From d3289132850ffe32c11c6c462cf63f72963a262c Mon Sep 17 00:00:00 2001
From: Tobias Diez <code@tobiasdiez.de>
Date: Fri, 24 Nov 2023 10:09:35 +0000
Subject: [PATCH 1/8] Readd init files

---
 src/sage/__init__.py                                         | 2 ++
 src/sage/algebras/__init__.py                                | 1 +
 src/sage/algebras/finite_dimensional_algebras/__init__.py    | 1 +
 src/sage/algebras/fusion_rings/__init__.py                   | 1 +
 src/sage/algebras/hecke_algebras/__init__.py                 | 1 +
 src/sage/algebras/letterplace/__init__.py                    | 1 +
 src/sage/algebras/lie_algebras/__init__.py                   | 1 +
 src/sage/algebras/lie_conformal_algebras/__init__.py         | 1 +
 src/sage/algebras/quantum_groups/__init__.py                 | 1 +
 src/sage/algebras/quatalg/__init__.py                        | 1 +
 src/sage/algebras/steenrod/__init__.py                       | 1 +
 src/sage/arith/__init__.py                                   | 1 +
 src/sage/calculus/__init__.py                                | 1 +
 src/sage/calculus/transforms/__init__.py                     | 1 +
 src/sage/categories/__init__.py                              | 0
 src/sage/categories/examples/__init__.py                     | 1 +
 src/sage/coding/__init__.py                                  | 1 +
 src/sage/coding/codecan/__init__.py                          | 1 +
 src/sage/coding/guruswami_sudan/__init__.py                  | 1 +
 src/sage/coding/source_coding/__init__.py                    | 1 +
 src/sage/combinat/__init__.py                                | 1 +
 src/sage/combinat/chas/__init__.py                           | 1 +
 src/sage/combinat/cluster_algebra_quiver/__init__.py         | 1 +
 src/sage/combinat/crystals/__init__.py                       | 1 +
 src/sage/combinat/designs/__init__.py                        | 1 +
 src/sage/combinat/matrices/__init__.py                       | 1 +
 src/sage/combinat/ncsf_qsym/__init__.py                      | 1 +
 src/sage/combinat/ncsym/__init__.py                          | 1 +
 src/sage/combinat/path_tableaux/__init__.py                  | 1 +
 src/sage/combinat/posets/__init__.py                         | 1 +
 src/sage/combinat/rigged_configurations/__init__.py          | 1 +
 src/sage/combinat/root_system/__init__.py                    | 1 +
 src/sage/combinat/sf/__init__.py                             | 1 +
 src/sage/combinat/species/__init__.py                        | 1 +
 src/sage/combinat/words/__init__.py                          | 1 +
 src/sage/crypto/block_cipher/__init__.py                     | 1 +
 src/sage/crypto/public_key/__init__.py                       | 1 +
 src/sage/data_structures/__init__.py                         | 1 +
 src/sage/databases/__init__.py                               | 1 +
 src/sage/dynamics/__init__.py                                | 1 +
 src/sage/dynamics/arithmetic_dynamics/__init__.py            | 1 +
 src/sage/dynamics/cellular_automata/__init__.py              | 1 +
 src/sage/dynamics/complex_dynamics/__init__.py               | 1 +
 src/sage/ext/__init__.py                                     | 1 +
 src/sage/functions/__init__.py                               | 1 +
 src/sage/game_theory/__init__.py                             | 1 +
 src/sage/games/__init__.py                                   | 1 +
 src/sage/geometry/__init__.py                                | 1 +
 src/sage/geometry/hyperbolic_space/__init__.py               | 1 +
 src/sage/geometry/hyperplane_arrangement/__init__.py         | 1 +
 src/sage/geometry/polyhedron/__init__.py                     | 1 +
 .../geometry/polyhedron/combinatorial_polyhedron/__init__.py | 1 +
 src/sage/geometry/polyhedron/modules/__init__.py             | 1 +
 src/sage/geometry/riemannian_manifolds/__init__.py           | 1 +
 src/sage/geometry/triangulation/__init__.py                  | 1 +
 src/sage/graphs/__init__.py                                  | 1 +
 src/sage/graphs/base/__init__.py                             | 1 +
 src/sage/graphs/generators/__init__.py                       | 1 +
 src/sage/graphs/graph_decompositions/__init__.py             | 1 +
 src/sage/groups/__init__.py                                  | 1 +
 src/sage/groups/abelian_gps/__init__.py                      | 1 +
 src/sage/groups/additive_abelian/__init__.py                 | 1 +
 src/sage/groups/affine_gps/__init__.py                       | 1 +
 src/sage/groups/lie_gps/__init__.py                          | 1 +
 src/sage/groups/matrix_gps/__init__.py                       | 1 +
 src/sage/groups/misc_gps/__init__.py                         | 1 +
 src/sage/groups/perm_gps/__init__.py                         | 1 +
 src/sage/groups/perm_gps/partn_ref/__init__.py               | 1 +
 src/sage/groups/perm_gps/partn_ref2/__init__.py              | 1 +
 src/sage/groups/semimonomial_transformations/__init__.py     | 1 +
 src/sage/homology/__init__.py                                | 1 +
 src/sage/interacts/__init__.py                               | 1 +
 src/sage/interfaces/__init__.py                              | 1 +
 src/sage/knots/__init__.py                                   | 1 +
 src/sage/lfunctions/__init__.py                              | 1 +
 src/sage/libs/__init__.py                                    | 0
 src/sage/libs/gap/__init__.py                                | 0
 src/sage/libs/mpc/__init__.py                                | 1 +
 src/sage/libs/mpfi/__init__.py                               | 1 +
 src/sage/libs/mpfr/__init__.py                               | 1 +
 src/sage/libs/polybori/__init__.py                           | 1 +
 src/sage/logic/__init__.py                                   | 1 +
 src/sage/manifolds/__init__.py                               | 1 +
 src/sage/manifolds/differentiable/__init__.py                | 1 +
 src/sage/manifolds/differentiable/examples/__init__.py       | 1 +
 src/sage/manifolds/subsets/__init__.py                       | 1 +
 src/sage/matrix/__init__.py                                  | 1 +
 src/sage/matroids/__init__.py                                | 1 +
 src/sage/misc/__init__.py                                    | 0
 src/sage/modular/__init__.py                                 | 1 +
 src/sage/modular/abvar/__init__.py                           | 1 +
 src/sage/modular/arithgroup/__init__.py                      | 1 +
 src/sage/modular/btquotients/__init__.py                     | 1 +
 src/sage/modular/hecke/__init__.py                           | 1 +
 src/sage/modular/local_comp/__init__.py                      | 1 +
 src/sage/modular/modform/__init__.py                         | 1 +
 src/sage/modular/modform_hecketriangle/__init__.py           | 1 +
 src/sage/modular/modsym/__init__.py                          | 1 +
