[anaconda] Reorg Dockerfile instructions to resolve issue with group permissions and PIP

[alexander-smolyakov]

Devcontainer name:

• anaconda

Description:

This PR addresses the [Errno 13] Permission denied error that recently appeared during anaconda devcontainer smoke testing. The error relates to the fact that when PIP installs updates for Python packages, it's not preserving group permissions which results in flipping the group write permission bite:

Without running pip install:

vscode ➜ ~ $ tree -ugp -L 1 /opt/conda/lib/python3.10/site-packages/
/opt/conda/lib/python3.10/site-packages/
...
├── [drwxrwsr-x root     conda   ]  cookiecutter
├── [drwxrwsr-x root     conda   ]  cookiecutter-1.7.3.dist-info
├── [drwxrwsr-x root     conda   ]  cryptography
├── [drwxrwsr-x root     conda   ]  cryptography-39.0.1.dist-info

With running pip install:

vscode ➜ ~ $ tree -ugp -L 1 /opt/conda/lib/python3.10/site-packages/
/opt/conda/lib/python3.10/site-packages/
...
├── [drwxr-sr-x root     conda   ]  cookiecutter
├── [drwxr-sr-x root     conda   ]  cookiecutter-2.1.1.dist-info
├── [drwxr-sr-x root     conda   ]  cryptography
├── [drwxr-sr-x root     conda   ]  cryptography-40.0.2.dist-info

Fix:

We need to reorg several instructions in Dockerfile to ensure the site-packages directory has the correct permissions for all packages.

Changelog:

• Updated Dockerfile instructions and they order to address issues with PIP and group permission;
• Removed temp security patches that are no longer actual;
• Added missing tests for Python packages version check;

[samruddhikhandale]

Looks great, thank you!