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TST Automatic retries in travis #1659

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Merged
merged 12 commits into from
Oct 1, 2016
Merged

TST Automatic retries in travis #1659

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ec56567
induce failures in travis for testing
Sep 22, 2016
79e2743
add travis_retry
Sep 23, 2016
3fd2372
add travis_retry
Sep 23, 2016
46866e7
travis_retry custom function
Sep 23, 2016
c597b0c
bash syntax
Sep 23, 2016
75af348
try wget
Sep 23, 2016
527620f
put it all in a function
Sep 23, 2016
b388fd6
bash quirk
Sep 23, 2016
3722130
semicolons?
Sep 23, 2016
5baa168
functionalize install step
Sep 23, 2016
ad17e52
test w/o induced failures
Sep 23, 2016
9674584
change ; to &&
Sep 23, 2016
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60 changes: 31 additions & 29 deletions .travis.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -10,36 +10,38 @@ env:
- INSTALL_DEB_DEPENDECIES=false
- INSTALL_DEB_DEPENDECIES=true DUECREDIT_ENABLE=yes
before_install:
- wget http://repo.continuum.io/miniconda/Miniconda${TRAVIS_PYTHON_VERSION:0:1}-latest-Linux-x86_64.sh
-O /home/travis/.cache/miniconda.sh
- bash /home/travis/.cache/miniconda.sh -b -p /home/travis/miniconda
- export PATH=/home/travis/miniconda/bin:$PATH
- if $INSTALL_DEB_DEPENDECIES; then sudo rm -rf /dev/shm; fi
- if $INSTALL_DEB_DEPENDECIES; then sudo ln -s /run/shm /dev/shm; fi
- bash <(wget -q -O- http://neuro.debian.net/_files/neurodebian-travis.sh)
- sudo apt-get -y update
- sudo apt-get -y install xvfb fusefat
- if $INSTALL_DEB_DEPENDECIES; then travis_retry sudo apt-get install -y -qq
fsl afni elastix fsl-atlases; fi
- if $INSTALL_DEB_DEPENDECIES; then
source /etc/fsl/fsl.sh;
source /etc/afni/afni.sh; fi
- export FSLOUTPUTTYPE=NIFTI_GZ
- function bef_inst {
wget http://repo.continuum.io/miniconda/Miniconda${TRAVIS_PYTHON_VERSION:0:1}-latest-Linux-x86_64.sh
-O /home/travis/.cache/miniconda.sh &&
bash /home/travis/.cache/miniconda.sh -b -p /home/travis/miniconda &&
export PATH=/home/travis/miniconda/bin:$PATH &&
if $INSTALL_DEB_DEPENDECIES; then sudo rm -rf /dev/shm; fi &&
if $INSTALL_DEB_DEPENDECIES; then sudo ln -s /run/shm /dev/shm; fi &&
bash <(wget -q -O- http://neuro.debian.net/_files/neurodebian-travis.sh) &&
sudo apt-get -y update &&
sudo apt-get -y install xvfb fusefat &&
if $INSTALL_DEB_DEPENDECIES; then travis_retry sudo apt-get install -y -qq
fsl afni elastix fsl-atlases; fi &&
if $INSTALL_DEB_DEPENDECIES; then
source /etc/fsl/fsl.sh;
source /etc/afni/afni.sh; fi &&
export FSLOUTPUTTYPE=NIFTI_GZ; }
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How does failure of one line in this function propagates to the exit code of the whole thing? Since the individual commands are not joined by && wouldn't only the exit code of the last command count in the decision if a retry is needed?

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Ack, of course.

- travis_retry bef_inst
install:
- conda config --add channels conda-forge
- conda update --yes conda
- conda update --all -y python=$TRAVIS_PYTHON_VERSION
# - if [[ "${INSTALL_DEB_DEPENDECIES}" == "true" && ${TRAVIS_PYTHON_VERSION:0:1} == "2" ]]; then
# conda install -y vtk mayavi; fi
- conda install -y nipype matplotlib nitime
- pip install python-coveralls coverage doctest-ignore-unicode
- if [ ! -z "$DUECREDIT_ENABLE"]; then pip install duecredit; fi
- rm -r /home/travis/miniconda/lib/python${TRAVIS_PYTHON_VERSION}/site-packages/nipype*
- pip install -r requirements.txt
- pip install -e .
- export COVERAGE_PROCESS_START=$(pwd)/.coveragerc
- export COVERAGE_DATA_FILE=$(pwd)/.coverage
- echo "data_file = ${COVERAGE_DATA_FILE}" >> ${COVERAGE_PROCESS_START}
- function inst {
conda config --add channels conda-forge &&
conda update --yes conda &&
conda update --all -y python=$TRAVIS_PYTHON_VERSION &&
conda install -y nipype matplotlib nitime &&
pip install python-coveralls coverage doctest-ignore-unicode &&
if [ ! -z "$DUECREDIT_ENABLE"]; then pip install duecredit; fi &&
rm -r /home/travis/miniconda/lib/python${TRAVIS_PYTHON_VERSION}/site-packages/nipype* &&
pip install -r requirements.txt &&
pip install -e . &&
export COVERAGE_PROCESS_START=$(pwd)/.coveragerc &&
export COVERAGE_DATA_FILE=$(pwd)/.coverage &&
echo "data_file = ${COVERAGE_DATA_FILE}" >> ${COVERAGE_PROCESS_START}; }
- travis_retry inst
script:
- python -W once:FSL:UserWarning:nipype `which nosetests` --with-doctest --with-doctest-ignore-unicode --with-cov --cover-package nipype --logging-level=DEBUG --verbosity=3
after_success:
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