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Remi-GauRemi-Gau
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update circle ci config
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‎.circleci/config.yml‎

Lines changed: 74 additions & 43 deletions
Original file line numberDiff line numberDiff line change
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version: 2
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general:
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artifacts:
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- "~/outputs"
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machine:
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services:
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- docker
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dependencies:
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cache_directories:
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- "~/docker"
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- "~/data"
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override:
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# google drive link to test data, thanks to Gael V. and Chris G.
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# https://googledrive.com/host/0B2JWN60ZLkgkMEw4bW5VUUpSdFU/ds005-deriv-light.tar
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- if [[ ! -d ~/data/ds005-deriv-light/derivatives ]]; then wget -c -P ${HOME}/downloads/ -O ds005-deriv-light.tar "https://files.osf.io/file?path=%2F57e549c2b83f6901d357d15f&provider=osfstorage&nid=9q7dv&accept_url=false&action=download" && mkdir -p ${HOME}/data && tar xf ${HOME}/downloads/ds005-deriv-light.tar -C ${HOME}/data; fi
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- if [[ -e ~/docker/image.tar ]]; then docker load -i ~/docker/image.tar; fi
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- git describe --tags > version
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- docker build -t bids/${CIRCLE_PROJECT_REPONAME,,} . :
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timeout: 21600
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- mkdir -p ~/docker; docker save "bids/${CIRCLE_PROJECT_REPONAME,,}" > ~/docker/image.tar
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- mkdir -p ${HOME}/outputs
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test:
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override:
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- docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs participant --participant_label 01 :
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timeout: 21600
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- docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs participant --participant_label 02 :
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timeout: 21600
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- docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs participant --participant_label 03 :
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timeout: 21600
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- docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs group :
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timeout: 21600
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deployment:
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hub:
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owner: BIDS-Apps
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tag: /.*/
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commands:
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- if [[ -n "$DOCKER_PASS" ]]; then docker login -e $DOCKER_EMAIL -u $DOCKER_USER -p $DOCKER_PASS && docker push bids/${CIRCLE_PROJECT_REPONAME}:latest; fi :
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timeout: 21600
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- if [[ -n "$DOCKER_PASS" ]]; then docker login -e $DOCKER_EMAIL -u $DOCKER_USER -p $DOCKER_PASS && docker tag bids/${CIRCLE_PROJECT_REPONAME} bids/${CIRCLE_PROJECT_REPONAME}:$CIRCLE_TAG && docker push bids/${CIRCLE_PROJECT_REPONAME}:$CIRCLE_TAG; fi :
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timeout: 21600
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jobs:
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build:
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machine:
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# https://circleci.com/developer/machine/image/ubuntu-2204
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image: ubuntu-2204:2022.10.2
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steps:
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- checkout
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- restore_cache:
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keys:
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- my_cache
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# google drive link to test data, thanks to Gael V. and Chris G.
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# https://googledrive.com/host/0B2JWN60ZLkgkMEw4bW5VUUpSdFU/ds005-deriv-light.tar
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- run: if [[ ! -d ~/data/ds005-deriv-light/derivatives ]]; then wget -c -P ${HOME}/downloads/ -O ds005-deriv-light.tar "https://files.osf.io/file?path=%2F57e549c2b83f6901d357d15f&provider=osfstorage&nid=9q7dv&accept_url=false&action=download" && mkdir -p ${HOME}/data && tar xf ${HOME}/downloads/ds005-deriv-light.tar -C ${HOME}/data; fi
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- run: git describe --tags --always > version
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- run:
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command: docker build -t bids/${CIRCLE_PROJECT_REPONAME,,} .
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no_output_timeout: 6h
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- run: mkdir -p ~/docker; docker save "bids/${CIRCLE_PROJECT_REPONAME,,}" > ~/docker/image.tar
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- run: mkdir -p ${HOME}/outputs
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- run:
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command: docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs participant --participant_label 01
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no_output_timeout: 6h
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- run:
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command: docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs participant --participant_label 02
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no_output_timeout: 6h
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- run:
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command: docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs participant --participant_label 03
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no_output_timeout: 6h
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- run:
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command: docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds005-deriv-light:/bids_dataset -v ${HOME}/outputs:/outputs bids/${CIRCLE_PROJECT_REPONAME,,} /bids_dataset /outputs group
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no_output_timeout: 6h
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- save_cache:
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key: my_cache
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paths:
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- "~/docker"
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- "~/data"
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deployment:
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docker:
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- image: circleci/buildpack-deps:stretch
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steps:
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- attach_workspace:
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at: /tmp/workspace
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- setup_remote_docker
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- run: docker load -i /tmp/workspace/image.tar
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- run:
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command: if [[ -n "$DOCKER_PASS" ]]; then docker login -e $DOCKER_EMAIL -u $DOCKER_USER -p $DOCKER_PASS && docker push bids/${CIRCLE_PROJECT_REPONAME}:latest; fi
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no_output_timeout: 6h
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- run:
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command: if [[ -n "$DOCKER_PASS" ]]; then docker login -e $DOCKER_EMAIL -u $DOCKER_USER -p $DOCKER_PASS && docker tag bids/${CIRCLE_PROJECT_REPONAME} bids/${CIRCLE_PROJECT_REPONAME}:$CIRCLE_TAG && docker push bids/${CIRCLE_PROJECT_REPONAME}:$CIRCLE_TAG; fi
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no_output_timeout: 6h
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workflows:
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version: 2
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build-test-deploy:
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jobs:
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- build:
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filters:
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tags:
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only: /.*/
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- deployment:
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requires:
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- build
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filters:
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branches:
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ignore: /.*/
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tags:
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only: /.*/
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# VS Code Extension Version: 1.5.1

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