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Automatically install missing packages #43

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merged 10 commits into from
Jul 16, 2024
Merged

Automatically install missing packages #43

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a1173e3
fixes #36 import missing packages. Removed PyQt5 import- all through qt
laurentletg Jul 12, 2024
6a5de7c
added config for window width and level if CT and warning message in…
laurentletg Jul 12, 2024
2d150e5
Fixed .ui error introduced on my laurent branch. Cleaned some code.
laurentletg Jul 12, 2024
e7e310f
Moved imports after check_and_install_python_packages()
jcohenadad Jul 12, 2024
2c14261
Loop through all packages and install them at once
jcohenadad Jul 12, 2024
af0fdab
Added other packages
jcohenadad Jul 12, 2024
dbed0c8
Import qt before package install
jcohenadad Jul 12, 2024
ce20a32
Removed package installation from README troubleshooting
jcohenadad Jul 12, 2024
3732069
Removed mention of requirements.txt
jcohenadad Jul 12, 2024
75d6b83
No need to import qt twice
jcohenadad Jul 16, 2024
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16 changes: 1 addition & 15 deletions README.md
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Expand Up @@ -67,22 +67,8 @@ Although it may work on other versions and/or operating system, please note that
8. (Optional) Set the SlicerCART module to launch at 3DSlicer startup. To do so, go to `Edit -> Application Settings -> Modules -> Default startup module`

### Trouble shooting

* Qt might need to be installed. The first five steps of the following procedure might be useful for this: [procedure](https://web.stanford.edu/dept/cs_edu/resources/qt/install-mac).
* If some modules are missing (`ModuleNotFoundError`), they must be added to the 3D Slicer environment by using the following commands in the Python Console:
`from slicer.util import pip_install`
`pip_install("XYZ")` where `XYZ` is replaced by the proper library

> Minimally the following packages are not already available (copy and paste in the 3D Slicer python interactor):
>

```py
slicer.util.pip_install('pandas')
slicer.util.pip_install('nibabel')
slicer.util.pip_install('pynrrd')
slicer.util.pip_install('pyyaml')
slicer.util.pip_install('slicerio')
slicer.util.pip_install('PyQt5')
```

### Other extensions that could be useful
* `SlicerJupyter` to be able to use Jupyter Notebooks connected to 3D Slicer.
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