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nerve-bio / NERVE

NERVE is an user-friendly software environment for the in silico identification of the best vaccine candidates from whole proteomes of bacterial pathogens. The purpose of this project is to update it, implementing new modules with machine learning based methods, and improving the performance of the already implemented ones.
MIT License
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Add uuid and guid to command line script #35

Open FranceCosta opened 5 months ago

FranceCosta commented 5 months ago

I have added them in NERVE.sh as follows:

...
docker run --network nerve-network -p 8880:8880 -it -u $(id -u):$(id -g) -v $(pwd)/:/workdir nerve:$NERVE_VERSION "$@"

and got the following error:

 ./NERVE.sh -epp False -vir True -rz True -p1 UP000000625 -g n -m True -wd ./ecoli
Traceback (most recent call last):
  File "/usr/nerve_python/NERVE/code/NERVE.py", line 20, in <module>
    from code.Epitope import epitope
  File "/workdir/code/Epitope.py", line 4, in <module>
    from epitopepredict import base, plotting
  File "/usr/local/lib/python3.8/site-packages/epitopepredict/__init__.py", line 1, in <module>
    from .base import *
  File "/usr/local/lib/python3.8/site-packages/epitopepredict/base.py", line 45, in <module>
    config_file = config.write_default_config()
  File "/usr/local/lib/python3.8/site-packages/epitopepredict/config.py", line 66, in write_default_config
    os.makedirs(config_path, exist_ok=True)
  File "/usr/local/lib/python3.8/os.py", line 213, in makedirs
    makedirs(head, exist_ok=exist_ok)
  File "/usr/local/lib/python3.8/os.py", line 223, in makedirs
    mkdir(name, mode)
PermissionError: [Errno 13] Permission denied: '/.config'