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dengzac / contig-extender

GNU General Public License v3.0
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extender_wrapper not found #4

Open magadancito opened 3 years ago

magadancito commented 3 years ago

Hi dear dengzac, I had a problem with the run of extender_wrapper, I have Ubuntu 18.04 and python 3.7. I install all libraries recommended and the distutils module and its impossible run the script, I attach the error message:

Traceback (most recent call last): File "extender_wrapper.py", line 16, in File "extender/extender.pyx", line 19, in init extender from distutils.version import LooseVersion ModuleNotFoundError: No module named 'distutils.version' [5053] Failed to execute script extender_wrapper

dengzac commented 3 years ago

Are you running the precompiled binary at dist/extender_wrapper? It should include all needed libraries. Also, does the import work if you run it in the python interpreter?

Anna-pro commented 3 years ago

Hello! I have the same issue:

@name_login dist]$ ./extender_wrapper -h Traceback (most recent call last): File "extender_wrapper.py", line 16, in File "extender/extender.pyx", line 19, in init extender ModuleNotFoundError: No module named 'distutils' [12091] Failed to execute script extender_wrapper

I was running from compiled folder "dist", use linux and python 3.7. I have installed it using the command: sh ./build.sh, which ends with "Build successful: output dist/extender_wrapper". Just "./build.sh" didn't work due to this error: -bash: ./build.sh: Permission denied

xutaodeng commented 3 years ago

Use the precompiled dist/extender_wrapper is the preferred way. It should include every required components

SamMcGreig commented 3 years ago

I am also getting the same issue as @Anna-pro. This issue persists with both the precompiled dist/extender_wrapper and one I built using the build.sh file. Running from distutils.version import LooseVersion in the python interpreter seems to work, so I am unsure what is causing this problem.

As an aside, is it possible to have this tool available as a conda package?

xutaodeng commented 3 years ago

This seems to be caused by a bug in PyInstaller: https://github.com/pyinstaller/pyinstaller/issues/4064 The tool is now distributed as a Docker container instead. Please pull the latest master branch and let me know if the issue persists. I'll look into creating a conda package.