 src/sage/modular/overconvergent/__init__.py                  | 1 +
 src/sage/modular/pollack_stevens/__init__.py                 | 1 +
 src/sage/modular/quasimodform/__init__.py                    | 1 +
 src/sage/modular/quatalg/__init__.py                         | 1 +
 src/sage/modular/ssmod/__init__.py                           | 1 +
 src/sage/modules/__init__.py                                 | 1 +
 src/sage/modules/fg_pid/__init__.py                          | 1 +
 src/sage/modules/fp_graded/__init__.py                       | 1 +
 src/sage/modules/fp_graded/steenrod/__init__.py              | 1 +
 src/sage/modules/with_basis/__init__.py                      | 1 +
 src/sage/monoids/__init__.py                                 | 1 +
 src/sage/numerical/__init__.py                               | 1 +
 src/sage/numerical/backends/__init__.py                      | 1 +
 src/sage/parallel/__init__.py                                | 1 +
 src/sage/plot/__init__.py                                    | 1 +
 src/sage/plot/plot3d/__init__.py                             | 1 +
 src/sage/probability/__init__.py                             | 1 +
 src/sage/quadratic_forms/__init__.py                         | 1 +
 src/sage/quadratic_forms/genera/__init__.py                  | 1 +
 src/sage/quivers/__init__.py                                 | 1 +
 src/sage/rings/__init__.py                                   | 1 +
 src/sage/rings/asymptotic/__init__.py                        | 1 +
 src/sage/rings/convert/__init__.py                           | 1 +
 src/sage/rings/finite_rings/__init__.py                      | 1 +
 src/sage/rings/function_field/__init__.py                    | 1 +
 src/sage/rings/function_field/drinfeld_modules/__init__.py   | 1 +
 src/sage/rings/invariants/__init__.py                        | 1 +
 src/sage/rings/number_field/__init__.py                      | 1 +
 src/sage/rings/padics/__init__.py                            | 1 +
 src/sage/rings/polynomial/__init__.py                        | 1 +
 src/sage/rings/polynomial/padics/__init__.py                 | 1 +
 src/sage/rings/polynomial/weil/__init__.py                   | 1 +
 src/sage/rings/semirings/__init__.py                         | 1 +
 src/sage/rings/valuation/__init__.py                         | 1 +
 src/sage/sandpiles/__init__.py                               | 1 +
 src/sage/sat/__init__.py                                     | 1 +
 src/sage/schemes/__init__.py                                 | 1 +
 src/sage/schemes/affine/__init__.py                          | 1 +
 src/sage/schemes/berkovich/__init__.py                       | 1 +
 src/sage/schemes/curves/__init__.py                          | 1 +
 src/sage/schemes/cyclic_covers/__init__.py                   | 1 +
 src/sage/schemes/elliptic_curves/__init__.py                 | 1 +
 src/sage/schemes/generic/__init__.py                         | 1 +
 src/sage/schemes/hyperelliptic_curves/__init__.py            | 1 +
 src/sage/schemes/jacobians/__init__.py                       | 1 +
 src/sage/schemes/plane_conics/__init__.py                    | 1 +
 src/sage/schemes/plane_quartics/__init__.py                  | 1 +
 src/sage/schemes/product_projective/__init__.py              | 1 +
 src/sage/schemes/projective/__init__.py                      | 1 +
 src/sage/schemes/riemann_surfaces/__init__.py                | 1 +
 src/sage/schemes/toric/__init__.py                           | 1 +
 src/sage/schemes/toric/sheaf/__init__.py                     | 1 +
 src/sage/sets/__init__.py                                    | 1 +
 src/sage/stats/__init__.py                                   | 1 +
 src/sage/stats/distributions/__init__.py                     | 1 +
 src/sage/stats/hmm/__init__.py                               | 1 +
 src/sage/symbolic/__init__.py                                | 1 +
 src/sage/symbolic/integration/__init__.py                    | 1 +
 src/sage/tensor/__init__.py                                  | 1 +
 src/sage/tensor/modules/__init__.py                          | 1 +
 src/sage/tests/books/__init__.py                             | 1 +
 src/sage/topology/__init__.py                                | 1 +
 src/sage/typeset/__init__.py                                 | 1 +
 src/sage_setup/autogen/interpreters/__init__.py              | 5 -----
 162 files changed, 158 insertions(+), 5 deletions(-)
 create mode 100644 src/sage/__init__.py
 create mode 100644 src/sage/algebras/__init__.py
 create mode 100644 src/sage/algebras/finite_dimensional_algebras/__init__.py
 create mode 100644 src/sage/algebras/fusion_rings/__init__.py
 create mode 100644 src/sage/algebras/hecke_algebras/__init__.py
 create mode 100644 src/sage/algebras/letterplace/__init__.py
 create mode 100644 src/sage/algebras/lie_algebras/__init__.py
 create mode 100644 src/sage/algebras/lie_conformal_algebras/__init__.py
 create mode 100644 src/sage/algebras/quantum_groups/__init__.py
 create mode 100644 src/sage/algebras/quatalg/__init__.py
 create mode 100644 src/sage/algebras/steenrod/__init__.py
 create mode 100644 src/sage/arith/__init__.py
 create mode 100644 src/sage/calculus/__init__.py
 create mode 100644 src/sage/calculus/transforms/__init__.py
 create mode 100644 src/sage/categories/__init__.py
 create mode 100644 src/sage/categories/examples/__init__.py
 create mode 100644 src/sage/coding/__init__.py
 create mode 100644 src/sage/coding/codecan/__init__.py
 create mode 100644 src/sage/coding/guruswami_sudan/__init__.py
 create mode 100644 src/sage/coding/source_coding/__init__.py
 create mode 100644 src/sage/combinat/__init__.py
 create mode 100644 src/sage/combinat/chas/__init__.py
 create mode 100644 src/sage/combinat/cluster_algebra_quiver/__init__.py
 create mode 100644 src/sage/combinat/crystals/__init__.py
 create mode 100644 src/sage/combinat/designs/__init__.py
 create mode 100644 src/sage/combinat/matrices/__init__.py
 create mode 100644 src/sage/combinat/ncsf_qsym/__init__.py
 create mode 100644 src/sage/combinat/ncsym/__init__.py
 create mode 100644 src/sage/combinat/path_tableaux/__init__.py
 create mode 100644 src/sage/combinat/posets/__init__.py
 create mode 100644 src/sage/combinat/rigged_configurations/__init__.py
 create mode 100644 src/sage/combinat/root_system/__init__.py
 create mode 100644 src/sage/combinat/sf/__init__.py
 create mode 100644 src/sage/combinat/species/__init__.py
 create mode 100644 src/sage/combinat/words/__init__.py
 create mode 100644 src/sage/crypto/block_cipher/__init__.py
 create mode 100644 src/sage/crypto/public_key/__init__.py
 create mode 100644 src/sage/data_structures/__init__.py
 create mode 100644 src/sage/databases/__init__.py
 create mode 100644 src/sage/dynamics/__init__.py
 create mode 100644 src/sage/dynamics/arithmetic_dynamics/__init__.py
 create mode 100644 src/sage/dynamics/cellular_automata/__init__.py
