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1550 pl bundle fix #1552

Merged
merged 4 commits into from
Oct 25, 2023
Merged

1550 pl bundle fix #1552

merged 4 commits into from
Oct 25, 2023

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OeslleLucena
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Fixes #1550 .

Description

Add download dataset steps to make the notebook more reproducible.

Checks

  • Avoid including large-size files in the PR.
  • Clean up long text outputs from code cells in the notebook.
  • For security purposes, please check the contents and remove any sensitive info such as user names and private key.
  • Ensure (1) hyperlinks and markdown anchors are working (2) use relative paths for tutorial repo files (3) put figure and graphs in the ./figure folder
  • Notebook runs automatically ./runner.sh -t <path to .ipynb file>

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@ericspod
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We had a temporary fix here #1551 for the notebook issue. The tests have issues with running training in a %%bash cell (ie. in subprocesses) that we need to figure out. This download cell definitely helps but we need to sort CI issues before we can run this and the other bundle notebooks automatically.

@OeslleLucena OeslleLucena marked this pull request as ready for review October 20, 2023 10:45
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@wyli wyli left a comment

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Thanks, it looks good to me.

Signed-off-by: Wenqi Li <831580+wyli@users.noreply.github.com>
@wyli wyli enabled auto-merge (squash) October 25, 2023 19:59
@wyli wyli merged commit 1eec05b into Project-MONAI:main Oct 25, 2023
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boneseva pushed a commit to boneseva/MONAI-tutorials that referenced this pull request Apr 21, 2024
Fixes Project-MONAI#1550  .

### Description
Add download dataset steps to make the notebook more reproducible.

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [x] Avoid including large-size files in the PR.
- [x] Clean up long text outputs from code cells in the notebook.
- [x] For security purposes, please check the contents and remove any
sensitive info such as user names and private key.
- [x] Ensure (1) hyperlinks and markdown anchors are working (2) use
relative paths for tutorial repo files (3) put figure and graphs in the
`./figure` folder
- [ ] Notebook runs automatically `./runner.sh -t <path to .ipynb file>`

---------

Signed-off-by: OeslleLucena <oeslle.lucena@gmail.com>
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05_spleen_segmentation_lightning
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