Convert to new toml/poetry build system.

(Also, update version)

.github/actions/setup-poetry-env/action.yml

@@ -0,0 +1,42 @@
+name: "setup-poetry-env"
+description: "Composite action to setup the Python and poetry environment."
+
+inputs:
+  python-version:
+    required: false
+    description: "The python version to use"
+    default: "3.11"
+
+runs:
+  using: "composite"
+  steps:
+    - name: Set up python
+      uses: actions/setup-python@v5
+      with:
+        python-version: ${{ inputs.python-version }}
+
+    - name: Install Poetry
+      env:
+        POETRY_VERSION: "1.7.1"
+      run: curl -sSL https://install.python-poetry.org | python - -y
+      shell: bash
+
+    - name: Add Poetry to Path
+      run: echo "$HOME/.local/bin" >> $GITHUB_PATH
+      shell: bash
+
+#    - name: Configure Poetry virtual environment in project
+#      run: poetry config virtualenvs.in-project true
+#      shell: bash
+
+    - name: Load cached venv
+      id: cached-poetry-dependencies
+      uses: actions/cache@v4
+      with:
+        path: .venv
+        key: venv-${{ runner.os }}-${{ inputs.python-version }}-${{ hashFiles('poetry.lock') }}
+
+    - name: Install dependencies
+      if: steps.cached-poetry-dependencies.outputs.cache-hit != 'true'
+      run: poetry install --no-interaction
+      shell: bash

biosimulators_tellurium/_version.py

@@ -1 +1 @@
-__version__ = '0.1.43'
+__version__ = '0.1.44'

pyproject.toml

@@ -0,0 +1,45 @@
+[tool.poetry]
+name = "biosimulators-tellurium"
+version = "0.1.44"
+description = "BioSimulators-compliant command-line interface to the Tellurium/roadrunner simulator <https://tellurium.readthedocs.io/>."
+authors = ["Center for Reproducible Biomedical Modeling <[email protected]>"]
+license = "MIT"
+readme = "README.md"
+homepage = "https://tellurium.readthedocs.io/en/latest/"
+repository = "https://github.com/biosimulators/Biosimulators_tellurium"
+classifiers=[
+        'Development Status :: 3 - Alpha',
+        'Intended Audience :: Science/Research',
+        'License :: OSI Approved :: MIT License',
+        'Topic :: Scientific/Engineering :: Bio-Informatics',
+    ]
+keywords=['systems', 'biology', 'modeling', 'simulation']
+exclude = ['tests', 'tests.*']
+
+[tool.poetry.dependencies]
+python = "^3.10"
+biosimulators_utils = {version = "^0.2.3", extras = ["logging", "sbml"]}
+kisao = "^2.34"
+libroadrunner = "^2.7.0"
+lxml = "^4.9.2"
+numpy = "^1.24.4"
+pandas = "^2.0.2"
+tellurium = "^2.2.10"
+
+[tool.poetry.group.dev.dependencies]
+flake8 = "^7.1.1"
+flakey = "^1.0"
+pytest = "^8.3.3"
+pytest-cov = "^5.0.0"
+
+[tool.poetry.group.docs.dependencies]
+pydata-sphinx-theme = "*"
+sphinx = ">=1.8"
+
+[tool.poetry.scripts]
+biosimulators-tellurium = 'biosimulators_tellurium.__main__:main'
+fix-tellurium-generated-combine-archive = 'biosimulators_copasi.__main__:fix_copasi_generated_combine_archive'
+
+[build-system]
+requires = ["poetry-core"]
+build-backend = "poetry.core.masonry.api"