feat: initial rye support

.python-version

@@ -0,0 +1 @@
+3.10.13

.vscode/extensions.json

@@ -0,0 +1,13 @@
+{
+    "recommendations": [
+        "GitHub.copilot",
+        "charliermarsh.ruff",
+        "ms-python.python",
+        "ms-python.vscode-pylance",
+        "GitHub.vscode-pull-request-github",
+        "Graphite.gti-vscode",
+        "SeeLog.python-init-generator",
+        "tamasfe.even-better-toml",
+        "MichaelCurrin.auto-commit-msg"
+    ]
+}

.vscode/tasks.json

@@ -26,7 +26,7 @@
         {
             "label": "Test",
             "type": "shell",
-            "command": "inv test",
+            "command": "source .venv/bin/activate; inv test",
             "presentation": {
                 "group": "pr",
                 "clear": true,
@@ -36,7 +36,7 @@
         {
             "label": "Lint",
             "type": "shell",
-            "command": "inv lint",
+            "command": "source .venv/bin/activate; inv lint",
             "presentation": {
                 "group": "pr",
                 "revealProblems": "onProblem",

pyproject.toml

@@ -79,6 +79,18 @@ homepage = "https://github.com/Aarhus-Psychiatry-Research/timeseriesflattener"
 repository = "https://github.com/Aarhus-Psychiatry-Research/timeseriesflattener"
 documentation = "https://aarhus-psychiatry-research.github.io/timeseriesflattener/"
 
+[tool]
+rye = { dev-dependencies = [
+    "pytest>=7.1.3, <7.3.0",
+    "pytest-cov>=3.0.0, <3.1.0",
+    "pytest-xdist>=3.0.0, <3.2.0",
+    "pytest-sugar>=0.9.4, <0.10.0",
+    "pytest-testmon==2.1.0",
+    "pytest-benchmark==4.0.0",
+    "pytest-codspeed==2.2.0",
+    "invoke==2.1.1",
+] }
+
 [tool.pyright]
 exclude = [".*venv*/", ".venv38/", ".tox", ".benchmark_cache"]
 

requirements-dev.lock

@@ -0,0 +1,113 @@
+# generated by rye
+# use `rye lock` or `rye sync` to update this lockfile
+#
+# last locked with the following flags:
+#   pre: false
+#   features: []
+#   all-features: false
+#   with-sources: false
+
+-e file:.
+annotated-types==0.6.0
+    # via pydantic
+attrs==23.2.0
+    # via pytest
+catalogue==2.0.10
+    # via timeseriesflattener
+cffi==1.15.1
+    # via pytest-codspeed
+coloredlogs==15.0.1
+    # via timeseriesflattener
+coverage==7.4.1
+    # via pytest-cov
+    # via pytest-testmon
+exceptiongroup==1.2.0
+    # via pytest
+execnet==2.0.2
+    # via pytest-xdist
+filelock==3.12.4
+    # via pytest-codspeed
+frozendict==2.4.0
+    # via timeseriesflattener
+humanfriendly==10.0
+    # via coloredlogs
+iniconfig==2.0.0
+    # via pytest
+invoke==2.1.1
+iterpy==1.5.1
+    # via timeseriesflattener
+joblib==1.3.2
+    # via scikit-learn
+markdown-it-py==3.0.0
+    # via rich
+mdurl==0.1.2
+    # via markdown-it-py
+numpy==1.26.4
+    # via pandas
+    # via pyarrow
+    # via scikit-learn
+    # via scipy
+    # via timeseriesflattener
+packaging==23.2
+    # via pytest
+    # via pytest-sugar
+pandas==2.1.3
+    # via timeseriesflattener
+pluggy==1.4.0
+    # via pytest
+polars==0.20.9
+    # via timeseriesflattener
+protobuf==4.24.4
+    # via timeseriesflattener
+py-cpuinfo==9.0.0
+    # via pytest-benchmark
+pyarrow==15.0.0
+    # via timeseriesflattener
+pycparser==2.21
+    # via cffi
+pydantic==2.6.1
+    # via timeseriesflattener
+pydantic-core==2.16.2
+    # via pydantic
+pygments==2.17.2
+    # via rich
+pytest==7.2.2
+    # via pytest-benchmark
+    # via pytest-codspeed
+    # via pytest-cov
+    # via pytest-sugar
+    # via pytest-testmon
+    # via pytest-xdist
+pytest-benchmark==4.0.0
+pytest-codspeed==2.2.0
+pytest-cov==3.0.0
+pytest-sugar==0.9.7
+pytest-testmon==2.1.0
+pytest-xdist==3.1.0
+python-dateutil==2.8.2
+    # via pandas
+pytz==2024.1
+    # via pandas
+rich==13.7.0
+    # via timeseriesflattener
+scikit-learn==1.4.1.post1
+    # via timeseriesflattener
+scipy==1.12.0
+    # via scikit-learn
+    # via timeseriesflattener
+six==1.16.0
+    # via python-dateutil
+termcolor==2.4.0
+    # via pytest-sugar
+threadpoolctl==3.3.0
+    # via scikit-learn
+tomli==2.0.1
+    # via coverage
+    # via pytest
+tqdm==4.66.2
+    # via timeseriesflattener
+typing-extensions==4.9.0
+    # via pydantic
+    # via pydantic-core
+tzdata==2024.1
+    # via pandas

requirements.lock

@@ -0,0 +1,70 @@
+# generated by rye
+# use `rye lock` or `rye sync` to update this lockfile
+#
+# last locked with the following flags:
+#   pre: false
+#   features: []
+#   all-features: false
+#   with-sources: false
+
+-e file:.
+annotated-types==0.6.0
+    # via pydantic
+catalogue==2.0.10
+    # via timeseriesflattener
+coloredlogs==15.0.1
+    # via timeseriesflattener
+frozendict==2.4.0
+    # via timeseriesflattener
+humanfriendly==10.0
+    # via coloredlogs
+iterpy==1.5.1
+    # via timeseriesflattener
+joblib==1.3.2
+    # via scikit-learn
+markdown-it-py==3.0.0
+    # via rich
+mdurl==0.1.2
+    # via markdown-it-py
+numpy==1.26.4
+    # via pandas
+    # via pyarrow
+    # via scikit-learn
+    # via scipy
+    # via timeseriesflattener
+pandas==2.1.3
+    # via timeseriesflattener
+polars==0.20.9
+    # via timeseriesflattener
+protobuf==4.24.4
+    # via timeseriesflattener
+pyarrow==15.0.0
+    # via timeseriesflattener
+pydantic==2.6.1
+    # via timeseriesflattener
+pydantic-core==2.16.2
+    # via pydantic
+pygments==2.17.2
+    # via rich
+python-dateutil==2.8.2
+    # via pandas
+pytz==2024.1
+    # via pandas
+rich==13.7.0
+    # via timeseriesflattener
+scikit-learn==1.4.1.post1
+    # via timeseriesflattener
+scipy==1.12.0
+    # via scikit-learn
+    # via timeseriesflattener
+six==1.16.0
+    # via python-dateutil
+threadpoolctl==3.3.0
+    # via scikit-learn
+tqdm==4.66.2
+    # via timeseriesflattener
+typing-extensions==4.9.0
+    # via pydantic
+    # via pydantic-core
+tzdata==2024.1
+    # via pandas

tasks.py

@@ -22,7 +22,7 @@
 from pathlib import Path
 from typing import List, Optional
 
-from invoke import Context, Result, task
+from invoke import Context, Result, task  # type: ignore
 
 
 def echo_header(msg: str):