se-for-sci · henryiii · Sep 4, 2025 · Sep 4, 2025
diff --git a/.gitignore b/.gitignore
@@ -160,20 +160,28 @@ cython_debug/
 #  option (not recommended) you can uncomment the following to ignore the entire idea folder.
 #.idea/
 
-/content/week05/se-for-sci-example/
-/content/week05/textual_example/requirements.in
-/content/week10/cmake_example/.ninja_log
-/content/week10/cmake_example/docs/Doxyfile.docs
-/content/week10/fortran_example
-/content/week09/*/*.whl
-/content/week09/*/setup.py
-/content/week09/03-pybind/src
-/content/week09/0[123]*/*.c
-/content/week09/0[123]*/*.cpp
-/content/week09/0[123]*/*.h
-/content/week09/0[123]*/*.hpp
-/content/week09/0[123]*/CMakeLists.txt
-/content/week09/0[123]*/pyproject.toml
+/content/week*/se-for-sci-example/
+/content/week*/textual_example/requirements.in
+/content/week*/cmake_example/.ninja_log
+/content/week*/cmake_example/docs/Doxyfile.docs
+/content/week*/fortran_example
+/content/week*/*/*.whl
+/content/week*/*/setup.py
+/content/week*/03-pybind/src
+/content/week*/*.c
+/content/week*/*.cpp
+/content/week*/*.h
+/content/week*/*.hpp
+/content/week*/CMakeLists.txt
+/content/week*/pyproject.toml
+/content/week*/*/*.c
+/content/week*/*/*.cpp
+/content/week*/*/*.h
+/content/week*/*/*.hpp
+/content/week*/*/CMakeLists.txt
+/content/week*/*/pyproject.toml
+/content/week*/*.f90
+/content/week*/Makefile
 
 /slides/*.html
 
@@ -186,7 +194,7 @@ cython_debug/
 a.out
 compile_flags.txt
 Untitled*
-content/week12/06-rust/Cargo.lock
+content/week*/06-rust/Cargo.lock
 
 _output/Volumes
 *.doit.db
diff --git a/_toc.yml b/_toc.yml
@@ -12,34 +12,34 @@ parts:
       - file: content/week01_intro/programming_basics.ipynb
       - file: content/week01_intro/practices.md
       - file: content/week01_intro/cleanup_bessel.ipynb
+      - file: content/week01_intro/python_setup.md
 
-  - caption: "Week 2: Version Control"
+  - caption: "Week 2: Testing"
     chapters:
-      - file: content/week02_git/intro.md
-      - file: content/week02_git/first_steps.md
-      - file: content/week02_git/advanced_steps.md
+      - file: content/week02_testing/testing.md
+      - file: content/week02_testing/pytest.md
+      - file: content/week02_testing/tdd.md
+      - file: content/week02_testing/debugging.md
 
-  - caption: "Week 3: Testing"
+  - caption: "Week 3: Version Control"
     chapters:
-      - file: content/week03_testing/python_setup.md
-      - file: content/week03_testing/testing.md
-      - file: content/week03_testing/pytest.md
-      - file: content/week03_testing/tdd.md
-      - file: content/week03_testing/debugging.md
+      - file: content/week03_git/intro.md
+      - file: content/week03_git/first_steps.md
+      - file: content/week03_git/advanced_steps.md
 
-  - caption: "Week 4: Continuous Integration"
+  - caption: "Week 4: Packaging and Quality Control"
     chapters:
-      - file: content/week04_ci/ci.md
-      - file: content/week04_ci/cd.md
-      - file: content/week04_ci/docs.md
+      - file: content/week04_package/packaging.md
+      - file: content/week04_package/using_packages.md
+      - file: content/week04_package/making_a_package.md
+      - file: content/week04_package/precommit.md
+      - file: content/week04_package/task_runners.md
 