 create mode 100644 src/sage/dynamics/complex_dynamics/__init__.py
 create mode 100644 src/sage/ext/__init__.py
 create mode 100644 src/sage/functions/__init__.py
 create mode 100644 src/sage/game_theory/__init__.py
 create mode 100644 src/sage/games/__init__.py
 create mode 100644 src/sage/geometry/__init__.py
 create mode 100644 src/sage/geometry/hyperbolic_space/__init__.py
 create mode 100644 src/sage/geometry/hyperplane_arrangement/__init__.py
 create mode 100644 src/sage/geometry/polyhedron/__init__.py
 create mode 100644 src/sage/geometry/polyhedron/combinatorial_polyhedron/__init__.py
 create mode 100644 src/sage/geometry/polyhedron/modules/__init__.py
 create mode 100644 src/sage/geometry/riemannian_manifolds/__init__.py
 create mode 100644 src/sage/geometry/triangulation/__init__.py
 create mode 100644 src/sage/graphs/__init__.py
 create mode 100644 src/sage/graphs/base/__init__.py
 create mode 100644 src/sage/graphs/generators/__init__.py
 create mode 100644 src/sage/graphs/graph_decompositions/__init__.py
 create mode 100644 src/sage/groups/__init__.py
 create mode 100644 src/sage/groups/abelian_gps/__init__.py
 create mode 100644 src/sage/groups/additive_abelian/__init__.py
 create mode 100644 src/sage/groups/affine_gps/__init__.py
 create mode 100644 src/sage/groups/lie_gps/__init__.py
 create mode 100644 src/sage/groups/matrix_gps/__init__.py
 create mode 100644 src/sage/groups/misc_gps/__init__.py
 create mode 100644 src/sage/groups/perm_gps/__init__.py
 create mode 100644 src/sage/groups/perm_gps/partn_ref/__init__.py
 create mode 100644 src/sage/groups/perm_gps/partn_ref2/__init__.py
 create mode 100644 src/sage/groups/semimonomial_transformations/__init__.py
 create mode 100644 src/sage/homology/__init__.py
 create mode 100644 src/sage/interacts/__init__.py
 create mode 100644 src/sage/interfaces/__init__.py
 create mode 100644 src/sage/knots/__init__.py
 create mode 100644 src/sage/lfunctions/__init__.py
 create mode 100644 src/sage/libs/__init__.py
 create mode 100644 src/sage/libs/gap/__init__.py
 create mode 100644 src/sage/libs/mpc/__init__.py
 create mode 100644 src/sage/libs/mpfi/__init__.py
 create mode 100644 src/sage/libs/mpfr/__init__.py
 create mode 100644 src/sage/libs/polybori/__init__.py
 create mode 100644 src/sage/logic/__init__.py
 create mode 100644 src/sage/manifolds/__init__.py
 create mode 100644 src/sage/manifolds/differentiable/__init__.py
 create mode 100644 src/sage/manifolds/differentiable/examples/__init__.py
 create mode 100644 src/sage/manifolds/subsets/__init__.py
 create mode 100644 src/sage/matrix/__init__.py
 create mode 100644 src/sage/matroids/__init__.py
 create mode 100644 src/sage/misc/__init__.py
 create mode 100644 src/sage/modular/__init__.py
 create mode 100644 src/sage/modular/abvar/__init__.py
 create mode 100644 src/sage/modular/arithgroup/__init__.py
 create mode 100644 src/sage/modular/btquotients/__init__.py
 create mode 100644 src/sage/modular/hecke/__init__.py
 create mode 100644 src/sage/modular/local_comp/__init__.py
 create mode 100644 src/sage/modular/modform/__init__.py
 create mode 100644 src/sage/modular/modform_hecketriangle/__init__.py
 create mode 100644 src/sage/modular/modsym/__init__.py
 create mode 100644 src/sage/modular/overconvergent/__init__.py
 create mode 100644 src/sage/modular/pollack_stevens/__init__.py
 create mode 100644 src/sage/modular/quasimodform/__init__.py
 create mode 100644 src/sage/modular/quatalg/__init__.py
 create mode 100644 src/sage/modular/ssmod/__init__.py
 create mode 100644 src/sage/modules/__init__.py
 create mode 100644 src/sage/modules/fg_pid/__init__.py
 create mode 100644 src/sage/modules/fp_graded/__init__.py
 create mode 100644 src/sage/modules/fp_graded/steenrod/__init__.py
 create mode 100644 src/sage/modules/with_basis/__init__.py
 create mode 100644 src/sage/monoids/__init__.py
 create mode 100644 src/sage/numerical/__init__.py
 create mode 100644 src/sage/numerical/backends/__init__.py
 create mode 100644 src/sage/parallel/__init__.py
 create mode 100644 src/sage/plot/__init__.py
 create mode 100644 src/sage/plot/plot3d/__init__.py
 create mode 100644 src/sage/probability/__init__.py
 create mode 100644 src/sage/quadratic_forms/__init__.py
 create mode 100644 src/sage/quadratic_forms/genera/__init__.py
 create mode 100644 src/sage/quivers/__init__.py
 create mode 100644 src/sage/rings/__init__.py
 create mode 100644 src/sage/rings/asymptotic/__init__.py
 create mode 100644 src/sage/rings/convert/__init__.py
 create mode 100644 src/sage/rings/finite_rings/__init__.py
 create mode 100644 src/sage/rings/function_field/__init__.py
 create mode 100644 src/sage/rings/function_field/drinfeld_modules/__init__.py
 create mode 100644 src/sage/rings/invariants/__init__.py
 create mode 100644 src/sage/rings/number_field/__init__.py
 create mode 100644 src/sage/rings/padics/__init__.py
 create mode 100644 src/sage/rings/polynomial/__init__.py
 create mode 100644 src/sage/rings/polynomial/padics/__init__.py
 create mode 100644 src/sage/rings/polynomial/weil/__init__.py
 create mode 100644 src/sage/rings/semirings/__init__.py
 create mode 100644 src/sage/rings/valuation/__init__.py
 create mode 100644 src/sage/sandpiles/__init__.py
 create mode 100644 src/sage/sat/__init__.py
 create mode 100644 src/sage/schemes/__init__.py
 create mode 100644 src/sage/schemes/affine/__init__.py
 create mode 100644 src/sage/schemes/berkovich/__init__.py
 create mode 100644 src/sage/schemes/curves/__init__.py
 create mode 100644 src/sage/schemes/cyclic_covers/__init__.py
 create mode 100644 src/sage/schemes/elliptic_curves/__init__.py
 create mode 100644 src/sage/schemes/generic/__init__.py
 create mode 100644 src/sage/schemes/hyperelliptic_curves/__init__.py
 create mode 100644 src/sage/schemes/jacobians/__init__.py
 create mode 100644 src/sage/schemes/plane_conics/__init__.py
 create mode 100644 src/sage/schemes/plane_quartics/__init__.py
 create mode 100644 src/sage/schemes/product_projective/__init__.py
 create mode 100644 src/sage/schemes/projective/__init__.py
 create mode 100644 src/sage/schemes/riemann_surfaces/__init__.py
 create mode 100644 src/sage/schemes/toric/__init__.py
 create mode 100644 src/sage/schemes/toric/sheaf/__init__.py
 create mode 100644 src/sage/sets/__init__.py
 create mode 100644 src/sage/stats/__init__.py
 create mode 100644 src/sage/stats/distributions/__init__.py
 create mode 100644 src/sage/stats/hmm/__init__.py
 create mode 100644 src/sage/symbolic/__init__.py
 create mode 100644 src/sage/symbolic/integration/__init__.py
 create mode 100644 src/sage/tensor/__init__.py
 create mode 100644 src/sage/tensor/modules/__init__.py
 create mode 100644 src/sage/tests/books/__init__.py
 create mode 100644 src/sage/topology/__init__.py
 create mode 100644 src/sage/typeset/__init__.py

