From e63ed124152497273d8fba90c1e7e059156862fb Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:13:18 +0100
Subject: [PATCH 01/12] chain jobs

---
 .github/workflows/build_doc.yml | 4 ++--
 .github/workflows/lint.yml      | 4 ++--
 .github/workflows/test.yml      | 2 +-
 3 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/build_doc.yml b/.github/workflows/build_doc.yml
index 13ad9d9b..2dd12292 100644
--- a/.github/workflows/build_doc.yml
+++ b/.github/workflows/build_doc.yml
@@ -4,7 +4,7 @@ on: [push]
 
 jobs:
   doc_ubuntu:
-    name: Build documentation on Ubuntu
+    name: Build documentation
     runs-on: ubuntu-latest
     steps:
       - name: Checkout sources
@@ -20,6 +20,6 @@ jobs:
           python -m pip install --upgrade pip
           pip3 install .[docs]
 
-      - name: Build doc
+      - name: Build documentation
         run: |
           sphinx-build -a docs ./build-docs
\ No newline at end of file
diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml
index 0ccc8186..134510e7 100644
--- a/.github/workflows/lint.yml
+++ b/.github/workflows/lint.yml
@@ -32,7 +32,7 @@ jobs:
         with:
           python-version: 3.8
 
-      - name: install dependencies [pip]
+      - name: Install dependencies [pip]
         run: |
           python -m pip install --upgrade pip
           pip install black isort
@@ -41,6 +41,6 @@ jobs:
         run: |
           black . --check
 
-      - name : Check isort
+      - name : Check Isort
         run: |
           isort --profile black --check .
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
index 278dfbf8..56de47b6 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/test.yml
@@ -11,7 +11,7 @@ on:
       - opened
       - synchronize
   workflow_run:
-    workflows: ["lint"]
+    workflows: ["Lint"]
     types:
       - completed
   workflow_dispatch:

From bd172073d174dabb4d73e3b411cee0d260df99a2 Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:18:49 +0100
Subject: [PATCH 02/12] trigger tests only if linter worked

---
 .github/workflows/test.yml | 9 ---------
 1 file changed, 9 deletions(-)

diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
index 56de47b6..1154e731 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/test.yml
@@ -1,15 +1,6 @@
 name: "Testing"
 
 on:
-  push:
-    branches:
-    - main
-  pull_request:
-    branches:
-      - main
-    types:
-      - opened
-      - synchronize
   workflow_run:
     workflows: ["Lint"]
     types:

From ddfbb18921a78127787966e5919bcb98fa147947 Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:21:35 +0100
Subject: [PATCH 03/12] remove dispatch

---
 .github/workflows/test.yml | 1 -
 1 file changed, 1 deletion(-)

diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
index 1154e731..950509e5 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/test.yml
@@ -5,7 +5,6 @@ on:
     workflows: ["Lint"]
     types:
       - completed
-  workflow_dispatch:
 
 jobs:
   test:

From 3103077f77d2cfc05874c1abc9dd3494c3193fac Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:25:09 +0100
Subject: [PATCH 04/12] remove braces in workflows names

---
 .github/workflows/lint.yml | 2 +-
 .github/workflows/test.yml | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml
index 134510e7..88687dbf 100644
--- a/.github/workflows/lint.yml
+++ b/.github/workflows/lint.yml
@@ -1,4 +1,4 @@
-name: "Lint"
+name: Lint
 
 on:
   push:
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
index 950509e5..5f17e577 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/test.yml
@@ -1,4 +1,4 @@
-name: "Testing"
+name: Testing
 
 on:
   workflow_run:

From 28cd5d0fd2022c39b2b60a7bfb79b3457a18eebc Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:39:52 +0100
Subject: [PATCH 05/12] test coverage chain

---
 .github/workflows/test.yml | 21 ++++++++++++++++++++-
 1 file changed, 20 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
index 5f17e577..e20b2d42 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/test.yml
@@ -34,17 +34,36 @@ jobs:
           coverage run -m pytest
 
       - name: Coverage
+        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
         run: |
           coverage report
           coverage json
 
