fix making train val folders if not existent #41
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| name: GitHub Actions Demo | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the main branch | |
| push: | |
| branches: | |
| - '*' # matches every branch that doesn't contain a '/' | |
| - '*/*' # matches every branch containing a single '/' | |
| - '**' # matches every branch | |
| pull_request: | |
| branches: | |
| - '*' # matches every branch that doesn't contain a '/' | |
| - '*/*' # matches every branch containing a single '/' | |
| - '**' # matches every branch | |
| jobs: | |
| Explore-GitHub-Actions: | |
| #runs-on: [self-hosted, linux, X64] | |
| #runs-on: [ubuntu-18.04] | |
| #runs-on: [ubuntu18] | |
| runs-on: [deepNeuro] | |
| container: | |
| image: sipec/sipec:latest | |
| #image: node:13.5.0-alpine3.10 | |
| #image: sipec:sipec | |
| options: --runtime=nvidia | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - name: checkout | |
| uses: actions/checkout@v2 | |
| with: | |
| ref: ${{ github.ref }} | |
| - name: Branch name | |
| run: echo running on branch ${GITHUB_REF##*/} | |
| #- run: git checkout ci_testing | |
| - name: Check GPU availibility | |
| run: python ./tests/gpu.py | |
| - name: Loading modules | |
| run: python ./tests/modules_check.py | |
| - name: download data | |
| run: wget -O animal1234_day1.avi https://www.dropbox.com/s/cwg6ffb03szqepa/animal1234_day1.avi?dl=0 && wget -O mask_rcnn_mouse_0095.h5 https://www.dropbox.com/s/a9vbd02s2pml8l8/mask_rcnn_mouse_0095.h5?dl=0 && wget -O posenet_mouse.h5 https://www.dropbox.com/s/gj9zmgoidk5vcu7/posenet_mouse.h5?dl=0 && wget -O full_inference_posenet_25_June.zip https://www.dropbox.com/s/20jpf2nc2ygodzy/full_inference_posenet_25_June.zip?dl=0 && unzip full_inference_posenet_25_June.zip && rm full_inference_posenet_25_June.zip && wget -O mouse_segmentation_4plex_merged.zip https://www.dropbox.com/s/f2dgpkuwn6mqs7i/mouse_segmentation_4plex_merged.zip?dl=0 && unzip mouse_segmentation_4plex_merged.zip && rm mouse_segmentation_4plex_merged.zip | |
| - name: testing full_inference in docker | |
| run: python ./SwissKnife/full_inference.py --gpu 0 --species mouse --video ./animal1234_day1.avi --posenet_path ./posenet_mouse.h5 --segnet_path ./mask_rcnn_mouse_0095.h5 --max_ids 4 --results_sink ./test/ --config test | |
| - name: testing poseestimation in docker | |
| run: python ./SwissKnife/poseestimation.py --gpu 0 --results_sink ./test --dlc_path ./mouse_pose/OFT/labeled-data/ --segnet_path ./mask_rcnn_mouse_0095.h5 --config poseestimation_config_test | |
| - name: testing Segmentation in docker | |
| run: python ./SwissKnife/segmentation.py --cv_folds 10 --gpu 0 --frames ./full_inference_posenet_25_June/frames --annotations ./full_inference_posenet_25_June/merged.json --config test --model_path /home/user/tests/model --inference_config test |