Fixes for Installation

[SundousHussein]

1. I believe the issue that we saw before was an issue with setuptools (I executed the following command (sudo apt-get install python3-venv) which seems to have fixed the issue.
2. When creating a virtual environment, please assign a distinct name to it (bioneuralnet) to avoid confusion, also this fixed the source issue (when executing the following command source ./bioneuralnet/bin/activate, I would get a permission denied issue).
3. Now I get the following error from torch installation: ERROR: Could not find a version that satisfies the requirement torch==2.0.0 (from versions: 2.2.0, 2.2.1, 2.2.2, 2.3.0, 2.3.1, 2.4.0, 2.4.1, 2.5.0, 2.5.1)

BioNeuralNet/scripts/setup-env.sh

Line 21 in 571e05c

python3 -m venv .venv

Here are the changes that I needed to make for the script (setup-env.sh) to work:
python3 -m venv ./bioneuralnet
source ./bioneuralnet/bin/activate

[SundousHussein]

I had to update to toch 2.2.0 in requirements.txt to fix the issue above.

[SundousHussein]

We also need to test this on a bare-bone system. My system had R, SmCCNet and other R packages installed.

[ramosv]

This has been address, I tested it by deleting by current enviroment and reinstalling it.

This will be pushed in the next commit to the outstading PR #11