diff --git a/src/sage/__init__.py b/src/sage/__init__.py
new file mode 100644
index 00000000000..f6eb5289696
--- /dev/null
+++ b/src/sage/__init__.py
@@ -0,0 +1,2 @@
+# This is only here to mark the sage directory as a Python package
+# (so that cython determines the correct module name)
diff --git a/src/sage/algebras/__init__.py b/src/sage/algebras/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/finite_dimensional_algebras/__init__.py b/src/sage/algebras/finite_dimensional_algebras/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/finite_dimensional_algebras/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/fusion_rings/__init__.py b/src/sage/algebras/fusion_rings/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/fusion_rings/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/hecke_algebras/__init__.py b/src/sage/algebras/hecke_algebras/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/hecke_algebras/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/letterplace/__init__.py b/src/sage/algebras/letterplace/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/letterplace/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/lie_algebras/__init__.py b/src/sage/algebras/lie_algebras/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/lie_algebras/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/lie_conformal_algebras/__init__.py b/src/sage/algebras/lie_conformal_algebras/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/lie_conformal_algebras/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/quantum_groups/__init__.py b/src/sage/algebras/quantum_groups/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/quantum_groups/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/quatalg/__init__.py b/src/sage/algebras/quatalg/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/quatalg/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/algebras/steenrod/__init__.py b/src/sage/algebras/steenrod/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/algebras/steenrod/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/arith/__init__.py b/src/sage/arith/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/arith/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/calculus/__init__.py b/src/sage/calculus/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/calculus/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/calculus/transforms/__init__.py b/src/sage/calculus/transforms/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/calculus/transforms/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/categories/__init__.py b/src/sage/categories/__init__.py
new file mode 100644
index 00000000000..e69de29bb2d
diff --git a/src/sage/categories/examples/__init__.py b/src/sage/categories/examples/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/categories/examples/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/coding/__init__.py b/src/sage/coding/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/coding/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/coding/codecan/__init__.py b/src/sage/coding/codecan/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/coding/codecan/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/coding/guruswami_sudan/__init__.py b/src/sage/coding/guruswami_sudan/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/coding/guruswami_sudan/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/coding/source_coding/__init__.py b/src/sage/coding/source_coding/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/coding/source_coding/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/__init__.py b/src/sage/combinat/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/chas/__init__.py b/src/sage/combinat/chas/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/chas/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/cluster_algebra_quiver/__init__.py b/src/sage/combinat/cluster_algebra_quiver/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/cluster_algebra_quiver/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/crystals/__init__.py b/src/sage/combinat/crystals/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/crystals/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/designs/__init__.py b/src/sage/combinat/designs/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/designs/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/matrices/__init__.py b/src/sage/combinat/matrices/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/matrices/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/ncsf_qsym/__init__.py b/src/sage/combinat/ncsf_qsym/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/ncsf_qsym/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/ncsym/__init__.py b/src/sage/combinat/ncsym/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/ncsym/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/path_tableaux/__init__.py b/src/sage/combinat/path_tableaux/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/path_tableaux/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/posets/__init__.py b/src/sage/combinat/posets/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/posets/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/rigged_configurations/__init__.py b/src/sage/combinat/rigged_configurations/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/rigged_configurations/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/root_system/__init__.py b/src/sage/combinat/root_system/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/root_system/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/sf/__init__.py b/src/sage/combinat/sf/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/sf/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/species/__init__.py b/src/sage/combinat/species/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/species/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/combinat/words/__init__.py b/src/sage/combinat/words/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/combinat/words/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/crypto/block_cipher/__init__.py b/src/sage/crypto/block_cipher/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/crypto/block_cipher/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/crypto/public_key/__init__.py b/src/sage/crypto/public_key/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/crypto/public_key/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/data_structures/__init__.py b/src/sage/data_structures/__init__.py
new file mode 100644
index 00000000000..a347df6f046
--- /dev/null
+++ b/src/sage/data_structures/__init__.py
@@ -0,0 +1 @@
+# So that cython creates the correct module names
diff --git a/src/sage/databases/__init__.py b/src/sage/databases/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/databases/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/dynamics/__init__.py b/src/sage/dynamics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/dynamics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/dynamics/arithmetic_dynamics/__init__.py b/src/sage/dynamics/arithmetic_dynamics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/dynamics/arithmetic_dynamics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/dynamics/cellular_automata/__init__.py b/src/sage/dynamics/cellular_automata/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/dynamics/cellular_automata/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/dynamics/complex_dynamics/__init__.py b/src/sage/dynamics/complex_dynamics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/dynamics/complex_dynamics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/ext/__init__.py b/src/sage/ext/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/ext/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/functions/__init__.py b/src/sage/functions/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/functions/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/game_theory/__init__.py b/src/sage/game_theory/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/game_theory/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/games/__init__.py b/src/sage/games/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/games/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/__init__.py b/src/sage/geometry/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/hyperbolic_space/__init__.py b/src/sage/geometry/hyperbolic_space/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/hyperbolic_space/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/hyperplane_arrangement/__init__.py b/src/sage/geometry/hyperplane_arrangement/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/hyperplane_arrangement/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/polyhedron/__init__.py b/src/sage/geometry/polyhedron/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/polyhedron/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/polyhedron/combinatorial_polyhedron/__init__.py b/src/sage/geometry/polyhedron/combinatorial_polyhedron/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/polyhedron/combinatorial_polyhedron/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/polyhedron/modules/__init__.py b/src/sage/geometry/polyhedron/modules/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/polyhedron/modules/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/riemannian_manifolds/__init__.py