init

.gitignore

@@ -0,0 +1,119 @@
+# Custom config files
+*.conf.custom
+
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# Cython
+*.c
+*.cpp
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+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/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+.hypothesis/
+.pytest_cache/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+doc/build/
+
+# pydocmd
+_build/
+mkdocs.yml
+
+# PyBuilder
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# pyenv
+.python-version
+
+# celery beat schedule file
+celerybeat-schedule
+
+# 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/
+
+.idea/
+.vs/
+*.~lock.*

.travis.yml

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+language: python
+matrix:
+  include:
+  - os: linux
+    python: 3.6
+    dist: bionic
+  - os: linux
+    python: 3.7
+    dist: bionic
+  - os: linux
+    python: 3.8
+    dist: bionic
+before_install:
+  - wget http://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh;
+  - bash miniconda.sh -b -p $HOME/miniconda
+  - export PATH="$HOME/miniconda/bin:$PATH"
+  - hash -r
+  - conda config --set always_yes yes --set changeps1 no
+  - conda info -a
+
+install:
+  - conda create -n test-environment python=$TRAVIS_PYTHON_VERSION
+  - source activate test-environment
+  - pip install -e .[dev]
+  - conda info -a
+after_success:
+  - coveralls
+script:
+  - black ./ -l 79 --check
+  - travis_wait 40 bash travis/run_tests.sh
+notifications:
+  email:
+    recipients:
+    - adam.tyson@ucl.ac.uk
+    on_success: change
+    on_failure: always

setup.py

@@ -0,0 +1,41 @@
+from setuptools import setup, find_namespace_packages
+
+requirements = ["brainrender", "napari"]
+
+
+setup(
+    name="neuro",
+    version="0.0.1a",
+    description="Visualisation and analysis of brain imaging data",
+    install_requires=requirements,
+    extras_require={
+        "dev": [
+            "sphinx",
+            "recommonmark",
+            "sphinx_rtd_theme",
+            "pydoc-markdown",
+            "black",
+            "pytest-cov",
+            "pytest",
+            "gitpython",
+            "coveralls",
+            "coverage<=4.5.4",
+        ]
+    },
+    python_requires=">=3.6",
+    packages=find_namespace_packages(exclude=("docs", "tests*")),
+    include_package_data=True,
+    url="https://github.com/SainsburyWellcomeCentre/neuro",
+    author="Adam Tyson",
+    author_email="adam.tyson@ucl.ac.uk",
+    classifiers=[
+        "Development Status :: 3 - Alpha",
+        "Programming Language :: Python",
+        "Programming Language :: Python :: 3.6",
+        "Programming Language :: Python :: 3.7",
+        "Programming Language :: Python :: 3.8",
+        "Intended Audience :: Developers",
+        "Intended Audience :: Science/Research",
+    ],
+    zip_safe=False,
+)

tests/tests/test_nothing.py

@@ -0,0 +1,2 @@
+def test_nothing():
+    assert True

travis/run_tests.sh

@@ -0,0 +1 @@
+pytest --cov=neuro