Build/CI: modernize build/doc/ci

.coveragerc

@@ -1,3 +1,8 @@
 [run]
 branch = True
 source = pylops
+omit =
+    pylops/basicoperators/_*.py
+    pylops/signalprocessing/_*.py
+    pylops/utils/_*.py
+    pylops/waveeqprocessing/_*.py

.github/workflows/build.yaml

@@ -16,33 +16,17 @@ jobs:
         python-version: ["3.10", "3.11", "3.12", "3.13"]
 
     runs-on: ${{ matrix.platform }}
-    steps:
-    - uses: actions/checkout@v4
-    - name: Get history and tags for SCM versioning to work
-      run: |
-        git fetch --prune --unshallow
-        git fetch --depth=1 origin +refs/tags/*:refs/tags/*
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
-      with:
-        python-version: ${{ matrix.python-version }}
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip setuptools
-        pip install flake8 pytest
 
-        if [[ "${{ matrix.platform }}" == ubuntu* ]]; then
-          pip install -r requirements-dev.txt
-          pip install -r requirements-pyfftw.txt
-        else
-          pip install -r requirements-dev-arm.txt
-          pip install -r requirements-pyfftw.txt
-        fi
-        pip install -r requirements-torch.txt
-    - name: Install pylops
-      run: |
-        python -m setuptools_scm
-        pip install .
-    - name: Tests with pytest
-      run: |
-        pytest
+    steps:
+      - name: Check out source repository
+        uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+      - name: Install uv with Python ${{ matrix.python-version }}
+        uses: astral-sh/setup-uv@v6
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies and pylops
+        run: uv sync --locked  --extra advanced  --extra stat --extra deep --all-groups
+      - name: Test with pytest
+        run: uv run pytest --color=yes pytests/

.github/workflows/buildcupy.yaml

@@ -13,29 +13,26 @@ jobs:
     runs-on: self-hosted
     steps:
       - name: Check out source repository
-        uses: actions/checkout@v4
-      - name: Set up Python environment and Install dependencies and pylops
+        uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+      - name: Install uv with Python 3.11
+        uses: astral-sh/setup-uv@v6
+        with:
+          python-version: 3.11
+      - name: Install dependencies and pylops
         run: |
-          python3 -m venv .venv-pylops
-          # write install scripts
-          cat << 'EOF' > pylops_tests.sh
-          #!/bin/bash
-          PYTHON=.venv-pylops/bin/python3
-          PIP=.venv-pylops/bin/pip
-          ls $PYTHON
-          ls $PIP
-          $PIP install
-          $PIP install --upgrade pip setuptools
-          $PIP install install flake8 pytest setuptools-scm
-          $PIP install -r requirements-dev-gpu.txt
-          $PIP install cupy-cuda12x
-          $PYTHON -m setuptools_scm
-          $PIP install .
-          EOF
-          srun --account=yuxilab -n 1 -N 1 --gres=gpu:L40S:1 bash pylops_tests.sh
-      - name: Tests with pytest
+          srun --account=yuxilab -n 1 -N 1 --gres=gpu:L40S:1 bash -c '
+            uv sync --locked  --extra advanced \
+              --extra stat --extra gpu-cu12 \
+              --extra deep-cu128 --all-groups
+          '
+          echo "done!"
+      - name: Test with pytest
         run: |
-          export CUPY_PYLOPS=1; export TEST_CUPY_PYLOPS=1;
-          export PYTEST=.venv-pylops/bin/pytest
-          srun --account=yuxilab -n 1 -N 1 --gres=gpu:L40S:1 $PYTEST
+          srun --account=yuxilab -n 1 -N 1 --gres=gpu:L40S:1 bash -c '
+            export CUPY_PYLOPS=1
+            export TEST_CUPY_PYLOPS=1
+            uv run pytest --color=yes pytests/
+          '
           echo "done!"

.github/workflows/codacy-coverage-reporter.yaml

@@ -2,43 +2,38 @@
 # For more information see: https://github.com/codacy/codacy-coverage-reporter-action
 name: PyLops-coverage
 
-on: [push, pull_request_target]
+on:
+  pull_request:
+  push:
+    branches: [dev]
 
