Protocol

• namespace: common
• slug: agilent-chemstation-raw-to-ids
• version: v2.0.0
• changelog:
  • Changed to a two-step protocol to parse raw Chemstation files to the agilent-chemstation IDS
  • Updated agilent-chemstation-raw-json-to-ids version

Task Script

• namespace: common
• slug: agilent-chemstation-raw-json-to-ids
• version: v2.0.0
• changelog:
  • IDS change from lcuv-chemstation to agilent-chemstation
  • systems updates:
    • component.detectors updated to component.modules, as this should also include parts such as the column compartment, pumps, etc., that are not detectors sensu stricto.
    • component.column added to contain column information, such as a description, length, diameter, particle_size, and various other parameters.
  • users updated to match IDS Convention Version v1.0.0, requirements.
  • samples has been updated to match the IDS Convention Version v1.0.0 required format and to reduce the inclusion of redundant information.
  • methods[] array now has sections for acquisition_method, injection, detectors (previously, the methods section only accepted some basic parameters relevant to DAD detectors), and mobile_phase.
    • acquisition_method is the method name.
    • injection includes parameters relevant to the injection and run, such as the column flow, pressure, temperature, injection volume, and run_length.
    • detectors has four potential objects:
      • uv_vis to capture DAD, MWD, VWD, and similar detectors.
      • charged_aerosol to capture CAD detectors
      • mass_spectrometer to capture MSD detectors.
      • other to capture some basic descriptor information detector not in the types above.
    • mobile_phase includes an array of solvents, a string for elution_mode (isocratic or gradient), and a gradient_table.
  • Changed to results section for organization and logical grouping

Protocol

• namespace: common
• slug: unchained-labs-lunatic-util
• version: v2.5.2
• changelog:
  • Update to use task script common/unchained-labs-lunatic-util:v5.0.2

Task Script

• namespace: common
• slug: unchained-labs-lunatic-util
• version: v5.0.2
• changelog:
  • Update Lunatic Protein Concentration parser to report missing Plate ID