Merge pull request #254 from scverse/improved-release-process

improved release process

Author: LucaMarconato

.github/release.yml

@@ -0,0 +1,22 @@
+changelog:
+    exclude:
+        labels:
+            - release-ignore
+        authors:
+            - pre-commit-ci
+    categories:
+        - title: Major
+          labels:
+              - "release-major"
+        - title: Minor
+          labels:
+              - "release-minor"
+        - title: Changed
+          labels:
+              - "release-changed"
+        - title: Fixed
+          labels:
+              - "release-fixed"
+        - title: Other Changes
+          labels:
+              - "*"

.github/workflows/build.yaml

@@ -5,26 +5,26 @@ on:
         types: [published]
 
 jobs:
-    release:
-        # requires that you have put your twine API key in your
-        # github secrets (see readme for details)
+    package_and_release:
         runs-on: ubuntu-latest
-        if: contains(github.ref, 'tags')
+        if: startsWith(github.ref, 'refs/tags/v')
         steps:
-            - name: Checkout code
-              uses: actions/checkout@v3
-
-            - name: Set up Python 3.10
+            - uses: actions/checkout@v3
+            - name: Set up Python 3.12
               uses: actions/setup-python@v4
               with:
-                  python-version: "3.10"
-
+                  python-version: "3.12"
+                  cache: pip
+            - name: Install build dependencies
+              run: python -m pip install --upgrade pip wheel twine build
+            - name: Build package
+              run: python -m build
+            - name: Check package
+              run: twine check --strict dist/*.whl
             - name: Install hatch
               run: pip install hatch
-
             - name: Build project for distribution
               run: hatch build
-
             - name: Publish a Python distribution to PyPI
               uses: pypa/gh-action-pypi-publish@release/v1
               with:

.github/workflows/release.yaml

@@ -10,140 +10,140 @@ and this project adheres to [Semantic Versioning][].
 
 ## incoming release
 
--   (Visium/Visium HD) lowres and hires images now mapped also to the 'global' coordinate system #230
--   (Macsima) added support @berombau #224
--   (seqFISH) support for v2 instrument #227
--   (Visium HD) added argument `annotate_table_by_labels` to rasterize the bins as labels #211 @ArneDefauw
+- (Visium/Visium HD) lowres and hires images now mapped also to the 'global' coordinate system #230
+- (Macsima) added support @berombau #224
+- (seqFISH) support for v2 instrument #227
+- (Visium HD) added argument `annotate_table_by_labels` to rasterize the bins as labels #211 @ArneDefauw
 
 ## [0.1.6] - 2024-11-26
 
--   (MERSCOPE) added `feature_key` attribute for points (i.e., the `'gene'` column) #210
--   (Visium HD) get transformation matrices even when only images are parsed #215
--   Support for `xarray.DataTree` (which was moved from `datatree.DataTree`) #232
+- (MERSCOPE) added `feature_key` attribute for points (i.e., the `'gene'` column) #210
+- (Visium HD) get transformation matrices even when only images are parsed #215
+- Support for `xarray.DataTree` (which was moved from `datatree.DataTree`) #232
 
 ## [0.1.5] - 2024-09-25
 
 ### Added
 
--   (Xenium) added `dims` parameter for more control in `xenium_aligned_image()`
+- (Xenium) added `dims` parameter for more control in `xenium_aligned_image()`
 
 ### Fixed
 
--   Passing `rgb=None` to image model parser for both visium and visiumhd, leading to 3-4 channel images being
-    interpreted as RGB(A)
--   Fix header bug Visium data #200
--   (Visium HD) Fix path parsing when images are missing #204 #206
+- Passing `rgb=None` to image model parser for both visium and visiumhd, leading to 3-4 channel images being
+  interpreted as RGB(A)
+- Fix header bug Visium data #200
+- (Visium HD) Fix path parsing when images are missing #204 #206
 
 ## [0.1.4] - 2024-08-07
 
 ### Changed
 
--   (Xenium) changed default target of table to labels; radii of circles computed from cells, not nuclei #179
--   (Visium HD) changed default geometry to squares from circles for the bins; added parameter to choose #183
--   (CosMx) dropping points element with zero-length from the cosmx reader #191
+- (Xenium) changed default target of table to labels; radii of circles computed from cells, not nuclei #179
+- (Visium HD) changed default geometry to squares from circles for the bins; added parameter to choose #183
+- (CosMx) dropping points element with zero-length from the cosmx reader #191
 
 ## [0.1.3] - 2024-07-03
 
 ### Added
 
--   (Xenium) support reading multi-polygon selection files from the Xenium Explorer
--   (ISS) An experimental loader to load elemental ISS data objects, e.g. raw.tif, label.tif and anndata.h5ad
--   (Stereo-seq) Added reader @LLehner @timtreis @florianingelfinger #70
--   (MERSCOPE) Optional rioxarray backend for MERSCOPE data (reads chunks)
--   (MERSCOPE) Can choose which elements should be loaded
+- (Xenium) support reading multi-polygon selection files from the Xenium Explorer
+- (ISS) An experimental loader to load elemental ISS data objects, e.g. raw.tif, label.tif and anndata.h5ad
+- (Stereo-seq) Added reader @LLehner @timtreis @florianingelfinger #70
+- (MERSCOPE) Optional rioxarray backend for MERSCOPE data (reads chunks)
+- (MERSCOPE) Can choose which elements should be loaded
 
 ### Fixed
 
--   (Visium) Fixed issue with joining a SpatialElement with a table due to index values not being unique.
-    obs_names_make_unique is now called internally to enforce unique index values allowing for join operations.
+- (Visium) Fixed issue with joining a SpatialElement with a table due to index values not being unique.
+  obs_names_make_unique is now called internally to enforce unique index values allowing for join operations.
 
