Generic_Bead_CleanUp

Generic_Bead_CleanUp is a flexible Hamilton method created for bead-based cleanups at the Wellcome Sanger Institute.
It addresses a common problem in laboratory automation: method proliferation.
Too often, new methods are only marginally different yet require separate maintenance.
This framework standardises cleanup methods, making them easier to maintain, extend, and deploy across multiple pipelines.

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Features

• Centralised Version Control
  One method for all cleanups, ensuring updates are rolled out consistently across instruments.
• Pipeline-Specific Parameters
  Run details are stored in a JSON file, guaranteeing that each workflow uses the correct parameters for its samples.
• Extensible Workflows
  New pipelines and labware can be added without modifying the Hamilton method itself.

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Adding New Workflows

All configurable variables are defined in \.config.
To add a new workflow:

1. Create a copy of Example.json.
2. Update the values to match your workflow.
   • Do not rename properties
   • Use a JSON-aware text editor to minimise errors.
3. Add the name of your workflow to "Approved_Pipelines" at the top of LabwareInstrumentConfig.json.

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Requirements

Hamilton

• VENUS 4.5.0.7977
• Required libraries:
  • load_instructions.smt
  • HSLStrLib.hsl
  • HSLSeqLib.hsl
  • HSLML_STARLib.hsl
  • HslHamHeaterShakerLib.hsl
  • VirtualLabware_V2.hsl
  • HSLDevLib.hsl
  • ASWStandard\TraceLevel\TraceLevel.hsl
  • CheckCarrierPresence (All)\CheckCarrierPresenceAbsence.smt
  • Nested Tip Racks (All)\NTRDirectUse_WGSPCRXP\NTRDirectUse_WGSPCRXP.smt

Sanger

• Required libraries:
  • WSI\JSONSearch\JSONSearch.smt
  • WSI\HSLGetSerialNumber\HSLGetSerialNumber_WSI.hsl

👉 Sanger-created libraries can be found here: Hamilton-Submethod-Libraries

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Support

For questions or support, contact:

• Chris Henderson
  📧 ch33@sanger.ac.uk
  🧑‍💻 GitHub: ChrisH33
  💬 Slack