-  - caption: "Week 5: Packaging and Quality Control"
+  - caption: "Week 5: Continuous Integration"
     chapters:
-      - file: content/week05_package/packaging.md
-      - file: content/week05_package/using_packages.md
-      - file: content/week05_package/making_a_package.md
-      - file: content/week05_package/precommit.md
-      - file: content/week05_package/task_runners.md
+      - file: content/week05_ci/ci.md
+      - file: content/week05_ci/cd.md
+      - file: content/week05_ci/docs.md
 
   - caption: "Week 6: Object Oriented design"
     chapters:
@@ -51,25 +51,25 @@ parts:
       - file: content/week07_design/designpatt.md
       - file: content/week07_design/functional.md
 
-  - caption: "Week 8: Static Typing"
+  - caption: "Week 8: Static Typing & Profiling"
     chapters:
       - file: content/week08_static_typing/typing.md
 
-  - caption: "Week 9: Mixing Languages"
+  - caption: "Week 9: Intro to Compilation"
     chapters:
-      - file: content/week09_binding/01-shared-objects/01-shared-objects.ipynb
-      - file: content/week09_binding/02-cpython/02-cpython.ipynb
-      - file: content/week09_binding/03-pybind/03a-pybind.ipynb
-      - file: content/week09_binding/03-pybind/03b-pybind.ipynb
-      - file: content/week09_binding/06-rust.md
+      - file: content/week09_compiled/Compiled_Languages.ipynb
+      - file: content/week09_compiled/rust_example/compiled.md
+      - file: content/week09_compiled/rust_example/rust.md
+      - file: content/week09_compiled/debugging.md
+      - file: content/week09_compiled/profiling.md
 
-  - caption: "Week 10: Intro to Compilation"
+  - caption: "Week 10: Mixing Languages"
     chapters:
-      - file: content/week10_compiled/Compiled_Languages.ipynb
-      - file: content/week10_compiled/rust_example/compiled.md
-      - file: content/week10_compiled/rust_example/rust.md
-      - file: content/week10_compiled/debugging.md
-      - file: content/week10_compiled/profiling.md
+      - file: content/week10_binding/01-shared-objects/01-shared-objects.ipynb
+      - file: content/week10_binding/02-cpython/02-cpython.ipynb
+      - file: content/week10_binding/03-pybind/03a-pybind.ipynb
+      - file: content/week10_binding/03-pybind/03b-pybind.ipynb
+      - file: content/week10_binding/06-rust.md
 
   - caption: "Week 11: Parallel Computing"
     chapters:
@@ -78,7 +78,7 @@ parts:
       - file: content/week11_omp/threading.md
       - file: content/week11_omp/concepts.md
 
-  - caption: "Week 12: Distributed Computing"
+  - caption: "Week 12: GPUs"
     chapters:
       - file: content/week12_mpi/mpi.md
 

