Running redund; Access is denied.

[aragorn67]

Hi, i tried to test ecmtool with this command in the ecmtool folder, python main.py --model_path .\models\e_coli_core_rounded.xml, get this error File "C:\Users\a.antonakoudis\OneDrive - Sartorius Corporate Administration GmbH\Documents\Projects\Media Design\ecmtool\ecmtool\helpers.py", line 478, in redund raise ValueError('An error occurred during removal of redundant vectors from an input matrix: ' ValueError: An error occurred during removal of redundant vectors from an input matrix: redund did not write an output file after being presented input file "%s". Please check if your input matrix contains erroneous data, and let us know via https://github.com/SystemsBioinformatics/ecmtool/issues if you think the input matrix seems fine. It helps if you attach the matrix file mentioned above when creating an issue.

I've attached the tmp/matrix0.ine matrix0.txt

[tjclement]

Hi @aragorn67, thanks for reporting this. When we run the command you ran (python main.py --model_path .\models\e_coli_core_rounded.xml) on a freshly installed Windows machine, it completes without errors:

Enumerated 739 rays
Found 732 ECMs
Ran in 15.415319 seconds

Something you can check to debug this:

• Try downloading ecmtool to a local folder instead of your OneDrive. If that fixes the problem, ask your administrators to allow execution permissions on OneDrive, as ecmtool runs programs from there.

[aragorn67]

Thank you that was the problem!

[tjclement]

Glad to hear! We'd love to hear more from you if ecmtool proves useful to your work 👍