+      - name: Upload coverage artifact
+        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
+        uses: actions/upload-artifact@v4
+        with:
+          name: coverage-report
+          path: coverage.json
+
       - name: Metadata check
         if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
         run: |
           python .github/scripts/metadata_checker
 
+  upload-coverage:
+    runs-on: ubuntu-latest
+    needs: test
+
+    steps:
+      - name: Download coverage artifact
+        uses: actions/download-artifact@v4
+        with:
+          name: coverage-report
+          
       - name: Upload coverage to Codecov
-        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
         uses: codecov/codecov-action@v3
         with:
           token: ${{ secrets.CODECOV_TOKEN }}
+
+

From 99e220c2359794a00a620cd6786101764a3b1cd3 Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:45:19 +0100
Subject: [PATCH 06/12] no chain

---
 .github/workflows/test.yml | 29 +++++++++++++++++++++--------
 1 file changed, 21 insertions(+), 8 deletions(-)

diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
index e20b2d42..4f839ba3 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/test.yml
@@ -1,10 +1,23 @@
 name: Testing
 
 on:
-  workflow_run:
-    workflows: ["Lint"]
+  push:
+    branches:
+    - main
+    - github-actions-test
+    paths:
+    - '**.py'
+    - '.github/workflows/lint.yml'
+  pull_request:
+    branches:
+      - main
+    paths:
+    - '**.py'
+    - '.github/workflows/lint.yml'
     types:
-      - completed
+      - opened
+      - synchronize
+  workflow_dispatch:
 
 jobs:
   test:
@@ -54,16 +67,16 @@ jobs:
   upload-coverage:
     runs-on: ubuntu-latest
     needs: test
-
     steps:
-      - name: Download coverage artifact
+      - name: Download coverage report
         uses: actions/download-artifact@v4
         with:
           name: coverage-report
-          
-      - name: Upload coverage to Codecov
-        uses: codecov/codecov-action@v3
+
+      - name: Upload to Codecov
+        uses: codecov/codecov-action@v4
         with:
+          files: coverage.xml
           token: ${{ secrets.CODECOV_TOKEN }}
 
 

From b78d9055c68908f6b41070f1df285f25e028ceed Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 17:52:20 +0100
Subject: [PATCH 07/12] group all jobs in one file

---
 .github/workflows/{test.yml => ci-cd.yml} | 29 +++++++++++++-
 .github/workflows/lint.yml                | 46 -----------------------
 2 files changed, 28 insertions(+), 47 deletions(-)
 rename .github/workflows/{test.yml => ci-cd.yml} (76%)
 delete mode 100644 .github/workflows/lint.yml

diff --git a/.github/workflows/test.yml b/.github/workflows/ci-cd.yml
similarity index 76%
rename from .github/workflows/test.yml
rename to .github/workflows/ci-cd.yml
index 4f839ba3..48d9ded1 100644
--- a/.github/workflows/test.yml
+++ b/.github/workflows/ci-cd.yml
@@ -1,4 +1,4 @@
-name: Testing
+name: CI-CD
 
 on:
   push:
@@ -20,7 +20,33 @@ on:
   workflow_dispatch:
 
 jobs:
+  lint:
+    runs-on: ubuntu-latest
+    name: Lint check
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v3
+
+      - name: Setup Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: 3.8
+
+      - name: Install dependencies [pip]
+        run: |
+          python -m pip install --upgrade pip
+          pip install black isort
+
+      - name : Check Black
+        run: |
+          black . --check
+
+      - name : Check Isort
+        run: |
+          isort --profile black --check .
+
   test:
+    needs: lint
     strategy:
       matrix:
         python-version: ["3.8", "3.9", "3.10", "3.11"]
@@ -67,6 +93,7 @@ jobs:
   upload-coverage:
     runs-on: ubuntu-latest
     needs: test
+    name: Upload coverage report to Codecov
     steps:
       - name: Download coverage report
         uses: actions/download-artifact@v4
diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml
deleted file mode 100644
index 88687dbf..00000000
--- a/.github/workflows/lint.yml
+++ /dev/null
@@ -1,46 +0,0 @@
-name: Lint
-
-on:
-  push:
-    branches:
-    - main
-    - github-actions-test
-    paths:
-    - '**.py'
-    - '.github/workflows/lint.yml'
-  pull_request:
-    branches:
-      - main
-    paths:
-    - '**.py'
-    - '.github/workflows/lint.yml'
-    types:
-      - opened
-      - synchronize
-  workflow_dispatch:
-
-jobs:
-  lint:
-    runs-on: ubuntu-latest
-
-    steps:
-      - name: Checkout repository
-        uses: actions/checkout@v3
-
-      - name: Setup Python
-        uses: actions/setup-python@v4
-        with:
-          python-version: 3.8
-
-      - name: Install dependencies [pip]
-        run: |
-          python -m pip install --upgrade pip
-          pip install black isort
-
-      - name : Check Black
-        run: |
-          black . --check
-
-      - name : Check Isort
-        run: |
-          isort --profile black --check .

