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Arno Klein
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Convert circleci file to version 2
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‎.circleci/config.yml

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## Copyright 2016-2018, Mindboggle team (mindboggle.info), Apache v2.0 License
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version: 2
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#-----------------------------------------------------------------------------
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# Build and test jobs
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#-----------------------------------------------------------------------------
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jobs:
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build:
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docker:
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- image: circleci/python:3.6.2
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environment:
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HOME: /home/ubuntu
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CONDA_ROOT: ${HOME}/miniconda
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ENV_NAME: mindboggle-env
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ENV_PREFIX: ${CONDA_ROOT}/envs/${ENV_NAME}
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python: ${ENV_PREFIX}/bin/python
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vtk_cpp_tools: ${HOME}/mindboggle/vtk_cpp_tools/bin
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PATH: ${ENV_PREFIX}/bin:${CONDA_ROOT}/bin:${vtk_cpp_tools}:${PATH}
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SITEPKGS: ${ENV_PREFIX}/lib/python3.5/site-packages
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PYTHONPATH: ${SITEPKGS}/vtk:${PYTHONPATH}
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MB: ${SITEPKGS}/mindboggle
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steps:
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- checkout
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#-----------------------------------------------------------------------
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# Dependencies
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#-----------------------------------------------------------------------
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- run:
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name: install requirements/dev.txt
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command: pip install -r requirements/dev.txt
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- run:
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environment:
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HOME: /home/ubuntu
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CONDA_ROOT: ${HOME}/miniconda
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ENV_NAME: mindboggle-env
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ENV_PREFIX: ${CONDA_ROOT}/envs/${ENV_NAME}
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python: ${ENV_PREFIX}/bin/python
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vtk_cpp_tools: ${HOME}/mindboggle/vtk_cpp_tools/bin
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PATH: ${ENV_PREFIX}/bin:${CONDA_ROOT}/bin:${vtk_cpp_tools}:${PATH}
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SITEPKGS: ${ENV_PREFIX}/lib/python3.5/site-packages
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PYTHONPATH: ${SITEPKGS}/vtk:${PYTHONPATH}
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MB: ${SITEPKGS}/mindboggle
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test:
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steps:
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- $python -m "nose" --with-doctest ${MB}/thirdparty/
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- $python -m "nose" --with-doctest ${MB}/mio/
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- $python -m "nose" --with-doctest ${MB}/guts/
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- $python -m "nose" --with-doctest ${MB}/shapes/
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- $python -m "nose" --with-doctest ${MB}/features/
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#- $python -m "nose" --with-doctest --with-coverage ${MB}/evaluate/
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#- coveralls
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dependencies:
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#cache_directories:
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# - $CONDA_ROOT
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pre:
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- sudo apt-get update; sudo apt-get install libllvm-3.3
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override:
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#-------------------------------------------------------------------------
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name: update
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command: sudo apt-get update; sudo apt-get install libllvm-3.3
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#---------------------------------------------------------------------
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# Download/install conda (if not already cached)
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#-------------------------------------------------------------------------
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- >
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#---------------------------------------------------------------------
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- run:
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name: install conda
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command: |
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if [[ ! -d $CONDA_ROOT ]]; then
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echo "Installing Miniconda3...";
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wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh &&
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bash Miniconda3-latest-Linux-x86_64.sh -b -p $CONDA_ROOT;
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else
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echo "Using cached Miniconda install";
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fi
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- conda config --set show_channel_urls yes --set always_yes yes
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- conda update conda conda-env
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#-------------------------------------------------------------------------
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- run:
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name: configure conda
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command: conda config --set show_channel_urls yes --set always_yes yes
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- run:
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name: update conda
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command: conda update conda conda-env
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#---------------------------------------------------------------------
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# Create a Python environment (see environment.yml file):
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#-------------------------------------------------------------------------
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- conda env create
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- source activate mindboggle-env
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- conda info --envs
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#-------------------------------------------------------------------------
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#---------------------------------------------------------------------
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- run:
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name: create a python environment
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command: conda env create
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- run:
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name: activate environment
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command: source activate mindboggle-env
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- run:
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name: conda info
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command: conda info --envs
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#---------------------------------------------------------------------
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# Install Mindboggle and its C++ code:
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#-------------------------------------------------------------------------
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- $python setup.py install
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- mkdir $vtk_cpp_tools && cd $vtk_cpp_tools && cmake ../ && make
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#---------------------------------------------------------------------
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- run:
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name: install mindboggle
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command: $python setup.py install
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- run:
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name: install mindboggle c++ code
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command: mkdir $vtk_cpp_tools && cd $vtk_cpp_tools && cmake ../ && make
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#-----------------------------------------------------------------------
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# Run tests
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#-----------------------------------------------------------------------
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- run:
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name: thirdparty
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command: $python -m "nose" --with-doctest ${MB}/thirdparty/
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- run:
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name: mio
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command: $python -m "nose" --with-doctest ${MB}/mio/
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- run:
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name: guts
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command: $python -m "nose" --with-doctest ${MB}/guts/
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- run:
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name: shapes
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command: $python -m "nose" --with-doctest ${MB}/shapes/
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- run:
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name: features
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command: $python -m "nose" --with-doctest ${MB}/features/
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#-----------------------------------------------------------------------------
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# Workflows: build and test
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#-----------------------------------------------------------------------------
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workflows:
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version: 2
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build_and_test:
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jobs:
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- build
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- test

‎environment.yml renamed to ‎.circleci/requirements/dev.txt

File renamed without changes.

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