Tom Doel

Hi, there are a few ways to run in a non-interactive/batch mode. - The most powerful way is to use the API in your own Matlab code - [Tutorial 3](https://github.com/tomdoel/pulmonarytoolkit/tree/master/Documentation/PTK%20-%20Tutorial%203.pdf)...

Hi, `PTKSaveAs()` has been replaced with `MimSaveAs()`. Did you see a reference to `PTKSaveAs()` in a tutorial or documentation somewhere? If so I would like to update it. Thanks.

Thanks, I will update the tutorial. I think `MimSaveAs()` takes some additional parameters compared to `PTKSaveAs()` but they are not used unless saving as Dicom. But I will update the...

Hello, what is the PTK issue that are you experiencing? PTK does not use passwords. Your operating system or git client may request passwods under some situations.

Hi Hari, PTK automatically crops the image to what it *thinks* is the lung region of interest (ROI). However, it determines this by segmenting the lung using an air threshold...

I think it's the same reason as before - the Lung Region of Interest (Lung ROI) is wrong. I don't think there's a simple solution in the UI - it...

Hi @jakublaznovsky. Developer mode is enabled by clicking the "Show dev tools" button on the toolbar at the bottom. However, this won't fix your issue if you're planning to use...

Hi @anirban1513, are you trying to load images into the GUI? What happens if you `Import Data` and choose the directory containing your `.nii` file?

Hi. The CSV filename is set in a couple of places. You can modify the code to change this. 1. The output folder where the csv is written is set...

Hi. Thanks for reporting. Tutorial 3 is a bit out of date, so that command will no longer work. The easiest thing to do is import the data using `image_uids...