Merge pull request #46 from firedrakeproject/dolci/merge_upstream_2

Dolci/merge upstream 2

.flake8

@@ -0,0 +1,6 @@
+[flake8]
+max-line-length = 120
+builtins = ufl
+exclude = doc/sphinx/source/conf.py
+per-file-ignores =
+    */__init__.py: F401

.github/workflows/build-wheels.yml

@@ -40,7 +40,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout UFL
-        uses: actions/checkout@v2
+        uses: actions/checkout@v4
         with:
           ref: ${{ github.event.inputs.ufl_ref }}
 
@@ -50,7 +50,7 @@ jobs:
       - name: Build sdist and wheel
         run: python -m build .
 
-      - uses: actions/upload-artifact@v2
+      - uses: actions/upload-artifact@v3
         with:
           path: dist/*
 
@@ -65,15 +65,15 @@ jobs:
           path: dist
 
       - name: Push to PyPI
-        uses: pypa/gh-action-pypi-publish@v1.5.0
+        uses: pypa/gh-action-pypi-publish@release/v1
         if: ${{ github.event.inputs.pypi_publish == 'true' }}
         with:
           user: __token__
           password: ${{ secrets.PYPI_TOKEN }}
           repository_url: https://upload.pypi.org/legacy/
 
       - name: Push to Test PyPI
-        uses: pypa/gh-action-pypi-publish@v1.5.0
+        uses: pypa/gh-action-pypi-publish@release/v1
         if: ${{ github.event.inputs.test_pypi_publish == 'true' }}
         with:
           user: __token__

.github/workflows/fenicsx-tests.yml

@@ -37,7 +37,7 @@ jobs:
           python3 -m pip install git+https://github.com/FEniCS/basix.git
 
       - name: Clone FFCx
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           path: ./ffcx
           repository: FEniCS/ffcx
@@ -53,11 +53,10 @@ jobs:
   dolfinx-tests:
     name: Run DOLFINx tests
     runs-on: ubuntu-latest
-    container: fenicsproject/test-env:nightly-openmpi
+    container: ghcr.io/fenics/test-env:current-openmpi
 
     env:
-
-      PETSC_ARCH: linux-gnu-complex-32
+      PETSC_ARCH: linux-gnu-complex128-32
       OMPI_ALLOW_RUN_AS_ROOT: 1
       OMPI_ALLOW_RUN_AS_ROOT_CONFIRM: 1
       OMPI_MCA_rmaps_base_oversubscribe: 1
@@ -67,10 +66,7 @@ jobs:
       OMPI_MCA_hwloc_base_binding_policy: none
 
     steps:
-      - uses: actions/checkout@v3
-      - name: Install dependencies (Python)
-        run: |
-          python3 -m pip install --upgrade pip
+      - uses: actions/checkout@v4
 
       - name: Install UFL
         run: |
@@ -82,7 +78,7 @@ jobs:
           python3 -m pip install git+https://github.com/FEniCS/ffcx.git
 
       - name: Clone DOLFINx
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           path: ./dolfinx
           repository: FEniCS/dolfinx
@@ -92,6 +88,6 @@ jobs:
           cmake -G Ninja -DCMAKE_BUILD_TYPE=Developer -B build -S dolfinx/cpp/
           cmake --build build
           cmake --install build
-          pip3 -v install --global-option build --global-option --debug dolfinx/python/
+          python3 -m pip -v install --no-build-isolation --check-build-dependencies --config-settings=cmake.build-type="Developer" dolfinx/python/
       - name: Run DOLFINx unit tests
         run: python3 -m pytest -n auto dolfinx/python/test/unit

.github/workflows/pythonapp.yml

@@ -34,7 +34,7 @@ jobs:
           flake8 --statistics .
       - name: Check documentation style
         run: |
-          python -m pip install pydocstyle
+          python -m pip install pydocstyle[toml]
           python -m pydocstyle ufl/
       - name: Install UFL
         run: python -m pip install .[ci]

