TotalSegmenter looks for a non-existant archve file

Support
1

When I try to run TotalSegmenter with the sample data ( in Slicer 5.3.0), I get this message

Traceback (most recent call last):
File “C:\Users\Gene\AppData\Local\NA-MIC\Slicer 5.3.0-2023-01-27\bin\Python\slicer\util.py”, line 2973, in tryWithErrorDisplay
yield
File “C:/Users/Gene/AppData/Local/NA-MIC/Slicer 5.3.0-2023-01-27/NA-MIC/Extensions-31549/TotalSegmentator/lib/Slicer-5.3/qt-scripted-modules/TotalSegmentator.py”, line 255, in onApplyButton
self.logic.setupPythonRequirements()
File “C:/Users/Gene/AppData/Local/NA-MIC/Slicer 5.3.0-2023-01-27/NA-MIC/Extensions-31549/TotalSegmentator/lib/Slicer-5.3/qt-scripted-modules/TotalSegmentator.py”, line 624, in setupPythonRequirements
slicer.util.pip_install(self.totalSegmentatorPythonPackageDownloadUrl)
File “C:\Users\Gene\AppData\Local\NA-MIC\Slicer 5.3.0-2023-01-27\bin\Python\slicer\util.py”, line 3586, in pip_install
_executePythonModule(‘pip’, args)
File “C:\Users\Gene\AppData\Local\NA-MIC\Slicer 5.3.0-2023-01-27\bin\Python\slicer\util.py”, line 3548, in _executePythonModule
logProcessOutput(proc)
File “C:\Users\Gene\AppData\Local\NA-MIC\Slicer 5.3.0-2023-01-27\bin\Python\slicer\util.py”, line 3517, in logProcessOutput
raise CalledProcessError(retcode, proc.args, output=proc.stdout, stderr=proc.stderr)
subprocess.CalledProcessError: Command '[‘C:/Users/Gene/AppData/Local/NA-MIC/Slicer 5.3.0-2023-01-27/bin/…/bin\PythonSlicer.EXE’, ‘-m’, ‘pip’, ‘install’, 'https://github.com/wasserth/TotalSegmentator/archive/ecf84f9e59b84dddb447e2b13542f58c29ee4c6a.zip’]’ returned non-zero exit status 1.

I found that the archive does not exist online. How can I fix this?

Thank you!

Gene Risi

2

If the https://github.com/wasserth/TotalSegmentator/archive/ecf84f9e59b84dddb447e2b13542f58c29ee4c6a.zip is not accessible for you then it means that you have a network connectivity problem.

If you want to get more details on why the installation fails, exit Slicer and launch this in a Windows Command Prompt:

"C:\Users\Gene\AppData\Local\NA-MIC\Slicer 5.3.0-2023-01-27\bin\PythonSlicer.EXE" -m pip install https://github.com/wasserth/TotalSegmentator/archive/ecf84f9e59b84dddb447e2b13542f58c29ee4c6a.zip

1 Like
3

Thank you, Andras! That worked and now things are running :grinning:

4

Where can we get the information about available GitHub archive files for this and other projects?

5

Github accepts any branch name or commit hash as .zip file name.

6

Sry, but where did you find the hash.zip? If I enter https://github.com/wasserth/TotalSegmentator/archive/
it does not show what zip files are available. Should we just use a commit hash?

7

You can find commit hashes in the commit history.

1 Like