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

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