Release Notes DACA 6.3.0

Discngine assay Cloud Analytics, version 6.3.0

Release Date: 19/12/2023

General

Improvements

5732 - Update Pipeline Pilot to 2023 version + Test
- The applications are now fully compatible with Pipeline Pilot 2023.
- The older version of Pipeline Pilot is no longer supported.
10324 - Improve standard security with Pipeline Pilot for Assay
- When using Pipeline Pilot, the security to connect to the server has been enforced.
5731 - Update Spotfire to version 12 + Test
- The applications are now fully compatible with TIBCO Spotfire 11.4 and 12.0.

Reference Data

New Features

Annotations management: an annotation is an attribute that can be added, deleted, or modified for one or more objects in one or more applications. In Reference Data, you can annotate many objects from many applications (Sample, Assay). For more details, see the user guide.
- Part of 9947 - Assay: Add control vocabularies in the Well Validation, Reference Analysis, and Sample Analysis step
10349 - Rethink usage of controlled vocabulary in Reference Data

Sample

New Features

10632 - Dispense a volume from vial(s)
- A new dispensing vial workflow is now available. It allows users to register a manual dispense in one or more vials. This workflow is accessible as the others from the "Create new job" page in the section Update. A quick access version of this workflow is also available from the Vial/Rack Search pages, and Vial/Rack Details pages, by using the Utilities panel on the right side of these pages.
9740 - Include the Survey in the "Update Inventory from File" workflow
- The "Update Inventory From File" is able to do a Survey.
- A new robotic parser should be declared in the administration using the move type "SURVEY".
10294 - "Update inventory from file" workflow can handle racks and vials
- The "Update Inventory From File" is able to update the vials' position in racks.
- A new robotic parser should be declared in the administration using the move type "VIAL".
10293 - Invalidate wells for the "Update Inventory from File" workflow
- The wells have a new status: valid or invalid.
- By default, all wells are valid. For now, only robotic parsers can define when wells become invalid.
- The validity of the wells is displayed on the plate detail page on the plate viewer.
- The well validity is always transferred when doing a transformation (cherry-picking, compression, decompression, or replication).
11079 - Control Layout in Sample
- Control layouts (and well types) can be used in Sample.
- Control layouts declared in the Assay module can be applied to any plates in the inventory:
  - multiple plates on the plates list page
  - individually on the plate detail page
  - when creating new plates during a workflow (including the reception) at the Storing (Output) step
- The well types are automatically transferred from one plate to another when doing a transformation.
9699 - Create a parser for the Echo 655 and 550 robotics equipment
- Two new robotic parsers are available: Echo 655 and Echo 550.
- The following columns are retrieved:
  - Source Plate Barcode
  - Source Well
  - Destination Plate Barcode
  - Destination Well
  - "Destination Plate Type" or "Destination Plate Name": needed to create the new plate
  - Actual Volume: volume to be transferred in the "Destination Well" (always nL)
  - Current Fluid Volume: used to update the source quantity when an exception is generated (always uL)
  - % DMSO: source wells are updated with these values and stored as metadata if the "% DMSO" is declared in Reference Data
9716 - Registration improvements
- The registration workflows can now be used with custom parsers in order to accommodate file formats that cannot be read by the file mapper and streamline the registration process in Sample.
11102 - Add referential to batch type
- For each of the available batch types, you can add Oracle functions to retrieve data from a referential system. This enables you to ensure that the information of your batches comes from a reliable and centralized source.
11061 - Add/modify annotations at Storing (output) step
- You can now add annotations (metadata) from the Storing (output) step of your jobs. This option is only available as long as the job is open. Once the job is closed, the option is locked.

Improvements

10147 - Rework of the "Transform Plate From File" workflow
- The "Transform Plate from File" has been renamed to "Update Inventory From File" to reflect the usage of the workflow.

Bugs resolved

8706 - Transform Plates from File does not work with a container-oriented robotic equipment
- The container-oriented robotic equipment can be used with the "Transform Plate From File" workflow without errors.
- Additionally, the robotic equipment with a worklist generator is now available for this workflow, even if the generator is not used.
11024 - The application fails to produce unique job names if there are deleted jobs
- The application was previously counting the number of jobs of a certain type for the current day in order to generate the default job name, which could lead to a collision with existing names in specific circumstances. The default name generation has been adapted to avoid this issue.

Assay

New Features

9682 - Assay - Multiple Reader
- The start of a run has been redesigned.
  - The already existing mode "Design from template" has been clearly defined.
- The File reading page has been completely redesigned.
  - You can now use more than one reader in the entry of a run.
  - Old readers may need an upgrade to work with this feature. Reach the assay team if you want to upgrade it.
8782 - Assay: Revamp the analysis steps with Spotfire without refreshing the page
- In both Pipeline Pilot and Spotfire, the look and feel of the Well Validation, Reference Analysis, Sample Analysis, and cross runs pages have been improved.
- In Design mode, you can add normalizations and automatic analysis from a modal page.
  - With Spotfire, you are no longer redirected to the waiting page, the data is automatically refreshed when data is added or removed.
  - With Spotfire, you can validate/invalidate/revalidate any data without refreshing the page. You can continue your analysis during the calculation, your marked data will be kept.
  - With Spotfire, you can switch from another template to a modal accessible from the parameter at the top right of the page
9947 - Assay: Add control vocabularies in the Well Validation, Reference Analysis, and Sample Analysis step
- Annotations have been added in Assay.
- Annotations are managed in the Reference Data application. You can now annotate wells, and plates aggregated, and validated data in Assay at the Well Validation, Sample, and Reference Analysis.
- A User Guide on how to manage annotation in Reference Data and Assay has been created.
9208 - OML4Py as a dng plugin for Assay
- In this version, we have implemented a new possibility for running normalizations, reference analyses, and sample analyses: these can now be done using Python scripts.
  - As of 6.3, this is an internal possibility, which means that a deployment is required to make such a computation available. We are working on making this possibility available through the administration soon.
  - Making good use of this functionality, we have implemented 3 normalizations that were previously only available through Pipeline Pilot:
    - Normalized Percent Inhibition (NPI)
    - B-Score
    - Modified Gompertz
10473 - Create multiply, subtract, ratio and add Normalizations
- Four new normalizations have been added, to replace, in the future, the readout transformations:
  - Readout Transformation - Add (Readout 1 + Readout 2)
  - Readout Transformation - Subtract (Readout 1 - Readout 2)
  - Readout Transformation - Divide (Readout 1 / Readout 2)
  - Readout Transformation - Multiply (Readout 1 * Readout 2)

Improvements

"Automatic Selection and Invalidation" has been renamed to "Automatic Analysis"
Better handling of readouts in a run

Bugs resolved

Resolution of conflicts between different layout types when creating raw data.
11180 - Assay to Warehouse Navigation bug
- The button allowing the user to see the data in Warehouse from Assay was not working in version 6.2.1 and is now fully functional