Maintenance tool revision

[CBroz1]

Description

This PR makes a series of changes to update our maintenance tools, revising the cron job process:

• nightly_cleanup -> cleanup: no need to specify inaccurate frequency
• Revise cleanup.py to clean schema externals and delete temp files more than 1 week old.
• Add run_jobs.sh script to be set as cron job and corresponding README
• Modify alter_tables script to run on all tables.
• Sort SHARED_MODULES for readability and remove unused prefix
• Modify IntervalList.insert calls to never skip duplicates

Checklist:

• No This PR should be accompanied by a release: (yes/no/unsure)
• N/a If release, I have updated the CITATION.cff
• No This PR makes edits to table definitions: (yes/no)
• N/a If table edits, I have included an alter snippet for release notes.
• N/a If this PR makes changes to position, I ran the relevant tests locally.
• I have updated the CHANGELOG.md with PR number and description.
• Yes I have added/edited docs/notebooks to reflect the changes

[edeno]

Just one minor comment about folder name.

One thing that might be useful is for the script to warn us (by email perhaps?) if it fails to run. These scripts often are set and forget but if they stop working we want to know.

[edeno]

Do we want to call this franklab scripts or something more general that other labs can repurpose?

[CBroz1]

Happy to rename, maybe maintenance_scripts? Is it worth moving these .py files into the package itself and then maybe putting the .sh in the docs, to cut down on the root level folders?

[edeno]

That works for me.

[edeno]

Hm also not sure why the tests are suddenly failing.

[CBroz1]

Hm also not sure why the tests are suddenly failing.

It looks like this is happening when replace=True for exact duplicates in IntervalList. Might call for a more lightweight version of #943. I'll see what I can do