diff --git a/content/week03_testing/python_setup.md → content/week01_intro/python_setup.md b/content/week03_testing/python_setup.md → content/week01_intro/python_setup.md
diff --git a/...t/week03_testing/config_example/README.md → ...t/week02_testing/config_example/README.md b/...t/week03_testing/config_example/README.md → ...t/week02_testing/config_example/README.md
diff --git a/...ng/config_example/json_reader/__init__.py → ...ng/config_example/json_reader/__init__.py b/...ng/config_example/json_reader/__init__.py → ...ng/config_example/json_reader/__init__.py
diff --git a/...nfig_example/json_reader/modern_reader.py → ...nfig_example/json_reader/modern_reader.py b/...nfig_example/json_reader/modern_reader.py → ...nfig_example/json_reader/modern_reader.py
diff --git a/...k03_testing/config_example/pyproject.toml → ...k02_testing/config_example/pyproject.toml b/...k03_testing/config_example/pyproject.toml → ...k02_testing/config_example/pyproject.toml
diff --git a/...testing/config_example/tests/config1.json → ...testing/config_example/tests/config1.json b/...testing/config_example/tests/config1.json → ...testing/config_example/tests/config1.json
diff --git a/...onfig_example/tests/test_configuration.py → ...onfig_example/tests/test_configuration.py b/...onfig_example/tests/test_configuration.py → ...onfig_example/tests/test_configuration.py
diff --git a/...g_example/tests/test_new_configuration.py → ...g_example/tests/test_new_configuration.py b/...g_example/tests/test_new_configuration.py → ...g_example/tests/test_new_configuration.py
diff --git a/content/week03_testing/debugging.md → content/week02_testing/debugging.md b/content/week03_testing/debugging.md → content/week02_testing/debugging.md
diff --git a/content/week03_testing/pytest.md → content/week02_testing/pytest.md b/content/week03_testing/pytest.md → content/week02_testing/pytest.md
diff --git a/content/week03_testing/tdd.md → content/week02_testing/tdd.md b/content/week03_testing/tdd.md → content/week02_testing/tdd.md
diff --git a/content/week03_testing/testing.md → content/week02_testing/testing.md b/content/week03_testing/testing.md → content/week02_testing/testing.md
diff --git a/...t/week03_testing/vector_example/README.md → ...t/week02_testing/vector_example/README.md b/...t/week03_testing/vector_example/README.md → ...t/week02_testing/vector_example/README.md
diff --git a/...k03_testing/vector_example/pyproject.toml → ...k02_testing/vector_example/pyproject.toml b/...k03_testing/vector_example/pyproject.toml → ...k02_testing/vector_example/pyproject.toml
diff --git a/...sting/vector_example/tests/test_simple.py → ...sting/vector_example/tests/test_simple.py b/...sting/vector_example/tests/test_simple.py → ...sting/vector_example/tests/test_simple.py
diff --git a/...testing/vector_example/vector/__init__.py → ...testing/vector_example/vector/__init__.py b/...testing/vector_example/vector/__init__.py → ...testing/vector_example/vector/__init__.py
diff --git a/content/week02_git/CVCS-vs-DVCS.png → content/week03_git/CVCS-vs-DVCS.png b/content/week02_git/CVCS-vs-DVCS.png → content/week03_git/CVCS-vs-DVCS.png
diff --git a/content/week02_git/DAG_example.png → content/week03_git/DAG_example.png b/content/week02_git/DAG_example.png → content/week03_git/DAG_example.png
diff --git a/content/week02_git/advanced_steps.md → content/week03_git/advanced_steps.md b/content/week02_git/advanced_steps.md → content/week03_git/advanced_steps.md
diff --git a/content/week02_git/first_steps.md → content/week03_git/first_steps.md b/content/week02_git/first_steps.md → content/week03_git/first_steps.md
diff --git a/content/week02_git/intro.md → content/week03_git/intro.md b/content/week02_git/intro.md → content/week03_git/intro.md
