Merge pull request #959 from opentargets/dev

chore: trigger release process

.github/workflows/release.yaml

@@ -15,6 +15,8 @@ jobs:
   release:
     runs-on: ubuntu-latest
     concurrency: release
+    outputs:
+      released: ${{ steps.semrelease.outputs.released }}
     permissions:
       # NOTE: this enables trusted publishing.
       # See https://github.com/pypa/gh-action-pypi-publish/tree/release/v1#trusted-publishing
@@ -46,7 +48,8 @@ jobs:
 
       - name: Publish package to GitHub Release
         uses: python-semantic-release/upload-to-gh-release@main
-        if: ${{ steps.semrelease.outputs.released }} == 'true'
+        # NOTE: semrelease output is a string, so we need to compare it to a string
+        if: steps.semrelease.outputs.released == 'true'
         with:
           # NOTE: allow to start the workflow when push action on tag gets executed
           # requires using GH_APP to authenitcate, otherwise push authorised with
@@ -56,16 +59,16 @@ jobs:
           tag: ${{ steps.semrelease.outputs.tag }}
 
       - name: Store the distribution packages
+        if: steps.semrelease.outputs.released == 'true'
         uses: actions/upload-artifact@v4
         with:
           name: python-package-distributions
           path: dist/
 
   publish-to-pypi:
     needs: release
-    name: >-
-      Publish 📦 in PyPI
-    if: github.ref == 'refs/heads/main'
+    name: Publish 📦 in PyPI
+    if: github.ref == 'refs/heads/main' && needs.release.outputs.released == 'true'
     runs-on: ubuntu-latest
     environment:
       name: pypi
@@ -84,7 +87,7 @@ jobs:
   publish-to-testpypi:
     name: Publish 📦 in TestPyPI
     needs: release
-    if: github.ref != 'refs/heads/main'
+    if: github.ref == 'refs/heads/main' && needs.release.outputs.released == 'true'
     runs-on: ubuntu-latest
 
     environment:
@@ -108,7 +111,7 @@ jobs:
   documentation:
     needs: release
     runs-on: ubuntu-latest
-    if: github.ref == 'refs/heads/main'
+    if: github.ref == 'refs/heads/main' && needs.release.outputs.released == 'true'
     steps:
       - uses: actions/checkout@v4
         with:

pyproject.toml

@@ -19,64 +19,63 @@ packages = [{ include = "gentropy", from = "src" }]
 gentropy = "gentropy.cli:main"
 
 [tool.poetry.dependencies]
-python = "^3.10, <3.11"
+python = ">=3.10, <3.11"
 pyspark = "3.3.4"
-scipy = "^1.11.4"
-hydra-core = "^1.3.2"
-pyliftover = "^0.4"
-numpy = "^1.26.2"
+scipy = ">=1.11.4, <1.12.0"
+hydra-core = ">=1.3.2, <1.4.0"
+pyliftover = ">=0.4, <0.5"
+numpy = ">=1.26.2, <1.27.0"
 hail = "0.2.127"
-wandb = ">=0.16.2,<0.19.0"
-google = "^3.0.0"
-omegaconf = "^2.3.0"
-typing-extensions = "^4.9.0"
-scikit-learn = "^1.3.2"
-pandas = { extras = ["gcp", "parquet"], version = "^2.2.2" }
-skops = ">=0.9,<0.11"
-google-cloud-secret-manager = "^2.20.0"
-shap = "^0.46.0"
-matplotlib = "3.7.3"
-
-[tool.poetry.dev-dependencies]
-pre-commit = "^4.0.0"
-mypy = "^1.13"
-pep8-naming = "^0.14.1"
-interrogate = "^1.7.0"
-isort = "^5.13.2"
-darglint = "^1.8.1"
-ruff = "^0.8.1"
+wandb = ">=0.19.0, <0.20.0"
+google = ">=3.0.0, <3.1.0"
+omegaconf = ">=2.3.0, <2.4.0"
+typing-extensions = ">=4.9.0, <4.13.0"
+scikit-learn = ">=1.6.0, <1.7.0"
+pandas = { extras = ["gcp", "parquet"], version = ">=2.2.2, <2.3.0" }
+skops = ">=0.11, <0.12"
+google-cloud-secret-manager = ">=2.20.0, <2.22.0"
+shap = ">=0.46.0, <0.47.0"
+matplotlib = ">=3.7.3, <3.8.0"
+
 
 [tool.poetry.group.docs.dependencies]
-mkdocs = "^1.5.3"
-mkdocstrings-python = "^1.8.0"
+mkdocs = ">=1.5.3, <1.6.0"
+mkdocstrings-python = ">=1.12.2, <1.13.0"
 mkdocs-material = "*"
-mkdocs-section-index = "^0.3.4"
-mkdocs-git-revision-date-localized-plugin = "^1.2.2"
-mkdocs-autolinks-plugin = "^0.7.1"
-mkdocs-awesome-pages-plugin = "^2.9.2"
-mkdocs-exclude = "^1.0.2"
-mkdocs-git-committers-plugin-2 = "^2.2.3"
-lxml = "^5.1.0"
-pymdown-extensions = "^10.7"
+mkdocs-section-index = ">=0.3.4, <0.4.0"
+mkdocs-git-revision-date-localized-plugin = ">=1.2.2, <1.4.0"
+mkdocs-autolinks-plugin = ">=0.7.1, <0.8.0"
+mkdocs-awesome-pages-plugin = ">=2.9.2, <3.0.0"
+mkdocs-exclude = ">=1.0.2, <1.1.0"
+mkdocs-git-committers-plugin-2 = ">=2.2.3, <2.5.0"
+lxml = ">=5.1.0, <5.4.0"
+pymdown-extensions = ">=10.7, <10.13"
 
 
 [tool.poetry.group.tests.dependencies]
 pytest-cov = ">=4.1,<7.0"
 pytest-sugar = ">=0.9.5,<1.1.0"
 dbldatagen = ">=0.3.1,<0.5.0"
-pyparsing = "^3.1.1"
+pyparsing = ">=3.1.1, <3.3.0"
 pytest = ">=7.4.4,<9.0.0"
-pytest-xdist = "^3.5.0"
+pytest-xdist = ">=3.5.0, <3.7.0"
 
 
 [tool.poetry.group.dev.dependencies]
-ipython = "^8.19.0"
-ipykernel = "^6.28.0"
-google-cloud-dataproc = "^5.8.0"
+ipython = ">=8.19.0, <8.31.0"
+ipykernel = ">=6.28.0, <6.30.0"
+google-cloud-dataproc = ">=5.8.0, <5.16.0"
 pydoclint = ">=0.3.8,<0.6.0"
-prettier = "^0.0.7"
+prettier = ">=0.0.7, <0.1.0"
 deptry = ">=0.12,<0.21"
-yamllint = "^1.33.0"
+yamllint = ">=1.33.0, <1.36.0"
+pre-commit = ">=4.0.0, <4.1.0"
+mypy = ">=1.13, <1.14"
+pep8-naming = ">=0.14.1, <0.15.0"
+interrogate = ">=1.7.0, <1.8.0"
+isort = ">=5.13.2, <5.14.0"
+darglint = ">=1.8.1, <1.9.0"
+ruff = ">=0.8.1, <0.9.0"
 
 [tool.semantic_release]
 logging_use_named_masks = true