https://github.com/int-brain-lab/iblalyx

https://github.com/int-brain-lab/iblalyx

Last synced: about 1 month ago
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• Host: GitHub
• URL: https://github.com/int-brain-lab/iblalyx
• Owner: int-brain-lab
• License: mit
• Created: 2021-04-23T13:24:00.000Z (over 3 years ago)
• Default Branch: main
• Last Pushed: 2024-11-01T20:42:17.000Z (about 2 months ago)
• Last Synced: 2024-11-01T21:24:41.132Z (about 2 months ago)
• Language: Python
• Size: 23.5 MB
• Stars: 0
• Watchers: 6
• Forks: 0
• Open Issues: 12
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# iblalyx

The `scripts` folder contains one offs, or manual scripts to perform specific interventions or queries and report.

The `management` folder is meant to populate an alyx django application to be used within the scope of the manage commands.

In practice a symlink sends the ibl.py file and the private package _ibl to the alyx app via the following command on the server:

```

ln -s ~/iblalyx/management/commands/_ibl /var/www/alyx-main/alyx/data/management/commands/_ibl

ln -s ~/iblalyx/management/commands/ibl.py /var/www/alyx-main/alyx/data/management/commands/ibl.py

# to link the ibl_reports page

ln -s ~/iblalyx/management/ibl_reports /var/www/alyx-main/alyx/ibl_reports

ln -s ~/iblalyx/management/ibl_reports/templates /var/www/alyx-main/alyx/templates/ibl_reports

```

## Commands

### histology_assign_update

- Randomly assign ephys insertions to an experimenter to do the histology alignment (the algorithm will assign in priority the experimenter with the least N alignment to do).

- Check whether the insertion has histology alignment done, whether it is critical and contains all datasets required.

- Update the G-Sheet: https://docs.google.com/spreadsheets/d/1nidCu7MjLrjaA8NHWYnJavLzQBjILZhCkYt0OdCUTxg/edit#gid=1160679914