b/src/sage/geometry/riemannian_manifolds/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/riemannian_manifolds/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/geometry/triangulation/__init__.py b/src/sage/geometry/triangulation/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/geometry/triangulation/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/graphs/__init__.py b/src/sage/graphs/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/graphs/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/graphs/base/__init__.py b/src/sage/graphs/base/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/graphs/base/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/graphs/generators/__init__.py b/src/sage/graphs/generators/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/graphs/generators/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/graphs/graph_decompositions/__init__.py b/src/sage/graphs/graph_decompositions/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/graphs/graph_decompositions/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/__init__.py b/src/sage/groups/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/abelian_gps/__init__.py b/src/sage/groups/abelian_gps/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/abelian_gps/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/additive_abelian/__init__.py b/src/sage/groups/additive_abelian/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/additive_abelian/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/affine_gps/__init__.py b/src/sage/groups/affine_gps/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/affine_gps/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/lie_gps/__init__.py b/src/sage/groups/lie_gps/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/lie_gps/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/matrix_gps/__init__.py b/src/sage/groups/matrix_gps/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/matrix_gps/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/misc_gps/__init__.py b/src/sage/groups/misc_gps/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/misc_gps/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/perm_gps/__init__.py b/src/sage/groups/perm_gps/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/perm_gps/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/perm_gps/partn_ref/__init__.py b/src/sage/groups/perm_gps/partn_ref/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/perm_gps/partn_ref/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/perm_gps/partn_ref2/__init__.py b/src/sage/groups/perm_gps/partn_ref2/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/perm_gps/partn_ref2/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/groups/semimonomial_transformations/__init__.py b/src/sage/groups/semimonomial_transformations/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/groups/semimonomial_transformations/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/homology/__init__.py b/src/sage/homology/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/homology/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/interacts/__init__.py b/src/sage/interacts/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/interacts/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/interfaces/__init__.py b/src/sage/interfaces/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/interfaces/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/knots/__init__.py b/src/sage/knots/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/knots/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/lfunctions/__init__.py b/src/sage/lfunctions/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/lfunctions/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/libs/__init__.py b/src/sage/libs/__init__.py
new file mode 100644
index 00000000000..e69de29bb2d
diff --git a/src/sage/libs/gap/__init__.py b/src/sage/libs/gap/__init__.py
new file mode 100644
index 00000000000..e69de29bb2d
diff --git a/src/sage/libs/mpc/__init__.py b/src/sage/libs/mpc/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/libs/mpc/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/libs/mpfi/__init__.py b/src/sage/libs/mpfi/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/libs/mpfi/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/libs/mpfr/__init__.py b/src/sage/libs/mpfr/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/libs/mpfr/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/libs/polybori/__init__.py b/src/sage/libs/polybori/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/libs/polybori/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/logic/__init__.py b/src/sage/logic/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/logic/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/manifolds/__init__.py b/src/sage/manifolds/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/manifolds/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/manifolds/differentiable/__init__.py b/src/sage/manifolds/differentiable/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/manifolds/differentiable/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/manifolds/differentiable/examples/__init__.py b/src/sage/manifolds/differentiable/examples/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/manifolds/differentiable/examples/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/manifolds/subsets/__init__.py b/src/sage/manifolds/subsets/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/manifolds/subsets/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/matrix/__init__.py b/src/sage/matrix/__init__.py
new file mode 100644
index 00000000000..165aea9af28
--- /dev/null
+++ b/src/sage/matrix/__init__.py
@@ -0,0 +1 @@
+# Because of relative imports
diff --git a/src/sage/matroids/__init__.py b/src/sage/matroids/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/matroids/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/misc/__init__.py b/src/sage/misc/__init__.py
new file mode 100644
index 00000000000..e69de29bb2d
diff --git a/src/sage/modular/__init__.py b/src/sage/modular/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/abvar/__init__.py b/src/sage/modular/abvar/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/abvar/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/arithgroup/__init__.py b/src/sage/modular/arithgroup/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/arithgroup/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/btquotients/__init__.py b/src/sage/modular/btquotients/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/btquotients/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/hecke/__init__.py b/src/sage/modular/hecke/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/hecke/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/local_comp/__init__.py b/src/sage/modular/local_comp/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/local_comp/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/modform/__init__.py b/src/sage/modular/modform/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/modform/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/modform_hecketriangle/__init__.py b/src/sage/modular/modform_hecketriangle/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/modform_hecketriangle/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/modsym/__init__.py b/src/sage/modular/modsym/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/modsym/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/overconvergent/__init__.py b/src/sage/modular/overconvergent/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/overconvergent/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/pollack_stevens/__init__.py b/src/sage/modular/pollack_stevens/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/pollack_stevens/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/quasimodform/__init__.py b/src/sage/modular/quasimodform/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/quasimodform/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/quatalg/__init__.py b/src/sage/modular/quatalg/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/quatalg/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modular/ssmod/__init__.py b/src/sage/modular/ssmod/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modular/ssmod/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modules/__init__.py b/src/sage/modules/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modules/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modules/fg_pid/__init__.py b/src/sage/modules/fg_pid/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modules/fg_pid/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modules/fp_graded/__init__.py b/src/sage/modules/fp_graded/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modules/fp_graded/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modules/fp_graded/steenrod/__init__.py b/src/sage/modules/fp_graded/steenrod/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modules/fp_graded/steenrod/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/modules/with_basis/__init__.py b/src/sage/modules/with_basis/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/modules/with_basis/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/monoids/__init__.py b/src/sage/monoids/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/monoids/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/numerical/__init__.py b/src/sage/numerical/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/numerical/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/numerical/backends/__init__.py