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