From bc9cb0ddb86ed601d8c24bedf2499a9536cc9ea3 Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 18:00:52 +0100
Subject: [PATCH 08/12] separate install and tests

---
 .github/workflows/ci-cd.yml | 43 +++++++++++++++++++++++++++++++------
 1 file changed, 37 insertions(+), 6 deletions(-)

diff --git a/.github/workflows/ci-cd.yml b/.github/workflows/ci-cd.yml
index 48d9ded1..d05458c9 100644
--- a/.github/workflows/ci-cd.yml
+++ b/.github/workflows/ci-cd.yml
@@ -1,4 +1,4 @@
-name: CI-CD
+name: CI/CD
 
 on:
   push:
@@ -22,7 +22,7 @@ on:
 jobs:
   lint:
     runs-on: ubuntu-latest
-    name: Lint check
+    name: Code Style Check 🎨
     steps:
       - name: Checkout repository
         uses: actions/checkout@v3
@@ -45,15 +45,14 @@ jobs:
         run: |
           isort --profile black --check .
 
-  test:
+  install:
     needs: lint
+    runs-on: ${{ matrix.os }}
     strategy:
       matrix:
         python-version: ["3.8", "3.9", "3.10", "3.11"]
         os: [ubuntu-latest, windows-latest, macos-latest]
-
-    name: Install and test package on ${{ matrix.os }} for Python ${{ matrix.python-version }}
-    runs-on: ${{ matrix.os }}
+    name: Build package on ${{ matrix.os }} with Python ${{ matrix.python-version }}
     steps:
       - name: Checkout repository
         uses: actions/checkout@v3
@@ -63,11 +62,43 @@ jobs:
         with:
           python-version: ${{ matrix.python-version }}
 
+      - name: Cache dependencies
+        uses: actions/cache@v4
+        with:
+          path: ~/.cache/pip
+          key: ${{ runner.os }}-pip-${{ matrix.python-version }}-${{ hashFiles('requirements.txt') }}
+          restore-keys: |
+            ${{ runner.os }}-pip-${{ matrix.python-version }}-
+
       - name: Install package [pip]
         run: |
           python -m pip install --upgrade pip
           pip install .[test]
 
+  test:
+    needs: install
+    strategy:
+      matrix:
+        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        os: [ubuntu-latest, windows-latest, macos-latest]
+
+    name: Run tests on ${{ matrix.os }} for Python ${{ matrix.python-version }}
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Checkout repo
+        uses: actions/checkout@v4
+
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: ${{ matrix.python-version }}
+
+      - name: Restore dependencies from cache
+        uses: actions/cache@v4
+        with:
+          path: ~/.cache/pip
+          key: ${{ runner.os }}-pip-${{ matrix.python-version }}-${{ hashFiles('requirements.txt') }}
+
       - name: Run tests with Pytest
         run: |
           coverage run -m pytest

From 5438430dbbb15c6436acb82284c2a4a379b7047f Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 18:06:37 +0100
Subject: [PATCH 09/12] fix

