uab-cgds-worthey / learnings_journal Goto Github PK

In GitLab by @Deeptha on Jul 23, 2021, 16:25

Merges rc_scripts -> master

I created scripts for recommended and required functions and aliases, .requiredcrc and .recommendedrc.

Things to check/review:

• review the organization of the scripts (all aliases and functions are in their appropriate script)
• review documentation on usage

How this was tested:
I exported the scripts from /data/project/worthey_lab/projects/experimental_pipelines/deeptha and tested each alias and function individually to ensure they work. All aliases and function successfully worked.

Initiating remote tunnel resulted in error:

*
* Visual Studio Code Server
*
* By using the software, you agree to
* the Visual Studio Code Server License Terms (https://aka.ms/vscode-server-license) and
* the Microsoft Privacy Statement (https://privacy.microsoft.com/en-US/privacystatement).
*
[2024-02-05 11:08:49] error This machine does not meet Visual Studio Code Server's prerequisites, expected either...:   - find GLIBC >= v2.28.0 (but found v2.17.0 instead) for GNU environments
  - find /lib/ld-musl-x86_64.so.1, which is required to run the Visual Studio Code Server in musl environments

Merges vscode_tunnel -> master

This MR adds a helper script that makes initiating a visual studio code remote tunnel in cheaha easier. It performs the following tasks:

• creates and submits sbatch script to slurm
• waits for slurm job to start running and displays its log file to show github url and access code, which are needed to access the remote tunnel in VScode
• provides reasonable defaults