2021

2021 December - ICA v2.1.0

Features and Enhancements

• [CLI] Storage size can be entered by name

• [CLI] Details of a project analysis can be retrieved by entering the analysis Id

• [CLI] A list of metadata models can be retrieved

• [CLI] A list of regions can be retrieved

• [CLI] A list of storage configurations can be retrieved

• [CLI] A pipeline can be linked to a project by using the name/id of the pipeline as an argument

• [CLI] A pipeline can be unlinked from a project by defining the name/id as an argument

• [CLI] A list of storage bundles can be retrieved

• [API] Usability improvements for the list project data API:

  • Modify filePath query param to behave as prefix instead of exact match by default

  • Add filePathMatchMode query param

  • Add parentFolderPath query param

• [API] Add API endpoint to refresh a JWT (POST /api/tokens:refresh)

• [CLI] Add CLI command to create projects

• [API] Support search by tags on samples search API

• Renew macOS connector certificate

• When a filter is applied and you select a folder, you can see the content from that folder without th* Connector rules for a project can only be changed when you are active in that project

• It is possible to link more than 2000 files to a bundle or another project

• Data coming from a project in another tenant can be linked when you are invite for collaboration

• The error from a failed pipeline analysis is visible on the details page

• Species and type are unique within a tenant, not across tenants

• Sqs and sns test messages are aligned with the email test message

• A collaborating user from another tenant is able to see the details view of a pipeline analysis run.

• Bundle data can be used via API

• When executing api/projects/{projectId}/data and a file already exist, there is an indication that thresponse.

• Connector cancel button is renamed to delete to make its functionality more clearly

• [CLI] Modify pipeline start command to use pipeline name or ID as an argument instead of a flag parameter

• [API] Removed endpoint to POST on a sample metadata model

Bugs Fixed

• [Base] Fix error message when viewing a query from query history that no longer returns results

• [CLI] Fix for CLI upload command when uploading a folder with 0 bytes files

• [API] Fix create bundle API to return error when bundle with existing name is attempted to be created

• [API] Fix for non-functional If-Match header on PUT requests

• [CLI] Fix folder upload "panic: close of closed channel" error

• [API] Fix API for project creation returning success with invalid storage configuration provided

• [Bench] Fix for docker build logs not showing when build is interrupted

• Fix population of sample metadata from multiple analyses on the same sample

• Fix error message for missing docker image on tool creation

• [CLI] Fix pipeline create command to make pipeline code an argument instead of a flag parameter

• Fix UI element for tags to remove active button appearance

• Fix error when attempting to link pipeline with no pipeline selected

• Fix error message when attempting to add field to Base table schema with invalid characters

• Fix issue with analysis outputs files and logs not showing after analysis completion

• Fix UI issue with pipeline selection in the Generated by Pipelines field of the view to create a Base s

• Fix issue with a duplicate workspace being created while editing a workspace

• Fix issue for table creation using schedule for metadata

• Fix Base viewer role when applied to workgroups

• Fixed Issue: optional parameters for Nextflow pipeline cause error when value not provided

• Fixed issue when selecting data records to export from the Data overview page on a Bundle

• Fix for Base saved queries not visible in shared project

• Fix minor price calculation error (rounding) for Base storage

2021 November - ICA v2.0.0

Features and Enhancements

• API cursor-based and offset-set paging

• Authorize calls using Illumina API key

• Multiple reference data elements are possible when starting an analysis

• APIs added for:

  • Account, User, Workgroup

  • Connector, Download Rule, Upload Rule

  • Data, Data Format, Data Transfer

  • Region

  • Download

  • Entitlement

  • Event Log

  • Project, Project Analysis, Project Data, Project Permission, Project Sample, Project Pipeline

  • Metadata model

  • Pipeline

  • Bundle

  • Notifications, Event Codes

  • Base

• OpenAPI v3 API Spec published at https://ica.illumina.com/ica/api/swagger/index.html

• Added sort parameter to several APIs

• Custom event payload is defined as a json

• Separate call to retrieve metadata model fields available

• Add rclone temporary credentials support in the API to retrieve folder upload session details

• Tokens API POST also contains basic authentication

• Activation code endpoints are aligned with start analysis endpoints

• Base templates cannot be deleted

• Information can be written from Bench to Base

• Viewer/Contributor permissions are introduced in Snowflake

• Saved Template details can be edited

• Access via Illumina authentication is available

• Snowflake access token can be created

• Added new Bundles feature for sharing data with other users

• ICA allows the user to connect an S3 bucket as storage instead of an Illumina managed storage

• An overview of all storage configurations is available

• Secrets can be managed for the storage configuration

• A new storage configuration can be added

• The health status of a configuration can be monitored

• A storage configuration can be deleted when not used in a project

• Storage type and health are displayed in the overview

• When selecting own storage ICA will return you a list of all BYOBs in the chosen region

• A default bucket can be selected for every region

• Data is automatically archived/deleted when the grace period (if present) is over

• Data is archived/deleted automatically by a housekeeping mechanism

• An admin user can change the date to be archived/deleted at any time

• Data has a status

• Data format is automatically detected at creation

• Files can be grouped in a sample

• Data can have additional linked projects

• The data screen shows project data and data linked via a bundle

• 3 new columns are present in the data grid: "Owning Project", "Linked Projects" and "Linked Bundles"

• The record is displayed in the data grid depending on the data being linked or not

• Filter on Status with checkboxes on status values is possible

• Total Data Size is available

• Data can be linked/unlinked to/from a project

• Only root parent files and folders are shown when opening the data grid

• Deleted status does not exist anymore

• Data from projects with Data Sharing disabled cannot be linked

• Project is hidden instead of (soft-)delete

• Metadata models can be created for linking to a project

• Add support for Nextflow pipeline language

• A pipeline input can have multiple formats

• Output JSON for CWL analysis is shown

• Ongoing logfiles are available for the user

• You have two options to define a CWL pipeline: Graphical editor or code

• Test connection button is available for SQS

• Checkbox is added to toggle view between all rules or only your own rules

• Notification channels can be validated

• Subscription can be edited

• Custom subscriptions are possible

• Notifications can be received via SQS, SNS, Mail, and Webhook

• All users have an overview of all the notifications used in their tenant

• Notification channels are only visible for tenant admins

• Notifications can have a filter expression to only receive specific events

• A project administrator can grant permission to a single user on a project

• A project administrator can invite somebody unknown to ICA to his project

• A contributor can manage reference data

• A project administrator can define who pays for using my project

• A project administrator can invite a workgroup to a project

• When multiple project roles are given to a user/workgroup the correct project role is applied

• Team-page in projects and bundles are aligned

• Reference data can exist in multiple regions

• Species and type are being populated per tenant

• Data can become reference data

• Data tree shows all the regions in which the reference data is available