---
 .github/workflows/ci-cd.yml | 22 +++++++++++-----------
 1 file changed, 11 insertions(+), 11 deletions(-)

diff --git a/.github/workflows/ci-cd.yml b/.github/workflows/ci-cd.yml
index d05458c9..8056e304 100644
--- a/.github/workflows/ci-cd.yml
+++ b/.github/workflows/ci-cd.yml
@@ -52,7 +52,7 @@ jobs:
       matrix:
         python-version: ["3.8", "3.9", "3.10", "3.11"]
         os: [ubuntu-latest, windows-latest, macos-latest]
-    name: Build package on ${{ matrix.os }} with Python ${{ matrix.python-version }}
+    name: Build package on ${{ matrix.os }} with Python ${{ matrix.python-version }} ⚙️
     steps:
       - name: Checkout repository
         uses: actions/checkout@v3
@@ -75,6 +75,11 @@ jobs:
           python -m pip install --upgrade pip
           pip install .[test]
 
+      - name: Metadata check
+        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
+        run: |
+          python .github/scripts/metadata_checker
+
   test:
     needs: install
     strategy:
@@ -82,7 +87,7 @@ jobs:
         python-version: ["3.8", "3.9", "3.10", "3.11"]
         os: [ubuntu-latest, windows-latest, macos-latest]
 
-    name: Run tests on ${{ matrix.os }} for Python ${{ matrix.python-version }}
+    name: Run tests on ${{ matrix.os }} for Python ${{ matrix.python-version }} 🧪
     runs-on: ${{ matrix.os }}
     steps:
       - name: Checkout repo
@@ -101,13 +106,13 @@ jobs:
 
       - name: Run tests with Pytest
         run: |
-          coverage run -m pytest
+          python -m coverage run -m pytest
 
       - name: Coverage
         if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
         run: |
-          coverage report
-          coverage json
+          python -m coverage report
+          python -m coverage json
 
       - name: Upload coverage artifact
         if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
@@ -116,15 +121,10 @@ jobs:
           name: coverage-report
           path: coverage.json
 
-      - name: Metadata check
-        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
-        run: |
-          python .github/scripts/metadata_checker
-
   upload-coverage:
     runs-on: ubuntu-latest
     needs: test
-    name: Upload coverage report to Codecov
+    name: Upload coverage report to Codecov 📊
     steps:
       - name: Download coverage report
         uses: actions/download-artifact@v4

From 7182f211050518814fa58731993f88ba31b6fc18 Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <thomas.bouquet@student-cs.fr>
Date: Wed, 26 Feb 2025 18:13:05 +0100
Subject: [PATCH 10/12] cache after build

---
 .github/workflows/ci-cd.yml | 10 +++++-----
 1 file changed, 5 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/ci-cd.yml b/.github/workflows/ci-cd.yml
index 8056e304..8800fe6a 100644
--- a/.github/workflows/ci-cd.yml
+++ b/.github/workflows/ci-cd.yml
@@ -62,6 +62,11 @@ jobs:
         with:
           python-version: ${{ matrix.python-version }}
 
+      - name: Install package [pip]
+        run: |
+          python -m pip install --upgrade pip
+          pip install .[test]
+
       - name: Cache dependencies
         uses: actions/cache@v4
         with:
@@ -70,11 +75,6 @@ jobs:
           restore-keys: |
             ${{ runner.os }}-pip-${{ matrix.python-version }}-
 
-      - name: Install package [pip]
-        run: |
-          python -m pip install --upgrade pip
-          pip install .[test]
-
       - name: Metadata check
         if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
         run: |

From e9916d4293094515fd2ce6f4054542317db01965 Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <63302082+bqth29@users.noreply.github.com>
Date: Thu, 27 Mar 2025 11:57:26 +0100
Subject: [PATCH 11/12] simplify requirements

