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.travis.yml
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.travis.yml
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sudo: false
language: python
python: 2.7
env:
- CHUNK=xaa
- CHUNK=xab
- CHUNK=xac
- CHUNK=xad
before_install:
- export GALAXY_REPO=https://github.com/galaxyproject/galaxy
- export GALAXY_RELEASE=release_16.04
- export CONDA_PREFIX="$HOME/conda"
install:
- pip install --upgrade setuptools
- pip install -q flake8 planemo lxml
- planemo conda_init --conda_prefix "$CONDA_PREFIX"
- export PATH="$CONDA_PREFIX/bin:$PATH"
- conda create -y -q -c bioconda --name iuc_conda samtools=0.1.19 bcftools
- . activate iuc_conda
- planemo --version
- conda --version
- echo $TRAVIS_COMMIT_RANGE
- planemo shed_lint --report_level warn --tools --fail_level error --recursive .
- git diff --name-only $TRAVIS_COMMIT_RANGE | xargs -n1 dirname | ./filter_directories.py | sort -u > changed_repositories.list
- cat changed_repositories.list
script:
- cd "$TRAVIS_BUILD_DIR" #&& flake8 -v --exclude=.git .
- |
if [ -s changed_repositories.list ]
then
split -n l/4 changed_repositories.list
fi
- echo "$CHUNK"
- |
if [ "${CHUNK}" ] && [ -s "${CHUNK}" ]
then
cat "$CHUNK"
export PLANEMO_TEST_RUN=True
while read -r DIR; do planemo conda_install --conda_ensure_channels r,bioconda,iuc --conda_prefix "$CONDA_PREFIX" "$DIR"; done < "$CHUNK"
while read -r DIR; do planemo test --conda_dependency_resolution --conda_prefix "$CONDA_PREFIX" --galaxy_branch $GALAXY_RELEASE --galaxy_source $GALAXY_REPO "$DIR" || exit 1; done < "$CHUNK"
fi
after_success:
- |
if [ "$TRAVIS_PULL_REQUEST" == "false" -a "$TRAVIS_BRANCH" == "master" -a "$PLANEMO_TEST_RUN" == 'True' ]
then
while read -r DIR; do planemo shed_update --shed_target testtoolshed --shed_email $SHED_EMAIL --shed_password $SHED_PASSWORD --force_repository_creation "$DIR" || exit 1; done < "$CHUNK"
fi