Add support for new sequencer, improve tests and logging, and enhance container robustness

[saramonzon]

Summary

This PR introduces support for a new sequencing machine, improves testing infrastructure, enhances logging consistency, and strengthens container deployment robustness. It also addresses multiple issues related to crontab behavior, sample sheet parsing, and test reliability.

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Test Infrastructure

• Added new test coverage for the new sequencing machine
• Removed nologin user from tests
• Fixed multiple issues in tests after new machine inclusion
• Disabled mail sending on error in test configuration
• Added groups to admin user in test setup
• Added checks to ensure the latest code is installed in containers during testing

Sequencer & Data Handling

• Added support for new sequencer in initial install tables
• Fixed run folder naming for the new machine
• Added support for new SampleSheet format and updated demultiplexing stats path
• Adapted parsing of run info and run parameters for new MiSeq tags

Logging & Debugging

• Fixed logger inconsistency causing missing logs in update_crontab
• Added additional logging to improve debugging
• Improved error messaging when interop graphs are not generated
• Added better stale image diagnosis

Container & Deployment Improvements

• Improved safety of rootless Podman containers
• Added correct permissions when copying demo data into containers
• Added git revision reference to ensure current code is used during testing
• Installed gnuplot via EPEL (required as it is not available in UBI9)

Pipeline & Tooling

• Reverted to using interop CLI for graph generation

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Related Issues

Closes #390 — Fix logger inconsistency preventing errors from being written to update_crontab log
Closes #388 — Create test data for iskylims for new sequencer and SampleSheet v2 support
Closes #387 — Update iskylims crontab to look up Runs for new sequencer

[Aberdur]

LGTM! 🚀