---
 requirements.txt | 34 ++++------------------------------
 1 file changed, 4 insertions(+), 30 deletions(-)

diff --git a/requirements.txt b/requirements.txt
index ee072cea..bb2d8682 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,39 +1,13 @@
 black==24.3.0
-click==8.1.6
-colorama==0.4.6
 coverage==7.2.7
-exceptiongroup==1.1.2
-filelock==3.12.2
 flake8==6.1.0
-iniconfig==2.0.0
+furo
 isort==5.12.0
-Jinja2==3.1.6
-MarkupSafe==2.1.3
-mccabe==0.7.0
-mpmath==1.3.0
-mypy-extensions==1.0.0
-networkx==3.1
-numpy==1.25.2
+myst-parser
+numpy==1.26.4
 numpydoc==1.6.0
-packaging==23.1
-pathspec==0.11.2
-platformdirs==3.10.0
-pluggy==1.2.0
-pycodestyle==2.11.0
-pyflakes==3.1.0
 pytest==7.4.0
-readthedocs-sphinx-search==0.3.2
 sphinx==7.1.2
-sphinx-rtd-theme==1.3.0
-sphinxcontrib-applehelp==1.0.4
-sphinxcontrib-devhelp==1.0.2
-sphinxcontrib-htmlhelp==2.0.1
-sphinxcontrib-jquery==4.1
-sphinxcontrib-jsmath==1.0.1
-sphinxcontrib-qthelp==1.0.3
-sphinxcontrib-serializinghtml==1.1.5
 sympy==1.12
-tomli==2.0.1
 torch==2.2.0
-tqdm==4.66.3
-typing_extensions==4.7.1
\ No newline at end of file
+tqdm==4.66.3
\ No newline at end of file

From d9b27d0378f0ccb3939beac4ed4239fc85109dad Mon Sep 17 00:00:00 2001
From: Thomas Bouquet <63302082+bqth29@users.noreply.github.com>
Date: Thu, 27 Mar 2025 12:04:28 +0100
Subject: [PATCH 12/12] Update ci-cd.yml

---
 .github/workflows/ci-cd.yml | 51 ++++++++-----------------------------
 1 file changed, 10 insertions(+), 41 deletions(-)

diff --git a/.github/workflows/ci-cd.yml b/.github/workflows/ci-cd.yml
index 8800fe6a..e8284eda 100644
--- a/.github/workflows/ci-cd.yml
+++ b/.github/workflows/ci-cd.yml
@@ -45,43 +45,8 @@ jobs:
         run: |
           isort --profile black --check .
 
-  install:
-    needs: lint
-    runs-on: ${{ matrix.os }}
-    strategy:
-      matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11"]
-        os: [ubuntu-latest, windows-latest, macos-latest]
-    name: Build package on ${{ matrix.os }} with Python ${{ matrix.python-version }} ⚙️
-    steps:
-      - name: Checkout repository
-        uses: actions/checkout@v3
-
-      - name: Setup Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v4
-        with:
-          python-version: ${{ matrix.python-version }}
-
-      - name: Install package [pip]
-        run: |
-          python -m pip install --upgrade pip
-          pip install .[test]
-
-      - name: Cache dependencies
-        uses: actions/cache@v4
-        with:
-          path: ~/.cache/pip
-          key: ${{ runner.os }}-pip-${{ matrix.python-version }}-${{ hashFiles('requirements.txt') }}
-          restore-keys: |
-            ${{ runner.os }}-pip-${{ matrix.python-version }}-
-
-      - name: Metadata check
-        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
-        run: |
-          python .github/scripts/metadata_checker
-
   test:
-    needs: install
+    needs: lint
     strategy:
       matrix:
         python-version: ["3.8", "3.9", "3.10", "3.11"]
@@ -98,11 +63,10 @@ jobs:
         with:
           python-version: ${{ matrix.python-version }}
 
-      - name: Restore dependencies from cache
-        uses: actions/cache@v4
-        with:
-          path: ~/.cache/pip
-          key: ${{ runner.os }}-pip-${{ matrix.python-version }}-${{ hashFiles('requirements.txt') }}
+      - name: Install package [pip]
+        run: |
+          python -m pip install --upgrade pip
+          pip install .[test]
 
       - name: Run tests with Pytest
         run: |
@@ -121,6 +85,11 @@ jobs:
           name: coverage-report
           path: coverage.json
 
+      - name: Metadata check
+        if: ${{ matrix.python-version == '3.8' && matrix.os == 'ubuntu-latest' }}
+        run: |
+          python .github/scripts/metadata_checker
+
   upload-coverage:
     runs-on: ubuntu-latest
     needs: test