diff --git a/content/week02_git/phd101212s.png → content/week03_git/phd101212s.png b/content/week02_git/phd101212s.png → content/week03_git/phd101212s.png
diff --git a/content/week05_package/making_a_package.md → content/week04_package/making_a_package.md b/content/week05_package/making_a_package.md → content/week04_package/making_a_package.md
diff --git a/...05_package/package_example/pyproject.toml → ...04_package/package_example/pyproject.toml b/...05_package/package_example/pyproject.toml → ...04_package/package_example/pyproject.toml
diff --git a/...e/package_example/src/package/__init__.py → ...e/package_example/src/package/__init__.py b/...e/package_example/src/package/__init__.py → ...e/package_example/src/package/__init__.py
diff --git a/content/week05_package/packaging.md → content/week04_package/packaging.md b/content/week05_package/packaging.md → content/week04_package/packaging.md
diff --git a/content/week05_package/precommit.md → content/week04_package/precommit.md b/content/week05_package/precommit.md → content/week04_package/precommit.md
diff --git a/content/week05_package/task_runners.md → content/week04_package/task_runners.md b/content/week05_package/task_runners.md → content/week04_package/task_runners.md
diff --git a/...week05_package/textual_example/noxfile.py → ...week04_package/textual_example/noxfile.py b/...week05_package/textual_example/noxfile.py → ...week04_package/textual_example/noxfile.py
diff --git a/..._package/textual_example/requirements.txt → ..._package/textual_example/requirements.txt b/..._package/textual_example/requirements.txt → ..._package/textual_example/requirements.txt
diff --git a/...ackage/textual_example/textual_example.py → ...ackage/textual_example/textual_example.py b/...ackage/textual_example/textual_example.py → ...ackage/textual_example/textual_example.py
diff --git a/content/week05_package/using_packages.md → content/week04_package/using_packages.md b/content/week05_package/using_packages.md → content/week04_package/using_packages.md
diff --git a/content/week04_ci/cd.md → content/week05_ci/cd.md b/content/week04_ci/cd.md → content/week05_ci/cd.md
diff --git a/content/week04_ci/ci.md → content/week05_ci/ci.md b/content/week04_ci/ci.md → content/week05_ci/ci.md
diff --git a/content/week04_ci/docs.md → content/week05_ci/docs.md b/content/week04_ci/docs.md → content/week05_ci/docs.md
diff --git a/.../week10_compiled/Compiled_Languages.ipynb → .../week09_compiled/Compiled_Languages.ipynb b/.../week10_compiled/Compiled_Languages.ipynb → .../week09_compiled/Compiled_Languages.ipynb
diff --git a/.../week10_compiled/cmake_example/.gitignore → .../week09_compiled/cmake_example/.gitignore b/.../week10_compiled/cmake_example/.gitignore → .../week09_compiled/cmake_example/.gitignore
diff --git a/...k10_compiled/cmake_example/CMakeLists.txt → ...k09_compiled/cmake_example/CMakeLists.txt b/...k10_compiled/cmake_example/CMakeLists.txt → ...k09_compiled/cmake_example/CMakeLists.txt
diff --git a/...t/week10_compiled/cmake_example/README.md → ...t/week09_compiled/cmake_example/README.md b/...t/week10_compiled/cmake_example/README.md → ...t/week09_compiled/cmake_example/README.md
diff --git a/...ompiled/cmake_example/apps/CMakeLists.txt → ...ompiled/cmake_example/apps/CMakeLists.txt b/...ompiled/cmake_example/apps/CMakeLists.txt → ...ompiled/cmake_example/apps/CMakeLists.txt
diff --git a/...eek10_compiled/cmake_example/apps/app.cpp → ...eek09_compiled/cmake_example/apps/app.cpp b/...eek10_compiled/cmake_example/apps/app.cpp → ...eek09_compiled/cmake_example/apps/app.cpp
diff --git a/...led/cmake_example/cmake/FindSomeLib.cmake → ...led/cmake_example/cmake/FindSomeLib.cmake b/...led/cmake_example/cmake/FindSomeLib.cmake → ...led/cmake_example/cmake/FindSomeLib.cmake