.github/workflows/spack.yml

@@ -0,0 +1,61 @@
+name: Spack build
+
+on:
+  # Uncomment the below 'push' to trigger on push
+  # push:
+  #  branches:
+  #    - "**"
+  schedule:
+    # '*' is a special character in YAML, so string must be quoted
+    - cron: "0 2 * * WED"
+  workflow_dispatch:
+    inputs:
+      spack_repo:
+        description: "Spack repository to test"
+        default: "spack/spack"
+        type: string
+      spack_ref:
+        description: "Spack repository branch/tag to test"
+        default: "develop"
+        type: string
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    container: ubuntu:latest
+    steps:
+      - name: Install Spack requirements
+        run: |
+          apt-get -y update
+          apt-get install -y bzip2 curl file git gzip make patch python3-minimal tar xz-utils
+          apt-get install -y g++ gfortran  # compilers
+
+      - name: Get Spack
+        if: github.event_name != 'workflow_dispatch'
+        uses: actions/checkout@v4
+        with:
+          path: ./spack
+          repository: spack/spack
+      - name: Get Spack
+        if: github.event_name == 'workflow_dispatch'
+        uses: actions/checkout@v4
+        with:
+          path: ./spack
+          repository: ${{ github.event.inputs.spack_repo }}
+          ref: ${{ github.event.inputs.spack_ref }}
+
+      - name: Install UFL development version and run tests
+        run: |
+          . ./spack/share/spack/setup-env.sh
+          spack env create main
+          spack env activate main
+          spack add py-fenics-ufl@main
+          spack install --test=root
+
+      - name: Install UFL release version and run tests
+        run: |
+          . ./spack/share/spack/setup-env.sh
+          spack env create release
+          spack env activate release
+          spack add py-fenics-ufl
+          spack install --test=root

.github/workflows/tsfc-tests.yml

@@ -32,14 +32,14 @@ jobs:
         with:
           path: ./tsfc
           repository: firedrakeproject/tsfc
-          ref: master
+          ref: mscroggs/newfl-legacy2
       - name: Install tsfc
         run: |
           cd tsfc
           pip install -r requirements-ext.txt
           pip install git+https://github.com/coneoproject/COFFEE.git#egg=coffee
           pip install git+https://github.com/firedrakeproject/fiat.git#egg=fenics-fiat
-          pip install git+https://github.com/FInAT/FInAT.git#egg=finat
+          pip install git+https://github.com/FInAT/FInAT.git@mscroggs/ufl-elements
           pip install git+https://github.com/firedrakeproject/loopy.git#egg=loopy
           pip install .[ci]
           pip install pytest

AUTHORS

@@ -31,3 +31,4 @@ Contributors:
   | Nacime Bouziani       <[email protected]>
   | Reuben W. Hill        <[email protected]>
   | Nacime Bouziani       <[email protected]>
+  | Matthew Scroggs       <[email protected]>

README.rst

@@ -13,18 +13,22 @@ https://www.fenicsproject.org
 
 .. image:: https://github.com/FEniCS/ufl/workflows/UFL%20CI/badge.svg
    :target: https://github.com/FEniCS/ufl/workflows/UFL%20CI
+.. image:: https://github.com/FEniCS/ufl/actions/workflows/spack.yml/badge.svg
+   :target: https://github.com/FEniCS/ufl/actions/workflows/spack.yml
 .. image:: https://coveralls.io/repos/github/FEniCS/ufl/badge.svg?branch=master
    :target: https://coveralls.io/github/FEniCS/ufl?branch=master
    :alt: Coverage Status
 .. image:: https://readthedocs.org/projects/fenics-ufl/badge/?version=latest
    :target: https://fenics.readthedocs.io/projects/ufl/en/latest/?badge=latest
    :alt: Documentation Status
 
+
 Documentation
 =============
 
 Documentation can be viewed at https://fenics-ufl.readthedocs.org/.
 
+
 License
 =======
 

demo/Constant.py

@@ -18,20 +18,23 @@
 # Modified by Martin Sandve Alnes, 2009
 #
 # Test form for scalar and vector constants.
-from ufl import (Coefficient, Constant, FiniteElement, FunctionSpace, Mesh, TestFunction, TrialFunction, VectorConstant,
-                 VectorElement, dot, dx, grad, inner, triangle)
+from ufl import (Coefficient, Constant, FunctionSpace, Mesh, TestFunction, TrialFunction, VectorConstant, dot, dx, grad,
+                 inner, triangle)
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
 cell = triangle
-element = FiniteElement("Lagrange", cell, 1)
-domain = Mesh(VectorElement("Lagrange", cell, 1))
+element = FiniteElement("Lagrange", cell, 1, (), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", cell, 1, (2, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 v = TestFunction(space)
 u = TrialFunction(space)
 f = Coefficient(space)
 
