Initial commit

# Please do not edit or delete this file. It is needed to be able to update project from template.

_commit: '0.4'

_src_path: https://code.ornl.gov/ndip/project-templates/python.git

project_name: ctscan-viz

publish_docs: false

publish_to_pypi: false

python_package: ctscan_viz

dockerfiles/Dockerfile

# Byte-compiled / optimized / DLL files

__pycache__/

*.py[cod]

*$py.class

# C extensions

*.so

# Distribution / packaging

.Python

build/

develop-eggs/

dist/

downloads/

eggs/

.eggs/

lib/

lib64/

parts/

sdist/

var/

wheels/

share/python-wheels/

*.egg-info/

.installed.cfg

*.egg

MANIFEST

# PyInstaller

#  Usually these files are written by a python script from a template

#  before PyInstaller builds the exe, so as to inject date/other infos into it.

*.manifest

*.spec

# Installer logs

pip-log.txt

pip-delete-this-directory.txt

# Unit test / coverage reports

htmlcov/

.tox/

.nox/

.coverage

.coverage.*

.cache

nosetests.xml

coverage.xml

*.cover

*.py,cover

.hypothesis/

.pytest_cache/

cover/

# Translations

*.mo

*.pot

# Django stuff:

*.log

local_settings.py

db.sqlite3

db.sqlite3-journal

# Flask stuff:

instance/

.webassets-cache

# Scrapy stuff:

.scrapy

# Sphinx documentation

docs/_build/

# PyBuilder

.pybuilder/

target/

# Jupyter Notebook

.ipynb_checkpoints

# IPython

profile_default/

ipython_config.py

# pyenv

#   For a library or package, you might want to ignore these files since the code is

#   intended to run in multiple environments; otherwise, check them in:

# .python-version

# pipenv

#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.

#   However, in case of collaboration, if having platform-specific dependencies or dependencies

#   having no cross-platform support, pipenv may install dependencies that don't work, or not

#   install all needed dependencies.

#Pipfile.lock

# poetry

#   Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.

#   This is especially recommended for binary packages to ensure reproducibility, and is more

#   commonly ignored for libraries.

#   https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control

#poetry.lock

# pdm

#   Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control.

#pdm.lock

#   pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it

#   in version control.

#   https://pdm.fming.dev/#use-with-ide

.pdm.toml

# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm

__pypackages__/

# Celery stuff

celerybeat-schedule

celerybeat.pid

# SageMath parsed files

*.sage.py

# Environments

.env

.venv

env/

venv/

ENV/

env.bak/

venv.bak/

# Spyder project settings

.spyderproject

.spyproject

# Rope project settings

.ropeproject

# mkdocs documentation

/site

# mypy

.mypy_cache/

.dmypy.json

dmypy.json

# Pyre type checker

.pyre/

# pytype static type analyzer

.pytype/

# Cython debug symbols

cython_debug/

# PyCharm

#  We ingore the whole .idea folder

#  For more fine tuning, JetBrains specific template is maintained in a separate JetBrains.gitignore that can

#  be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore

#  and can be added to the global gitignore or merged into this file.

.idea

.envrc

junit.xml

stages:

  - lint

  - test

  - tag

  - publish

variables:

  GIT_STRATEGY: clone

  IMAGE_NAME: ${NDIP_DOCKER_REPOSITORY}/${CI_PROJECT_PATH}

before_script:

  - curl https://code.ornl.gov/rse-deployment/rse-sharables/raw/master/rse-bash-modules.sh -O

  - source rse-bash-modules.sh

  - func_rse_docker_cleanup

  - docker login -u $NDIP_DOCKER_USER -p $NDIP_DOCKER_PASSWORD $NDIP_DOCKER_REPOSITORY

  - export VERSION=$(cat pyproject.toml | grep "version =" | head -n 1 | awk '{ print $3 }' | tr -d '"')

after_script:

  - curl https://code.ornl.gov/rse-deployment/rse-sharables/raw/master/rse-bash-modules.sh -O

  - source rse-bash-modules.sh

  - func_rse_docker_cleanup

lint-check:

  stage: lint

  script:

    - docker build -f dockerfiles/Dockerfile --target source -t image .

    - docker run -u `id -u`:`id -g` image poetry run ruff check

    - docker run -u `id -u`:`id -g` image poetry run ruff format --check

    - docker run -u `id -u`:`id -g` image poetry run mypy .