b/src/sage/numerical/backends/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/numerical/backends/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/parallel/__init__.py b/src/sage/parallel/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/parallel/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/plot/__init__.py b/src/sage/plot/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/plot/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/plot/plot3d/__init__.py b/src/sage/plot/plot3d/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/plot/plot3d/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/probability/__init__.py b/src/sage/probability/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/probability/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/quadratic_forms/__init__.py b/src/sage/quadratic_forms/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/quadratic_forms/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/quadratic_forms/genera/__init__.py b/src/sage/quadratic_forms/genera/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/quadratic_forms/genera/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/quivers/__init__.py b/src/sage/quivers/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/quivers/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/__init__.py b/src/sage/rings/__init__.py
new file mode 100644
index 00000000000..5ef917c1263
--- /dev/null
+++ b/src/sage/rings/__init__.py
@@ -0,0 +1 @@
+# To make cython create the correct module name
diff --git a/src/sage/rings/asymptotic/__init__.py b/src/sage/rings/asymptotic/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/asymptotic/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/convert/__init__.py b/src/sage/rings/convert/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/convert/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/finite_rings/__init__.py b/src/sage/rings/finite_rings/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/finite_rings/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/function_field/__init__.py b/src/sage/rings/function_field/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/function_field/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/function_field/drinfeld_modules/__init__.py b/src/sage/rings/function_field/drinfeld_modules/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/function_field/drinfeld_modules/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/invariants/__init__.py b/src/sage/rings/invariants/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/invariants/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/number_field/__init__.py b/src/sage/rings/number_field/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/number_field/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/padics/__init__.py b/src/sage/rings/padics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/padics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/polynomial/__init__.py b/src/sage/rings/polynomial/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/polynomial/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/polynomial/padics/__init__.py b/src/sage/rings/polynomial/padics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/polynomial/padics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/polynomial/weil/__init__.py b/src/sage/rings/polynomial/weil/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/polynomial/weil/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/semirings/__init__.py b/src/sage/rings/semirings/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/semirings/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/rings/valuation/__init__.py b/src/sage/rings/valuation/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/rings/valuation/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/sandpiles/__init__.py b/src/sage/sandpiles/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/sandpiles/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/sat/__init__.py b/src/sage/sat/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/sat/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/__init__.py b/src/sage/schemes/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/affine/__init__.py b/src/sage/schemes/affine/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/affine/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/berkovich/__init__.py b/src/sage/schemes/berkovich/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/berkovich/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/curves/__init__.py b/src/sage/schemes/curves/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/curves/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/cyclic_covers/__init__.py b/src/sage/schemes/cyclic_covers/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/cyclic_covers/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/elliptic_curves/__init__.py b/src/sage/schemes/elliptic_curves/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/elliptic_curves/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/generic/__init__.py b/src/sage/schemes/generic/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/generic/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/hyperelliptic_curves/__init__.py b/src/sage/schemes/hyperelliptic_curves/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/hyperelliptic_curves/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/jacobians/__init__.py b/src/sage/schemes/jacobians/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/jacobians/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/plane_conics/__init__.py b/src/sage/schemes/plane_conics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/plane_conics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/plane_quartics/__init__.py b/src/sage/schemes/plane_quartics/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/plane_quartics/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/product_projective/__init__.py b/src/sage/schemes/product_projective/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/product_projective/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/projective/__init__.py b/src/sage/schemes/projective/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/projective/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/riemann_surfaces/__init__.py b/src/sage/schemes/riemann_surfaces/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/riemann_surfaces/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/toric/__init__.py b/src/sage/schemes/toric/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/toric/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/schemes/toric/sheaf/__init__.py b/src/sage/schemes/toric/sheaf/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/schemes/toric/sheaf/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/sets/__init__.py b/src/sage/sets/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/sets/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/stats/__init__.py b/src/sage/stats/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/stats/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/stats/distributions/__init__.py b/src/sage/stats/distributions/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/stats/distributions/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/stats/hmm/__init__.py b/src/sage/stats/hmm/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/stats/hmm/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/symbolic/__init__.py b/src/sage/symbolic/__init__.py
new file mode 100644
index 00000000000..27875dc3de5
--- /dev/null
+++ b/src/sage/symbolic/__init__.py
@@ -0,0 +1 @@
+# here so that cython creates the correct module name
diff --git a/src/sage/symbolic/integration/__init__.py b/src/sage/symbolic/integration/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/symbolic/integration/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/tensor/__init__.py b/src/sage/tensor/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/tensor/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/tensor/modules/__init__.py b/src/sage/tensor/modules/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/tensor/modules/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/tests/books/__init__.py b/src/sage/tests/books/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/tests/books/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/topology/__init__.py b/src/sage/topology/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/topology/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage/typeset/__init__.py b/src/sage/typeset/__init__.py
new file mode 100644
index 00000000000..1b10e244496
--- /dev/null
+++ b/src/sage/typeset/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name
diff --git a/src/sage_setup/autogen/interpreters/__init__.py b/src/sage_setup/autogen/interpreters/__init__.py
index 75096d06b80..87dae60bce7 100644
--- a/src/sage_setup/autogen/interpreters/__init__.py
+++ b/src/sage_setup/autogen/interpreters/__init__.py
@@ -226,11 +226,6 @@ def rebuild(dirname, force=False, interpreters=None, distribution=None):
     except OSError:
         if not os.path.isdir(dirname):
             raise
-        # Remove leftover file from before move to namespace packages
-        try:
-            os.remove(os.path.join(dirname, '__init__.py'))
-        except FileNotFoundError:
-            pass
 
