Version 4.11.2

• Increased the tolerance for the concentration validation during the normalization template ingestion.

Version 4.11.1

• Fixed a crash when exporting samples with no project.

Version 4.11.0

• Added an mechanism to allow queueing samples to study workflows from the Project associated samples list.
• Created a new workflow action that allow samples to remain on a workflow step while their child move on to the next step.
• Filter experiment list by run_types and by progression in their processing allowing for a simpler view.
• Sample submission template now create generic individual for samples that declare a taxon in the template.
• Default Reference genomes are used for "Homo sapiens" and "Mus musculus" if none are declared in the sample submission template.
• Added of a filter to allow validation emails to be sent by Triton.
• Added Released_by and Validated_by fields to the readset model.
• Container kind was added to the run info file json.
• Projects now have their external_project_id listed.
• Sample kind SERUM added to the sample submission template.
• Fixed an issue with filtering by cohort in the Project section associated samples tab.
• Prevented empty string being inserted as external_project_id in the database.
• Fixed an issue with tooltips being cut short on read set count graphs under some conditions.

Version 4.10.1

• Fix an issue with the ordering of the destination samples during placement.

Version 4.10.0

• Move the project from derivedsample model to derivedbysample model. This allow for sample moved using Transfer to be changed project without waiting for a step that create a new derivedsample.
• Addition of a Project and Study optional columns on the Transfer Template in order to allow changing project at the same time as doing a transfer.
• Add a button to download the run samplesheet during experiment step placement.
• Remove the unique identifier from the destination container barcode when doing pooling planning.
• Remove the numeric part from the destination container barcode of the robot file generated during the pooling planning.
• Project with long names get ellipsed in the middle in the run validation comment box.
• Display samples Project in the placement tables and adjust ordering to take it into account.
• Display source container only when pertinent on the placement table destination side.
• Prevent users from being able to restart an experiment run by themselves (allowed for staff).
• Produce a file mapping containers to the files produced when doing a pooling planning.

Version 4.9.1

Fix Placement (#798) (#801)

* set default placement type to pattern

* change sorting for placement samples table

* more tweaks

* fix sorting

* reverse comparison

* default to column direction

* correct comment

* allow wrap around

* use reverse of offsets only

* use enum index

Version 4.9.0

• Rework Labwork Placement
  • rework samples, selections and placement tab
• Remove the drop down for planning template for the step Normalization and pooling (Experiment Run) using "needs_planning" step attribute.
• Replace the tubes_without_parent faked container in the labwork step summary endpoint to return an invalid container name instead.
• Add column on Dataset tab and menu for "Validated" runs
• Remove warining when passing runs
• Normalization Pooling Capture
• Curation for Pooling Capture
• [BUG] When opening sample details for a library when comming from somewhere else than the libray listing, the library details are missing.
• On the placement tab, remove the Save for Prefill button (automatically save).
• LAB: Find solution to sort external location on sample export
• The more samples per plate are selected, the longer the selection
• [BUG] LAB: Sorting on QC Flag not working on Axiom workflow link
• LAB: Template Axiom Experiment Submission. To prefilled the "Experiment Container Barcode"
• LAB: Template Axiom Sample Preparation. To add time instructions on column
• LAB: Axiom Sample prep step. To have a prefilled template with the name and the container barcode
• [BUG] LAB: Not able to select more than 672 samples in Axiom Sample Preparation

Version 4.8.0

• Added to Sample Normalization planning template a column that allows users to prevent a row (sample) from being included in the .csv robot file.
• Added to Sample Normalization planning template a column that allows users to add manually controls as diluent during normalization. The volume listed in the column is removed from the .csv robot file diluent amount.
• Axiom folder creation step now export the copy-paste file with double-quotes (") around text fields to prevent excel from reading numeric barcodes as numbers and represent them in scientific notation.
• Labwork step placement tab can now do placement from/into various container kinds (does not include tube for destination).
• Placement tab was added to the experiment run steps.
• Placement tab saw a number of QoL upgrades. Notably users can now select a full row/column, select all sample in a container, click outside cells to deactivate selection, and other smaller changes.
• Indicate the number of samples selected in a group of the labwork step section samples tab.
• Refactor the study page of the project section to load samples on demand only (greatly improved load time).
• Added a comment box for the dataset validation page and a comment timeline on the dataset listing.
• Improved the speed of the library summary endpoint.
• Improved the speed of the labwork step summary endpoint.
• Provide a link from the dataset number of read graph to the last library before pooling.
• Changed the Illumina Experiment Template to make some fields optional, move some fields around, allow Lane to be designated numerically, and allow flowcells side to be deignated by a single letter (A or B).
• Extend formulas in QC templates to a 1000 rows.
• Temporarily prevent users from submitting more than 576 samples.

Version 4.7.0

• Major Labwork Step rework. The sample tab now allows for a break down of samples by Project, Container, Date or User. A new Placement tab was added that can be used to prefill the destination container barcode and destination container coordinates of the templates.
• Splitted the Normalization planning template column "Robot Norm Choice" into a Type and a Robot column. This allows the prefilling of the type using the Workflow information.
• Detects and warns when users inadvertently insert data into cell outside the typical area of a template.
• Removed warning when not entering a choice in the Workflow Action column.
• Creates a file for starting an Axiom Eperiment run during the Axiom Create Folders step. Container barcode is stored in plate comment.
• Added a validation to the Quality Control - Integration (Spark) step to make sure the samples in the file were on the current step.
• Created 2 different experiment containers for Axiom (PMRA and UKBB).
• Created a NovaSeq X instrument, instrument type and experiment containers (flowcells) definitions.
• Fixed a number of issues with the incoming json file format when ingesting after run processing.
• Fixed an issue with selection reverting to previous state when ticking boxes.
• Fixed an issue that was breaking the grouping of steps by platform in the labwork summary Library preparation protocol section.
• Adapted the Qc Flag display to take into account the new partial QC flags.
• Fixed a formula error in Sample Pooling template.
• Added a dropdown to the Destination Container Coordinates in the Normalization planning template.
• Added a dropdown to Infinium Experiment Run template for the Instrument.
• Updated name of labtechs in templates.

Version 4.6.1

• Modified the migration file so it would correctly add the sample field to the pre-existing StepHistory records.