-c = Constant(space)
-d = VectorConstant(space)
+c = Constant(domain)
+d = VectorConstant(domain)
 
 a = c * dot(grad(v), grad(u)) * dx
 L = inner(d, grad(v)) * dx

demo/ConvectionJacobi.py

@@ -2,10 +2,13 @@
 # Author: Martin Sandve Alnes
 # Date: 2008-10-03
 #
-from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, VectorElement, dot, dx, grad, triangle
+from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, dot, dx, grad, triangle
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = VectorElement("Lagrange", triangle, 1)
-domain = Mesh(VectorElement("Lagrange", triangle, 1))
+element = FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 u = TrialFunction(space)

demo/ConvectionJacobi2.py

@@ -2,10 +2,13 @@
 # Author: Martin Sandve Alnes
 # Date: 2008-10-03
 #
-from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, VectorElement, dx, i, j, triangle
+from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, dx, i, j, triangle
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = VectorElement("Lagrange", triangle, 1)
-domain = Mesh(VectorElement("Lagrange", triangle, 1))
+element = FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 u = TrialFunction(space)

demo/ConvectionVector.py

@@ -2,10 +2,13 @@
 # Author: Martin Sandve Alnes
 # Date: 2008-10-03
 #
-from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, VectorElement, dot, dx, grad, triangle
+from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, dot, dx, grad, triangle
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = VectorElement("Lagrange", triangle, 1)
-domain = Mesh(VectorElement("Lagrange", triangle, 1))
+element = FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 v = TestFunction(space)

demo/Elasticity.py

@@ -3,10 +3,13 @@
 # Modified by: Martin Sandve Alnes
 # Date: 2009-01-12
 #
-from ufl import FunctionSpace, Mesh, TestFunction, TrialFunction, VectorElement, dx, grad, inner, tetrahedron
+from ufl import FunctionSpace, Mesh, TestFunction, TrialFunction, dx, grad, inner, tetrahedron
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = VectorElement("Lagrange", tetrahedron, 1)
-domain = Mesh(VectorElement("Lagrange", tetrahedron, 1))
+element = FiniteElement("Lagrange", tetrahedron, 1, (3, ), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", tetrahedron, 1, (3, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 v = TestFunction(space)

demo/EnergyNorm.py

@@ -17,10 +17,13 @@
 #
 # This example demonstrates how to define a functional, here
 # the energy norm (squared) for a reaction-diffusion problem.
-from ufl import Coefficient, FiniteElement, FunctionSpace, Mesh, VectorElement, dot, dx, grad, tetrahedron
+from ufl import Coefficient, FunctionSpace, Mesh, dot, dx, grad, tetrahedron
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = FiniteElement("Lagrange", tetrahedron, 1)
-domain = Mesh(VectorElement("Lagrange", tetrahedron, 1))
+element = FiniteElement("Lagrange", tetrahedron, 1, (), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", tetrahedron, 1, (3, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 v = Coefficient(space)

demo/Equation.py

@@ -34,11 +34,13 @@
 # the unknown u to the right-hand side, all terms may
 # be listed on one line and left- and right-hand sides
 # extracted by lhs() and rhs().
-from ufl import (Coefficient, FiniteElement, FunctionSpace, Mesh, TestFunction, TrialFunction, VectorElement, dot, dx,
-                 grad, lhs, rhs, triangle)
+from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, dot, dx, grad, lhs, rhs, triangle
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = FiniteElement("Lagrange", triangle, 1)
-domain = Mesh(VectorElement("Lagrange", triangle, 1))
+element = FiniteElement("Lagrange", triangle, 1, (), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 k = 0.1

demo/ExplicitConvection.py

@@ -2,10 +2,13 @@
 # Author: Martin Sandve Alnes
 # Date: 2008-10-03
 #
-from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, VectorElement, dot, dx, grad, triangle
+from ufl import Coefficient, FunctionSpace, Mesh, TestFunction, TrialFunction, dot, dx, grad, triangle
+from ufl.finiteelement import FiniteElement
+from ufl.pullback import identity_pullback
+from ufl.sobolevspace import H1
 
-element = VectorElement("Lagrange", triangle, 1)
-domain = Mesh(VectorElement("Lagrange", triangle, 1))
+element = FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1)
+domain = Mesh(FiniteElement("Lagrange", triangle, 1, (2, ), identity_pullback, H1))
 space = FunctionSpace(domain, element)
 
 u = TrialFunction(space)