     # Although multiple files are generated by this function, since
     # they are all generated at once it suffices to make sure if just

From 817c49c6d6b565f5d99b5835e34e6abed354285d Mon Sep 17 00:00:00 2001
From: Tobias Diez <code@tobiasdiez.de>
Date: Fri, 24 Nov 2023 10:21:24 +0000
Subject: [PATCH 2/8] Fix tests

---
 src/sage/misc/cython.py | 9 +++------
 src/sage_setup/find.py  | 5 -----
 2 files changed, 3 insertions(+), 11 deletions(-)

diff --git a/src/sage/misc/cython.py b/src/sage/misc/cython.py
index c0c803bf943..4541cd03bd6 100644
--- a/src/sage/misc/cython.py
+++ b/src/sage/misc/cython.py
@@ -231,16 +231,13 @@ def cython(filename, verbose=0, compile_message=False,
         ....: ''')
 
     In Cython 0.29.33 using `from PACKAGE cimport MODULE` is broken
-    when `PACKAGE` is a namespace package, see :trac:`35322`::
+    when `PACKAGE` is a namespace package, see :trac:`35322`
+    (but as of now sage.misc is not a namespace package, so this passes)::
 
         sage: cython('''
         ....: from sage.misc cimport cachefunc
         ....: ''')
-        Traceback (most recent call last):
-        ...
-        RuntimeError: Error compiling Cython file:
-        ...
-        ...: 'sage/misc.pxd' not found
+        
     """
     if not filename.endswith('pyx'):
         print("Warning: file (={}) should have extension .pyx".format(filename), file=sys.stderr)
diff --git a/src/sage_setup/find.py b/src/sage_setup/find.py
index 61d91abc2eb..f53a228fcb6 100644
--- a/src/sage_setup/find.py
+++ b/src/sage_setup/find.py
@@ -375,11 +375,6 @@ def installed_files_by_module(site_packages, modules=('sage',)):
         sage: f2
         'sage/structure/....pyc'
 