 ### Changed
 
--   (MERSCOPE) "global" coordinate system is used as a default instead of "microns"
+- (MERSCOPE) "global" coordinate system is used as a default instead of "microns"
 
 ## [0.1.2] - 2024-03-30
 
 ### Added
 
--   (Visium HD) added reader, coauthored by @LLehner
+- (Visium HD) added reader, coauthored by @LLehner
 
 ### Fixed
 
--   (Xenium) reader for 1.0.1 (paper data) and unknown versions
--   (Xenium) fix in reading "minimalistic" Xenium datasets #132
+- (Xenium) reader for 1.0.1 (paper data) and unknown versions
+- (Xenium) fix in reading "minimalistic" Xenium datasets #132
 
 ## [0.1.1] - 2024-03-24
 
 ### Added
 
--   (Xenium) support for post-xenium aligned images (IF, HE)
--   (Xenium) reader for the selection coordinates file from the Xenium Explorer
--   (Xenium) support for the new Xenium 2.0.0 (multimodal segmentation)
--   (Xenium) reading multiscale labels from cells.zarr.zip
--   (MCMICRO) support for TMAs (such as the data of exemplar-002)
--   (DBiT-seq) reader
--   converter functions `experimental.to_legacy_anndata()` and `experimental.from_legacy_anndata()`
--   (Visium) support for raw reads (capture locations not under tissue)
+- (Xenium) support for post-xenium aligned images (IF, HE)
+- (Xenium) reader for the selection coordinates file from the Xenium Explorer
+- (Xenium) support for the new Xenium 2.0.0 (multimodal segmentation)
+- (Xenium) reading multiscale labels from cells.zarr.zip
+- (MCMICRO) support for TMAs (such as the data of exemplar-002)
+- (DBiT-seq) reader
+- converter functions `experimental.to_legacy_anndata()` and `experimental.from_legacy_anndata()`
+- (Visium) support for raw reads (capture locations not under tissue)
 
 ### Fixed
 
--   (Xenium) fixed index (fail on write)
--   (Xenium) renamed cells_as_shapes to cells_as_circles; set default to True
--   (MERSCOPE) don't try to load unexisting elements #87
--   (Visium) fixed axes ordering
+- (Xenium) fixed index (fail on write)
+- (Xenium) renamed cells_as_shapes to cells_as_circles; set default to True
+- (MERSCOPE) don't try to load unexisting elements #87
+- (Visium) fixed axes ordering
 
 ## [0.0.9] - 2023-11-06
 
 ### Fixed
 
--   (Xenium) bug when converting feature_name #81, from @fbnrst
--   (Visium) visium() supports file counts without dataset_id #91
+- (Xenium) bug when converting feature_name #81, from @fbnrst
+- (Visium) visium() supports file counts without dataset_id #91
 
 ## [0.0.8] - 2023-10-02
 
 ### Fixed
 
--   (Xenium) coerce cell id to str #64
--   (MERSCOPE) fix coordinate transformation #68
--   (MERSCOPE) Improvements/fixes: merscope reader #73
+- (Xenium) coerce cell id to str #64
+- (MERSCOPE) fix coordinate transformation #68
+- (MERSCOPE) Improvements/fixes: merscope reader #73
 
 ## [0.0.7] - 2023-07-23
 
 ### Fixed
 
--   Bugs in Xenium and MERSCOPE
+- Bugs in Xenium and MERSCOPE
 
 ## [0.0.5] - 2023-06-21
 
 ### Added
 
--   MERFISH reader (from @quentinblampey)
--   CODEX reader (from @LLehner)
+- MERFISH reader (from @quentinblampey)
+- CODEX reader (from @LLehner)
 
 ### Fixed
 
--   Issues on Visium reader (thanks @ilia-kats) and Xenium reader
+- Issues on Visium reader (thanks @ilia-kats) and Xenium reader
 
 ## [0.0.4] - 2023-05-23
 
 ### Added
 
--   Curio reader
+- Curio reader
 
 ## [0.0.3] - 2023-05-22
 
 ### Merged
 
--   Merge pull request #40 from scverse/fix/categories
+- Merge pull request #40 from scverse/fix/categories
 
 ## [0.0.2] - 2023-05-04
 
 ### Changed
 
--   Revert version regex (#37)
+- Revert version regex (#37)
 
 ## [0.0.1] - 2023-05-04
 
 ### Tested
 
--   Test installation from pypi
+- Test installation from pypi