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.travis.yml
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.travis.yml
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language: python
dist: xenial
#cache:
# - directories:
# - $HOME/miniconda
python:
- "3.7"
install:
# Install Anaconda
- wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O /tmp/miniconda.sh
- bash /tmp/miniconda.sh -b -p $HOME/miniconda
- export PATH="$HOME/miniconda/bin:$PATH"
- hash -r
- conda config --set always_yes yes --set changeps1 no
- conda update -q conda
# install dependencies
- source $HOME/miniconda/etc/profile.d/conda.sh
- conda create -q -n drop -c conda-forge -c bioconda python=$TRAVIS_PYTHON_VERSION r-base=4.0.2
- conda activate drop
- conda install -c conda-forge -c bioconda drop
- conda remove --force drop wbuild
- conda install -c conda-forge -c bioconda wbuild=1.7.1
- pip install -r requirements_test.txt
# install drop
- pip install . -vv
script:
- conda list
- java -version
- gatk --help
- samtools --version
- bcftools --version
- drop --version
- wbuild --version
- python --version
- pytest -vv -s