 jobs:
   build:
-    strategy:
-      matrix:
-        platform: [ ubuntu-latest, ]
-        python-version: ["3.11", ]
-
-    runs-on: ${{ matrix.platform }}
+    runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v4
-    - name: Get history and tags for SCM versioning to work
-      run: |
-        git fetch --prune --unshallow
-        git fetch --depth=1 origin +refs/tags/*:refs/tags/*
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
-      with:
-        python-version: ${{ matrix.python-version }}
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install flake8 pytest
-        pip install -r requirements-dev.txt
-        pip install -r requirements-pyfftw.txt
-        pip install -r requirements-torch.txt
-    - name: Install pylops
-      run: |
-        pip install .
-        pip install coverage
-    - name: Code coverage with coverage
-      run: |
-        coverage run -m pytest
-        coverage xml
-    - name: Run codacy-coverage-reporter
-      uses: codacy/codacy-coverage-reporter-action@v1
-      with:
-        project-token: ${{ secrets.CODACY_PROJECT_TOKEN }}
-        coverage-reports: coverage.xml
+      - name: Check out source repository
+        uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+      - name: Install uv with Python
+        uses: astral-sh/setup-uv@v6
+        with:
+          python-version: "3.11"
+      - name: Install dependencies and pylops
+        run: uv sync --locked  --extra advanced  --extra stat --extra deep --all-groups
+      - name: Coverage with pytest
+        run: |
+          uv run coverage run -m pytest
+          uv run coverage xml
+          uv run coverage html
+      - name: Upload HTML coverage report
+        uses: actions/upload-artifact@v4
+        with:
+          name: coverage-html
+          path: htmlcov/
+      - name: Run codacy-coverage-reporter
+        if: github.event_name == 'push'
+        uses: codacy/codacy-coverage-reporter-action@v1
+        with:
+          project-token: ${{ secrets.CODACY_PROJECT_TOKEN }}
+          coverage-reports: coverage.xml

.github/workflows/ruff.yaml

@@ -0,0 +1,19 @@
+# This workflow runs Ruff on the PR
+# For more information see: https://github.com/marketplace/actions/ruff-action
+name: PyLops-ruff
+
+on: [push, pull_request]
+
+jobs:
+  ruff-lint:
+    runs-on: ubuntu-latest
+    name: Lint
+    steps:
+      - name: Check out source repository
+        uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+      - name: Lint with ruff
+        uses: astral-sh/ruff-action@v3
+        with:
+           src: "./pylops"

.pre-commit-config.yaml

@@ -1,30 +1,31 @@
 exclude: "^docs/"
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.0.1
+    rev: v6.0.0
     hooks:
       - id: trailing-whitespace
       - id: end-of-file-fixer
+      - id: mixed-line-ending
+      - id: check-toml
       - id: check-yaml
+      - id: check-added-large-files
+      - id: check-case-conflict
+      - id: check-merge-conflict
 
-  - repo: https://github.com/psf/black
-    rev: 22.3.0
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    rev: v0.14.14
     hooks:
-      - id: black
-        args: # arguments to configure black
-          - --line-length=88
+      - id: ruff-check
+        args: [ --fix ]
+      - id: ruff-format
 
-  - repo: https://github.com/pycqa/isort
-    rev: 5.12.0
+  - repo: https://github.com/astral-sh/uv-pre-commit
+    rev: 0.9.28
     hooks:
-      - id: isort
-        name: isort (python)
-        args:
-          [
-            "--profile",
-            "black",
-            "--skip",
-            "__init__.py",
-            "--filter-files",
-            "--line-length=88",
-          ]
+      - id: uv-lock
+
+  - repo: https://github.com/abravalheri/validate-pyproject
+    rev: "v0.23"
+    hooks:
+      - id: validate-pyproject
+        additional_dependencies: ["validate-pyproject-schema-store[all]"]

.readthedocs.yaml

@@ -5,20 +5,21 @@
 # Required
 version: 2
 
-# Set the version of Python and other tools you might need
-build:
-  os: ubuntu-24.04
-  tools:
-    python: "3.12"
-
 # Build documentation in the docs/ directory with Sphinx
 sphinx:
   configuration: docs/source/conf.py
 
-# Declare the Python requirements required to build your docs
-python:
-  install:
-    - requirements: requirements-doc.txt
-    - requirements: requirements-torch.txt
-    - method: pip
-      path: .
+# Set the version of environment using UV
+build:
+   os: ubuntu-24.04
+   tools:
+      python: "3.12"
+   jobs:
+      pre_create_environment:
+         - asdf plugin add uv
+         - asdf install uv latest
+         - asdf global uv latest
+      create_environment:
+         - uv venv "${READTHEDOCS_VIRTUALENV_PATH}"
+      install:
+         - UV_PROJECT_ENVIRONMENT="${READTHEDOCS_VIRTUALENV_PATH}" uv sync --locked  --extra advanced  --extra stat --extra deep --all-groups

CONTRIBUTING.md

@@ -6,10 +6,6 @@ The best way to get in touch with the core developers and maintainers is to
 join the [PyLops slack channel](https://pylops.slack.com/) as well as
 open new *Issues* directly from the GitHub repo.
 
-Moreover, take a look at the [Roadmap](https://pylops.readthedocs.io/en/stable/roadmap.html)
-page for a list of current ideas for improvements and additions to the PyLops library.
-
-
 ## Welcomed contributions
 
 ### Bug reports

MANIFEST.in

@@ -1,6 +1,8 @@
 exclude .*
-exclude environment.yml requirements.txt  Makefile
-exclude environment-dev.yml requirements-dev.txt azure-pipelines.yml readthedocs.yml
+exclude Makefile
+exclude environment*
+exclude requirements*
+exclude azure-pipelines.yml readthedocs.yml
 recursive-exclude docs *
 recursive-exclude examples *
 recursive-exclude pytests *