-                          os: ubuntu-latest,
-                          session: "docs-build",
-                      }
+                    #- {
+                    #      python-version: 3.9,
+                    #      os: ubuntu-latest,
+                    #      session: "docs-build",
+                    #  }
 
         env:
             NOXSESSION: ${{ matrix.session }}
@@ -121,12 +121,12 @@ jobs:
                   name: coverage-data
                   path: ".coverage.*"
 
-            - name: Upload documentation
-              if: matrix.session == 'docs-build'
-              uses: actions/[email protected]
-              with:
-                  name: docs
-                  path: docs/_build
+            #- name: Upload documentation
+            #  if: matrix.session == 'docs-build'
+            #  uses: actions/[email protected]
+            #  with:
+            #      name: docs
+            #      path: docs/_build
 
     coverage:
         runs-on: ubuntu-latest

.github/workflows/sync_project.yml

@@ -12,7 +12,7 @@ jobs:
             - name: Setup Python
               uses: actions/[email protected]
               with:
-                  python-version: 3.8
+                  python-version: 3.9
 
             - name: Install cookietemple
               run: pip install cookietemple

.gitignore

@@ -3,6 +3,18 @@ __pycache__/
 *.py[cod]
 *$py.class
 
+# docs
+docs/ev/
+docs/pl/
+docs/se/
+docs/ut/
+
+# tests
+tests/_out_dir/
+
+#
+*.DS_Store
+
 # C extensions
 *.so
 

cookietemple.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 0.1.4
+current_version = 0.1.5
 
 [bumpversion_files_whitelisted]
 init_file = spapros/__init__.py

docs/_tutorials/spapros_tutorial_end_to_end_selection_short.ipynb

@@ -3,7 +3,11 @@
   {
    "cell_type": "code",
    "execution_count": 1,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-cell"
+    ]
+   },
    "outputs": [],
    "source": [
     "from IPython.display import HTML, display, Image\n",

docs/conf.py

@@ -102,9 +102,9 @@
 # the built documents.
 #
 # The short X.Y version.
-version = "0.1.4"
+version = "0.1.5"
 # The full version, including alpha/beta/rc tags.
-release = "0.1.4"
+release = "0.1.5"
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.

noxfile.py

@@ -1,8 +1,9 @@
 """Nox sessions."""
+
 import os
-import sys
 import shlex
 import shutil
+import sys
 from pathlib import Path
 from textwrap import dedent
 
@@ -17,7 +18,7 @@
     sys.exit(1)
 
 package = "spapros"
-python_versions = ["3.8", "3.9"]
+python_versions = ["3.9", "3.10"]
 nox.options.sessions = (
     "pre-commit",
     "safety",