Fixes # .

### Description
A few sentences describing the changes proposed in this pull request.

### 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
- [x] Notebook runs automatically `./runner.sh -t <path to .ipynb file>`

---------

Signed-off-by: Can Zhao <canz@cw-dfw-cs-001-vscode-01.cm.cluster>
Co-authored-by: Can Zhao <canz@cw-dfw-cs-001-vscode-01.cm.cluster>

Fixes Project-MONAI#2031.

### Description
This will change the failing CICD check to use Github CPU runners.

### 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
- [x] Notebook runs automatically `./runner.sh -t <path to .ipynb file>`

---------

Signed-off-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>
Co-authored-by: YunLiu <55491388+KumoLiu@users.noreply.github.com>

Workaround for Project-MONAI#2029 

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [ ] 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>`

Signed-off-by: Yun Liu <yunl@nvidia.com>

…AI#2025)

### Summary
Add a Colab-specific setup and troubleshooting section to README to help
users run MONAI tutorials reliably on Google Colab.

### Changes
- Document explicit installation of PyTorch 2.6.0 (CUDA 12.4) and MONAI
1.5 on Colab
- Add troubleshooting notes (torchaudio mismatch, filelock conflict,
num_workers warning)
- Include a quick smoke test command to verify the setup

### Motivation
Many users start with Colab and often hit dependency conflicts. This
section improves first-time success and reproducibility.

---------

Signed-off-by: minsu <minsu.kim08@gmail.com>
Signed-off-by: Minsu Kim <60283244+minsuking@users.noreply.github.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

Fixes Project-MONAI#2013.

### Description
This fixes a minor typo in one notebook.

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [ ] 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>`

Signed-off-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

…ing (Project-MONAI#2000)

Fixes # .

1. Bug in KL_loss calculation for VAE validation step during training

### Description
The KL_loss is included in the Validation loss calculation during
VAE-training validation step. However, the correct z_mu, z_sigma are not
passed. Either this val_epoch_losses["kl_loss"] should always be zero if
that was the intension or the correct z_mu, z_sigma should be passed.

### 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.

---------

Signed-off-by: Muhammad Nabi Yasinzai <muhammad.nabi.yasinzai@gmail.com>
Co-authored-by: Can Zhao <69829124+Can-Zhao@users.noreply.github.com>
Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

Fixes Project-MONAI#2015  .

### Description
Added explanation of datalist format for easier quick-start for new
users interested in using the Auto3DSeg AutoRunner. Also simplified the
datalist explanation in `run_with_minimal_input.md`, and specified that
the `msd_datalist_generator.ipynb` notebook is only used to generate a
datalist with cross-validation folds from an existing MSD dataset (and
renamed it accordingly to `msd_crossval_datalist_generator.ipynb`).

New users landing on the main README of the Auto3DSeg tutorial will now
directly see how to create a datalist for their own data, and can easily
find where further steps are described.

I also removed a paragraph on epoch/iteration numbers from
the`auto_runner.ipynb` that is no longer relevant since MONAI v1.1.

There is a corresponding PR
[here](Project-MONAI/MONAI#8539) that contains
improvements to the MONAI library with regards to the datalist format.

### 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.
- [ ] 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>`

---------

Signed-off-by: Daniël Nobbe <daniellnobbe@gmail.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

### Summary
Fix a minor typo: "UNet_meatdata" → "UNet_metadata".

### Why
Correct spelling improves clarity and avoids confusion.

### Changes
- Updated spleen_segmentation_3d_visualization_basic.ipynb to use
correct key `UNet_metadata`.

### Validation
- Searched repository for `meatdata` to confirm no other occurrences.

### Issue
Fixes tutorials#2015

### Notes
- Documentation only, no code logic changes.

---------

Signed-off-by: minsu <minsu.kim08@gmail.com>
Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

Fixes Project-MONAI#2044 .

### Description
Fix no space left on device in build workflow

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [ ] 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>`

---------

Signed-off-by: Yun Liu <yunl@nvidia.com>

Fixes Project-MONAI#2035 .

### Description
Fix typo in readme of MAISI

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [ ] 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>`

Signed-off-by: Can Zhao <69829124+Can-Zhao@users.noreply.github.com>
Co-authored-by: YunLiu <55491388+KumoLiu@users.noreply.github.com>

<!--pre-commit.ci start-->
updates:
- [github.com/pre-commit/pre-commit-hooks: v5.0.0 →
v6.0.0](pre-commit/pre-commit-hooks@v5.0.0...v6.0.0)
- https://github.com/psf/black →
https://github.com/psf/black-pre-commit-mirror
- [github.com/psf/black-pre-commit-mirror: 25.1.0 →
25.9.0](psf/black-pre-commit-mirror@25.1.0...25.9.0)
<!--pre-commit.ci end-->

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: YunLiu <55491388+KumoLiu@users.noreply.github.com>

Fixes Project-MONAI#2029.

### Description
This attempts to fix the `itkwidgets` and `pydicom_seg` issues with this
notebook. @ericspod has tested the notebook locally through Jupyter on
Windows and got (mostly) eveything to work, but it appears to not render
the ITK cells under Colab.

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [ ] 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>`

---------

Signed-off-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

…lease return values (SeriesInstanceUID). (Project-MONAI#2046)

Fixes Project-MONAI#2029.

### Description
Fix tcia_utils issues loading metadata df to support latest v3.2.1
release return values (SeriesInstanceUID).

This tutorial demonstrates how to deploy MONAI model bundles as
production-ready REST APIs using FastAPI.

Features:
- Complete FastAPI application with inference endpoints
- MONAI model bundle integration (spleen_ct_segmentation)
- Singleton pattern for efficient model loading
- Async/await for optimal performance
- Pydantic validation for type safety
- Auto-generated API documentation (Swagger/ReDoc)
- Docker deployment with multi-stage builds
- Comprehensive unit tests
- Example client code and HTTP requests
- Production-ready error handling and logging

Structure:
- app/: FastAPI application code
- tests/: Unit test suite
- docker/: Containerization configs
- examples/: Usage examples
- README.md: Complete tutorial documentation

Addresses Project-MONAI#2048

Fixes # .

### Description
A few sentences describing the changes proposed in this pull request.

### Checks
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [ ] 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>`

---------

Signed-off-by: Mohamed Salah <eng.mohamed.tawab@gmail.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

Fixes # .

### Description
A few sentences describing the changes proposed in this pull request.

### 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: Can-Zhao <canz@nvidia.com>
Signed-off-by: Yun Liu <yunl@nvidia.com>
Signed-off-by: root <root@pool0-01907.cm.cluster>
Signed-off-by: Can-Zhao <volcanofly@gmail.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Yun Liu <yunl@nvidia.com>
Co-authored-by: root <root@pool0-01907.cm.cluster>