Bump jupytext, remove unused import and API change due to: FEniCS/dol…

…finx#3434 (#209)
jorgensd · Sep 27, 2024 · 17e541a · 17e541a
1 parent a86ec74
commit 17e541a
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Showing 22 changed files with 25 additions and 26 deletions.
diff --git a/chapter1/complex_mode.py b/chapter1/complex_mode.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.15.2
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (DOLFINx complex)
 #     language: python

diff --git a/chapter1/fundamentals_code.py b/chapter1/fundamentals_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.15.2
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter1/membrane_code.py b/chapter1/membrane_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter1/nitsche.py b/chapter1/nitsche.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter2/diffusion_code.py b/chapter2/diffusion_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python
@@ -27,7 +27,6 @@
 
 # +
 import matplotlib as mpl
-import matplotlib.pyplot as plt
 import pyvista
 import ufl
 import numpy as np

diff --git a/chapter2/heat_code.py b/chapter2/heat_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter2/hyperelasticity.py b/chapter2/hyperelasticity.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter2/linearelasticity_code.py b/chapter2/linearelasticity_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter2/nonlinpoisson_code.py b/chapter2/nonlinpoisson_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter2/ns_code1.py b/chapter2/ns_code1.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.15.2
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter2/ns_code2.py b/chapter2/ns_code2.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter3/component_bc.py b/chapter3/component_bc.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter3/em.py b/chapter3/em.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.15.2
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter3/multiple_dirichlet.py b/chapter3/multiple_dirichlet.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter3/neumann_dirichlet_code.py b/chapter3/neumann_dirichlet_code.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter3/robin_neumann_dirichlet.py b/chapter3/robin_neumann_dirichlet.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter3/subdomains.py b/chapter3/subdomains.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter4/compiler_parameters.py b/chapter4/compiler_parameters.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter4/convergence.py b/chapter4/convergence.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python

diff --git a/chapter4/newton-solver.ipynb b/chapter4/newton-solver.ipynb
diff --git a/chapter4/newton-solver.py b/chapter4/newton-solver.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python
@@ -257,7 +257,7 @@ def u_exact(x):
     L.scale(-1)
 
     # Compute b - J(u_D-u_(i-1))
-    dolfinx.fem.petsc.apply_lifting(L, [jacobian], [[bc]], x0=[uh.x.petsc_vec], scale=1)
+    dolfinx.fem.petsc.apply_lifting(L, [jacobian], [[bc]], x0=[uh.x.petsc_vec], alpha=1)
     # Set du|_bc = u_{i-1}-u_D
     dolfinx.fem.petsc.set_bc(L, [bc], uh.x.petsc_vec, 1.0)
     L.ghostUpdate(addv=PETSc.InsertMode.INSERT_VALUES, mode=PETSc.ScatterMode.FORWARD)

diff --git a/chapter4/solvers.py b/chapter4/solvers.py
@@ -6,7 +6,7 @@
 #       extension: .py
 #       format_name: light
 #       format_version: '1.5'
-#       jupytext_version: 1.16.1
+#       jupytext_version: 1.16.4
 #   kernelspec:
 #     display_name: Python 3 (ipykernel)
 #     language: python