-    Namespace packages::
-
-        sage: files_by_module['sage.graphs.graph_decompositions']
-        set()
-
     This takes about 30ms with warm cache::
 
         sage: timeit('installed_files_by_module(site_packages)',       # random output

From b5ffbe6fc70f348f9a52b95da821e81ebdcfb00c Mon Sep 17 00:00:00 2001
From: Tobias Diez <code@tobiasdiez.com>
Date: Fri, 24 Nov 2023 20:26:49 +0800
Subject: [PATCH 3/8] Fix linter

---
 src/sage/misc/cython.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/sage/misc/cython.py b/src/sage/misc/cython.py
index 4541cd03bd6..02e4db4f3c3 100644
--- a/src/sage/misc/cython.py
+++ b/src/sage/misc/cython.py
@@ -237,7 +237,7 @@ def cython(filename, verbose=0, compile_message=False,
         sage: cython('''
         ....: from sage.misc cimport cachefunc
         ....: ''')
-        
+
     """
     if not filename.endswith('pyx'):
         print("Warning: file (={}) should have extension .pyx".format(filename), file=sys.stderr)

From 0b2d76f7348b6bfae52e4380a9e375fb0b1d639a Mon Sep 17 00:00:00 2001
From: Tobias Diez <code@tobiasdiez.com>
Date: Sun, 10 Mar 2024 06:12:24 +0000
Subject: [PATCH 4/8] Ignore module-not-measured error during code coverage
 collection

---
 grayskull   | 1 +
 meson       | 1 +
 src/tox.ini | 4 +++-
 3 files changed, 5 insertions(+), 1 deletion(-)
 create mode 160000 grayskull
 create mode 160000 meson

diff --git a/grayskull b/grayskull
new file mode 160000
index 00000000000..5e74f1daa33
--- /dev/null
+++ b/grayskull
@@ -0,0 +1 @@
+Subproject commit 5e74f1daa33168642351563f5d73110e09dbd689
diff --git a/meson b/meson
new file mode 160000
index 00000000000..5fdf7d7d8ca
--- /dev/null
+++ b/meson
@@ -0,0 +1 @@
+Subproject commit 5fdf7d7d8caebb66f96f515c954182015caad492
diff --git a/src/tox.ini b/src/tox.ini
index 8e562cced8e..31f8d59ebc9 100644
--- a/src/tox.ini
+++ b/src/tox.ini
@@ -298,7 +298,9 @@ doctest_optionflags = NORMALIZE_WHITESPACE ELLIPSIS
 source = sage
 concurrency = multiprocessing
 data_file = .coverage/.coverage
-disable_warnings = no-data-collected
+disable_warnings = 
+    no-data-collected
+    module-not-measured
 
 [coverage:report]
 ignore_errors = True

From 11cb41c1a0b82bf3faf78fdeb8856b87216f09cc Mon Sep 17 00:00:00 2001
From: Tobias Diez <code@tobiasdiez.com>
Date: Sun, 10 Mar 2024 06:22:16 +0000
Subject: [PATCH 5/8] Remove acidentially commited submodules

---
 grayskull | 1 -
 meson     | 1 -
 2 files changed, 2 deletions(-)
 delete mode 160000 grayskull
 delete mode 160000 meson

diff --git a/grayskull b/grayskull
deleted file mode 160000
index 5e74f1daa33..00000000000
--- a/grayskull
+++ /dev/null
@@ -1 +0,0 @@
-Subproject commit 5e74f1daa33168642351563f5d73110e09dbd689
diff --git a/meson b/meson
deleted file mode 160000
index 5fdf7d7d8ca..00000000000
--- a/meson
+++ /dev/null
@@ -1 +0,0 @@
-Subproject commit 5fdf7d7d8caebb66f96f515c954182015caad492

From 5128873afd76893b7750aac66359decef3da69fc Mon Sep 17 00:00:00 2001
From: Dima Pasechnik <dima@pasechnik.info>
Date: Sun, 7 Apr 2024 23:46:00 +0100
Subject: [PATCH 6/8] Update __init__.py

---
 src/sage/misc/__init__.py | 1 +
 1 file changed, 1 insertion(+)

diff --git a/src/sage/misc/__init__.py b/src/sage/misc/__init__.py
index e69de29bb2d..aa2a2b00341 100644
--- a/src/sage/misc/__init__.py
+++ b/src/sage/misc/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name

From 21a2e5fe8ad590eabb31e3831bed8e4f4a1a2b7a Mon Sep 17 00:00:00 2001
From: Dima Pasechnik <dima@pasechnik.info>
Date: Sun, 7 Apr 2024 23:47:09 +0100
Subject: [PATCH 7/8] Update __init__.py

---
 src/sage/libs/__init__.py | 1 +
 1 file changed, 1 insertion(+)

diff --git a/src/sage/libs/__init__.py b/src/sage/libs/__init__.py
index e69de29bb2d..aa2a2b00341 100644
--- a/src/sage/libs/__init__.py
+++ b/src/sage/libs/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name

From 99847fc6894145f1255d6c9c77264768b55f39d2 Mon Sep 17 00:00:00 2001
From: Dima Pasechnik <dima@pasechnik.info>
Date: Sun, 7 Apr 2024 23:47:42 +0100
Subject: [PATCH 8/8] Update __init__.py

---
 src/sage/libs/gap/__init__.py | 1 +
 1 file changed, 1 insertion(+)

diff --git a/src/sage/libs/gap/__init__.py b/src/sage/libs/gap/__init__.py
index e69de29bb2d..aa2a2b00341 100644
--- a/src/sage/libs/gap/__init__.py
+++ b/src/sage/libs/gap/__init__.py
@@ -0,0 +1 @@
+# Here so that cython creates the correct module name