diff --git a/...ompiled/cmake_example/docs/CMakeLists.txt → ...ompiled/cmake_example/docs/CMakeLists.txt b/...ompiled/cmake_example/docs/CMakeLists.txt → ...ompiled/cmake_example/docs/CMakeLists.txt
diff --git a/...0_compiled/cmake_example/docs/mainpage.md → ...9_compiled/cmake_example/docs/mainpage.md b/...0_compiled/cmake_example/docs/mainpage.md → ...9_compiled/cmake_example/docs/mainpage.md
diff --git a/...iled/cmake_example/include/modern/lib.hpp → ...iled/cmake_example/include/modern/lib.hpp b/...iled/cmake_example/include/modern/lib.hpp → ...iled/cmake_example/include/modern/lib.hpp
diff --git a/...compiled/cmake_example/src/CMakeLists.txt → ...compiled/cmake_example/src/CMakeLists.txt b/...compiled/cmake_example/src/CMakeLists.txt → ...compiled/cmake_example/src/CMakeLists.txt
diff --git a/...week10_compiled/cmake_example/src/lib.cpp → ...week09_compiled/cmake_example/src/lib.cpp b/...week10_compiled/cmake_example/src/lib.cpp → ...week09_compiled/cmake_example/src/lib.cpp
diff --git a/...mpiled/cmake_example/tests/CMakeLists.txt → ...mpiled/cmake_example/tests/CMakeLists.txt b/...mpiled/cmake_example/tests/CMakeLists.txt → ...mpiled/cmake_example/tests/CMakeLists.txt
diff --git a/..._compiled/cmake_example/tests/testlib.cpp → ..._compiled/cmake_example/tests/testlib.cpp b/..._compiled/cmake_example/tests/testlib.cpp → ..._compiled/cmake_example/tests/testlib.cpp
diff --git a/content/week10_compiled/complexLook.jpg → content/week09_compiled/complexLook.jpg b/content/week10_compiled/complexLook.jpg → content/week09_compiled/complexLook.jpg
diff --git a/content/week10_compiled/ddt_example.png → content/week09_compiled/ddt_example.png b/content/week10_compiled/ddt_example.png → content/week09_compiled/ddt_example.png
diff --git a/content/week10_compiled/debugging.md → content/week09_compiled/debugging.md b/content/week10_compiled/debugging.md → content/week09_compiled/debugging.md
diff --git a/content/week10_compiled/profiling.md → content/week09_compiled/profiling.md b/content/week10_compiled/profiling.md → content/week09_compiled/profiling.md
diff --git a/.../week10_compiled/rust_example/compiled.md → .../week09_compiled/rust_example/compiled.md b/.../week10_compiled/rust_example/compiled.md → .../week09_compiled/rust_example/compiled.md
diff --git a/content/week10_compiled/rust_example/rust.md → content/week09_compiled/rust_example/rust.md b/content/week10_compiled/rust_example/rust.md → content/week09_compiled/rust_example/rust.md
diff --git a/...01-shared-objects/01-shared-objects.ipynb → ...01-shared-objects/01-shared-objects.ipynb b/...01-shared-objects/01-shared-objects.ipynb → ...01-shared-objects/01-shared-objects.ipynb
diff --git a/...eek09_binding/02-cpython/02-cpython.ipynb → ...eek10_binding/02-cpython/02-cpython.ipynb b/...eek09_binding/02-cpython/02-cpython.ipynb → ...eek10_binding/02-cpython/02-cpython.ipynb
diff --git a/content/week09_binding/03-pybind/.gitignore → content/week10_binding/03-pybind/.gitignore b/content/week09_binding/03-pybind/.gitignore → content/week10_binding/03-pybind/.gitignore
diff --git a/...week09_binding/03-pybind/03a-pybind.ipynb → ...week10_binding/03-pybind/03a-pybind.ipynb b/...week09_binding/03-pybind/03a-pybind.ipynb → ...week10_binding/03-pybind/03a-pybind.ipynb
diff --git a/...week09_binding/03-pybind/03b-pybind.ipynb → ...week10_binding/03-pybind/03b-pybind.ipynb b/...week09_binding/03-pybind/03b-pybind.ipynb → ...week10_binding/03-pybind/03b-pybind.ipynb
diff --git a/...ent/week09_binding/03-pybind/pybind11.png → ...ent/week10_binding/03-pybind/pybind11.png b/...ent/week09_binding/03-pybind/pybind11.png → ...ent/week10_binding/03-pybind/pybind11.png