    - docker tag image ${IMAGE_NAME}:src-${CI_COMMIT_SHA}

    - docker push ${IMAGE_NAME}:src-${CI_COMMIT_SHA}

  tags:

    - rse-multi-builder

unit-tests:

  stage: test

  script:

    - mkdir reports

    - docker run -u `id -u`:`id -g` -v `pwd`/reports:/src/reports ${IMAGE_NAME}:src-${CI_COMMIT_SHA} poetry run coverage run

    - docker run -u `id -u`:`id -g` -v `pwd`/reports:/src/reports ${IMAGE_NAME}:src-${CI_COMMIT_SHA} poetry run coverage report

    - docker run -u `id -u`:`id -g` -v `pwd`/reports:/src/reports ${IMAGE_NAME}:src-${CI_COMMIT_SHA} poetry run coverage xml -o reports/coverage.xml

    - sed -i "s:<source>/src:<source>${CI_BUILDS_DIR}/${CI_PROJECT_PATH}:" reports/coverage.xml

  coverage: '/TOTAL.*? (100(?:\.0+)?\%|[1-9]?\d(?:\.\d+)?\%)$/'

  artifacts:

    when: always

    reports:

      junit: reports/junit.xml

      coverage_report:

        coverage_format: cobertura

        path: reports/coverage.xml

  tags:

    - rse-multi-builder

docs-test:

  stage: test

  script:

    - docker run -u `id -u`:`id -g` ${IMAGE_NAME}:src-${CI_COMMIT_SHA} bash build_docs.sh

  tags:

    - rse-multi-builder

tag-release:

  stage: tag

  rules:

    - if: $CI_COMMIT_BRANCH == $CI_DEFAULT_BRANCH

      when: always

    - when: never

  script:

    - git config user.email "$GITLAB_USER_EMAIL"

    - git config user.name "$GITLAB_USER_NAME"

    - >

      if [ -z $(git ls-remote --tags origin "$VERSION") ]; then

        git remote add gitlab https://oauth2:${NDIP_GROUP_TOKEN}@${CI_SERVER_HOST}/${CI_PROJECT_PATH}.git

        git tag ${VERSION}

        git push gitlab --tags

      fi

  tags:

  - rse-multi-builder

build-image:

  stage: publish

  variables:

    OVERWRITE_IMAGE: "false"

  when: manual

  script:

    - IMAGE_TAG=$(VERSION)

    - docker pull ${IMAGE_NAME}:src-${CI_COMMIT_SHA}

    - docker build -f dockerfiles/Dockerfile -t image .

    - docker tag image ${IMAGE_NAME}:bin-${CI_COMMIT_SHA}

    - docker push ${IMAGE_NAME}:bin-${CI_COMMIT_SHA}

    - docker tag image ${IMAGE_NAME}:latest

    - docker push ${IMAGE_NAME}:latest

    - >

      if ! docker pull ${IMAGE_NAME}:${IMAGE_TAG} || [ "$OVERWRITE_IMAGE" == "true" ]; then

        docker tag image ${IMAGE_NAME}:${IMAGE_TAG}

        docker push ${IMAGE_NAME}:${IMAGE_TAG}

      else

        echo tag ${IMAGE_TAG} already exists in ${NDIP_DOCKER_REPOSITORY}. Use OVERWRITE_IMAGE="true", delete image in the repository or change the tag

        exit 1

      fi

  tags:

    - rse-multi-builder

package-build:

  stage: publish

  script:

    - >

      docker run

      -u `id -u`:`id -g`

      ${IMAGE_NAME}:src-${CI_COMMIT_SHA}

      bash -c "

      poetry config repositories.gitlab_repo ${CI_API_V4_URL}/projects/${CI_PROJECT_ID}/packages/pypi &&

      poetry publish -u gitlab-ci-token -p ${CI_JOB_TOKEN} -r gitlab_repo

      "

  when: manual

  tags:

    - rse-multi-builder

repos:

- repo: https://github.com/pre-commit/pre-commit-hooks

  rev: v4.6.0

  hooks:

    - id: check-added-large-files

      args: [--maxkb=8192]

    - id: check-merge-conflict

    - id: check-yaml

      args: [--allow-multiple-documents]

    - id: end-of-file-fixer

    - id: check-toml

    - id: trailing-whitespace

- repo: https://github.com/astral-sh/ruff-pre-commit

  rev: v0.6.2

  hooks:

    - id: ruff

      args: [--fix, --exit-non-zero-on-fix]

    - id: ruff-format

- repo: local

  hooks:

    - id: mypy

      name: mypy

      entry: poetry run mypy src

      language: system

      types: [python]

      verbose: true

      pass_filenames: false