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CI: Full test suite
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‎.circleci/config.yml

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@@ -199,6 +199,300 @@ jobs:
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_fsl_feeds_linear_l1:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_fsl_feeds_linear_l1.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_fsl_reuse_linear_l1:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_fsl_reuse_linear_l1.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_spm_dartel_linear_l1:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_spm_dartel_linear_l1.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_spm_dartel_linear_l2:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_spm_dartel_linear_l2.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_spm_linear_3d:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_spm_linear_3d.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_spm_linear_4d:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_spm_linear_4d.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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test_py3_fmri_spm_nested_multiproc_l1:
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machine:
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# Ubuntu 14.04 with Docker 17.10.0-ce
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image: circleci/classic:201710-02
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working_directory: /home/circleci/nipype
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steps:
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- attach_workspace:
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at: /tmp
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- run:
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name: Load saved Docker images.
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no_output_timeout: 60m
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command: |
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docker load < /tmp/docker/nipype-base-latest-py36-py27.tar.gz
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- checkout:
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path: /home/circleci/nipype
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- run:
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name: Download test data
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no_output_timeout: 20m
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working_directory: /home/circleci/examples
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environment:
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OSF_NIPYPE_URL: "https://files.osf.io/v1/resources/nefdp/providers/osfstorage"
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command: |
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export DATA_NIPYPE_TUTORIAL_URL="${OSF_NIPYPE_URL}/57f4739cb83f6901ed94bf21"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_TUTORIAL_URL" | tar xj
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export DATA_NIPYPE_FSL_COURSE="${OSF_NIPYPE_URL}/57f472cf9ad5a101f977ecfe"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_COURSE" | tar xz
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export DATA_NIPYPE_FSL_FEEDS="${OSF_NIPYPE_URL}/57f473066c613b01f113e7af"
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curl -sSL --retry 5 --connect-timeout 15 "$DATA_NIPYPE_FSL_FEEDS" | tar xz
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- run:
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name: Run tests
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no_output_timeout: 2h
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environment:
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WORKDIR: /home/circleci/work
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command: |
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mkdir -p "$WORKDIR"
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chmod -R 777 "$WORKDIR"
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bash /home/circleci/nipype/.circleci/test_py3_fmri_spm_nested_multiproc_l1.sh
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- store_artifacts:
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path: /home/circleci/work/tests
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deploy:
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docker:
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- image: docker:17.10.0-ce-git
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- test_py2_fmri_spm_nested_multiproc_l2:
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requires:
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- build_images
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- test_py3_fmri_fsl_feeds_linear_l1:
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requires:
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- build_images
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- test_py3_fmri_fsl_reuse_linear_l1:
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requires:
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- build_images
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- test_py3_fmri_spm_dartel_linear_l1:
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requires:
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- build_images
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- test_py3_fmri_spm_dartel_linear_l2:
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requires:
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- build_images
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- test_py3_fmri_spm_linear_3d:
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requires:
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- build_images
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- test_py3_fmri_spm_linear_4d:
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requires:
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- build_images
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- test_py3_fmri_spm_nested_multiproc_l1:
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requires:
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- build_images
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- deploy:
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filters:
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branches:
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only: master
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requires:
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- test_pytest
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- test_py2_fmri_spm_nested_multiproc_l2
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- test_py3_fmri_fsl_feeds_linear_l1
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- test_py3_fmri_fsl_reuse_linear_l1
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- test_py3_fmri_spm_dartel_linear_l1
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- test_py3_fmri_spm_dartel_linear_l2
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- test_py3_fmri_spm_linear_3d
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- test_py3_fmri_spm_linear_4d
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- test_py3_fmri_spm_nested_multiproc_l1

‎.circleci/test_py3_fmri_spm_dartel_linear_l1.sh

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#!/bin/bash
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. test_init.sh
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docker run --rm=false -t -v $WORKDIR:/work -v $HOME/examples:/data/examples:ro -w /work "${DOCKER_IMAGE}:py36" /usr/bin/run_examples.sh fmri_spm_dartel Linear /data/examples/ level1
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exitcode=$?
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. test_complete.sh

‎.circleci/test_py3_fmri_spm_dartel_linear_l2.sh

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#!/bin/bash
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. test_init.sh
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docker run --rm=false -t -v $WORKDIR:/work -v $HOME/examples:/data/examples:ro -w /work "${DOCKER_IMAGE}:py36" /usr/bin/run_examples.sh fmri_spm_dartel Linear /data/examples/ l2pipeline
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exitcode=$?
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. test_complete.sh

‎.circleci/test_py3_fmri_spm_linear_3d.sh

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#!/bin/bash
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. test_init.sh
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docker run --rm=false -t -v $WORKDIR:/work -v $HOME/examples:/data/examples:ro -w /work "${DOCKER_IMAGE}:py36" /usr/bin/run_examples.sh test_spm Linear /data/examples/ workflow3d
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exitcode=$?
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. test_complete.sh

‎.circleci/test_py3_fmri_spm_linear_4d.sh

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#!/bin/bash
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. test_init.sh
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docker run --rm=false -t -v $WORKDIR:/work -v $HOME/examples:/data/examples:ro -w /work "${DOCKER_IMAGE}:py36" /usr/bin/run_examples.sh test_spm Linear /data/examples/ workflow4d
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exitcode=$?
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. test_complete.sh

‎.circleci/test_py3_fmri_spm_nested_multiproc_l1.sh

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#!/bin/bash
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. test_init.sh
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docker run --rm=false -t -v $WORKDIR:/work -v $HOME/examples:/data/examples:ro -w /work -e NIPYPE_NUMBER_OF_CPUS=4 "${DOCKER_IMAGE}:py36" /usr/bin/run_examples.sh fmri_spm_nested MultiProc /data/examples/ level1
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exitcode=$?
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. test_complete.sh

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