diff --git a/.../week09_binding/04-example/CMakeLists.txt → .../week10_binding/04-example/CMakeLists.txt b/.../week09_binding/04-example/CMakeLists.txt → .../week10_binding/04-example/CMakeLists.txt
diff --git a/...week09_binding/04-example/app/SimpleFCN.h → ...week10_binding/04-example/app/SimpleFCN.h b/...week09_binding/04-example/app/SimpleFCN.h → ...week10_binding/04-example/app/SimpleFCN.h
diff --git a/...9_binding/04-example/app/simpleminuit.cpp → ...0_binding/04-example/app/simpleminuit.cpp b/...9_binding/04-example/app/simpleminuit.cpp → ...0_binding/04-example/app/simpleminuit.cpp
diff --git a/...k09_binding/04-example/examples/simple.py → ...k10_binding/04-example/examples/simple.py b/...k09_binding/04-example/examples/simple.py → ...k10_binding/04-example/examples/simple.py
diff --git a/.../week09_binding/04-example/pyproject.toml → .../week10_binding/04-example/pyproject.toml b/.../week09_binding/04-example/pyproject.toml → .../week10_binding/04-example/pyproject.toml
diff --git a/...week09_binding/04-example/src/FCNBase.cpp → ...week10_binding/04-example/src/FCNBase.cpp b/...week09_binding/04-example/src/FCNBase.cpp → ...week10_binding/04-example/src/FCNBase.cpp
diff --git a/...inding/04-example/src/FunctionMinimum.cpp → ...inding/04-example/src/FunctionMinimum.cpp b/...inding/04-example/src/FunctionMinimum.cpp → ...inding/04-example/src/FunctionMinimum.cpp
diff --git a/...eek09_binding/04-example/src/MnMigrad.cpp → ...eek10_binding/04-example/src/MnMigrad.cpp b/...eek09_binding/04-example/src/MnMigrad.cpp → ...eek10_binding/04-example/src/MnMigrad.cpp
diff --git a/...nding/04-example/src/MnUserParameters.cpp → ...nding/04-example/src/MnUserParameters.cpp b/...nding/04-example/src/MnUserParameters.cpp → ...nding/04-example/src/MnUserParameters.cpp
diff --git a/.../week09_binding/04-example/src/PyHeader.h → .../week10_binding/04-example/src/PyHeader.h b/.../week09_binding/04-example/src/PyHeader.h → .../week10_binding/04-example/src/PyHeader.h
diff --git a/...ek09_binding/04-example/src/pyminuit2.cpp → ...ek10_binding/04-example/src/pyminuit2.cpp b/...ek09_binding/04-example/src/pyminuit2.cpp → ...ek10_binding/04-example/src/pyminuit2.cpp
diff --git a/...nt/week09_binding/05-embed/CMakeLists.txt → ...nt/week10_binding/05-embed/CMakeLists.txt b/...nt/week09_binding/05-embed/CMakeLists.txt → ...nt/week10_binding/05-embed/CMakeLists.txt
diff --git a/...ek09_binding/05-embed/embedded_python.cpp → ...ek10_binding/05-embed/embedded_python.cpp b/...ek09_binding/05-embed/embedded_python.cpp → ...ek10_binding/05-embed/embedded_python.cpp
diff --git a/content/week09_binding/06-rust.md → content/week10_binding/06-rust.md b/content/week09_binding/06-rust.md → content/week10_binding/06-rust.md
diff --git a/..._binding/06-rust/.github/workflows/CI.yml → ..._binding/06-rust/.github/workflows/CI.yml b/..._binding/06-rust/.github/workflows/CI.yml → ..._binding/06-rust/.github/workflows/CI.yml
diff --git a/content/week09_binding/06-rust/.gitignore → content/week10_binding/06-rust/.gitignore b/content/week09_binding/06-rust/.gitignore → content/week10_binding/06-rust/.gitignore
diff --git a/content/week09_binding/06-rust/Cargo.toml → content/week10_binding/06-rust/Cargo.toml b/content/week09_binding/06-rust/Cargo.toml → content/week10_binding/06-rust/Cargo.toml
diff --git a/...ent/week09_binding/06-rust/pyproject.toml → ...ent/week10_binding/06-rust/pyproject.toml b/...ent/week09_binding/06-rust/pyproject.toml → ...ent/week10_binding/06-rust/pyproject.toml
diff --git a/content/week09_binding/06-rust/src/lib.rs → content/week10_binding/06-rust/src/lib.rs b/content/week09_binding/06-rust/src/lib.rs → content/week10_binding/06-rust/src/lib.rs