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oestebanoesteban
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Merge branch 'fix/TestingCircle' into enh/WorkflowInterface
2 parents c3deaad + 2281718 commit 9dbef42

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‎Dockerfile‎

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@@ -175,7 +175,7 @@ RUN conda config --add channels conda-forge --add channels intel && \
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chmod +x /usr/local/miniconda/bin/* && \
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conda config --set always_yes yes --set changeps1 no && \
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conda update -q conda && \
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chmod +x /usr/local/miniconda/bin/* && \
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chmod +x /usr/local/miniconda/bin/*; sync && \
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conda install -y mkl=2017.0.1 \
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numpy=1.11.2 \
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scipy=0.18.1 \

‎docker/files/run_builddocs.sh‎

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@@ -6,6 +6,4 @@ set -u
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mkdir -p /scratch/docs
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make html 2>&1 | tee /scratch/builddocs.log
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cp -r /root/src/nipype/doc/_build/html/* /scratch/docs/
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chmod 777 -R /scratch/docs
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chmod 777 /scratch/builddocs.log
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cat /scratch/builddocs.log && if grep -q "ERROR" /scratch/builddocs.log; then false; else true; fi

‎docker/files/run_examples.sh‎

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@@ -15,5 +15,3 @@ coverage run /root/src/nipype/tools/run_examples.py $@
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arr=$@
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tmp_var=$( IFS=$' '; echo "${arr[*]}" )
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coverage xml -o "/scratch/smoketest_${tmp_var//[^A-Za-z0-9_-]/_}.xml"
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chmod 777 -R /scratch/logs

‎docker/files/run_pytests.sh‎

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@@ -36,4 +36,3 @@ fi
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# Copy crashfiles to scratch
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for i in $(find /root/src/nipype/ -name "crash-*" ); do cp $i /scratch/crashfiles/; done
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chmod 777 -R /scratch/*

‎docker/files/teardown.sh‎

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@@ -7,9 +7,9 @@ set -u
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set -e
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mkdir -p ${CIRCLE_TEST_REPORTS}/pytest
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sudo mv ~/scratch/*.xml ${CIRCLE_TEST_REPORTS}/pytest
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mv ~/scratch/*.xml ${CIRCLE_TEST_REPORTS}/pytest
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mkdir -p ~/docs
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sudo mv ~/scratch/docs/* ~/docs/
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mv ~/scratch/docs/* ~/docs/
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mkdir -p ~/logs
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sudo mv ~/scratch/builddocs.log ~/logs/builddocs.log
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sudo mv ~/scratch/logs/* ~/logs/
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mv ~/scratch/builddocs.log ~/logs/builddocs.log
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mv ~/scratch/logs/* ~/logs/

‎docker/files/tests.sh‎

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@@ -14,23 +14,23 @@ fi
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# They may need to be rebalanced in the future.
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case ${CIRCLE_NODE_INDEX} in
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0)
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_dartel Linear /root/examples/ level1
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_dartel Linear /root/examples/ level1 && \
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_dartel Linear /root/examples/ l2pipeline
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;;
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1)
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_dartel Linear /root/examples/ l2pipeline
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh test_spm Linear /root/examples/ workflow3d
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docker run --rm -it -e FSL_COURSE_DATA="/root/examples/nipype-fsl_course_data" -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /root/src/nipype nipype/nipype_test:py35 /usr/bin/run_pytests.sh py35
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docker run --rm -it -e NIPYPE_NUMBER_OF_CPUS=4 -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py27 /usr/bin/run_examples.sh fmri_spm_nested MultiProc /root/examples/ level1
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh test_spm Linear /root/examples/ workflow3d && \
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh test_spm Linear /root/examples/ workflow4d && \
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docker run --rm -it -e FSL_COURSE_DATA="/root/examples/nipype-fsl_course_data" -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /root/src/nipype nipype/nipype_test:py27 /usr/bin/run_pytests.sh py27 && \
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docker run --rm -it -e FSL_COURSE_DATA="/root/examples/nipype-fsl_course_data" -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /root/src/nipype nipype/nipype_test:py35 /usr/bin/run_pytests.sh py35 && \
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docker run --rm -it -v $SCRATCH:/scratch -w /root/src/nipype/doc nipype/nipype_test:py35 /usr/bin/run_builddocs.sh
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;;
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2)
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docker run --rm -it -e NIPYPE_NUMBER_OF_CPUS=4 -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py27 /usr/bin/run_examples.sh fmri_spm_nested MultiProc /root/examples/ level1 && \
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docker run --rm -it -e NIPYPE_NUMBER_OF_CPUS=4 -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_nested MultiProc /root/examples/ l2pipeline
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docker run --rm -it -v $SCRATCH:/scratch -w /root/src/nipype/doc nipype/nipype_test:py35 /usr/bin/run_builddocs.sh
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docker run --rm -it -e FSL_COURSE_DATA="/root/examples/nipype-fsl_course_data" -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /root/src/nipype nipype/nipype_test:py27 /usr/bin/run_pytests.sh py27
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docker run --rm -it -e NIPYPE_NUMBER_OF_CPUS=4 -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_nested MultiProc /root/examples/ level1
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;;
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3)
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh test_spm Linear /root/examples/ workflow4d
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_fsl_feeds Linear /root/examples/ l1pipeline
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docker run --rm -it -e NIPYPE_NUMBER_OF_CPUS=4 -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_spm_nested MultiProc /root/examples/ level1 && \
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_fsl_feeds Linear /root/examples/ l1pipeline && \
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docker run --rm -it -v $HOME/examples:/root/examples:ro -v $SCRATCH:/scratch -w /scratch nipype/nipype_test:py35 /usr/bin/run_examples.sh fmri_fsl_reuse Linear /root/examples/ level1_workflow
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;;
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esac

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