v1.0.0

Release for upgrading to SODAR Core 1.0, Django 4.2 and iRODS 4.3, REST API versioning scheme update, OIDC support etc.

• Add opt-out settings for iRODS data request and zone status update emails
• Add REST API list view pagination
• Add Python v3.11 support
• Add study plugin override via ISA-Tab comments
• Add session control in Django settings and environment variables
• Add token-based iRODS/IGV basic auth support for OIDC users
• Add support for comment, performer and contact field values as list
• Add support for numeric field values as list
• Add support for UTF-8 BOM header in MD5 checksum files
• Add optional SampleDataFileExistsAPIView access restricting for users with project roles
• Update minimum supported iRODS version to v4.3.3
• Update REST API versioning
• Update REST API views for OpenAPI support
• Update lock requiring REST API views to return 503 if project is locked
• Update REST APIs to return user UUID instead of SODARUserSerializer objects
• Update landing zone creation REST API view to return 503 if no investigation or iRODS collections
• Update irodsinfo configuration download to return JSON without Zip archive if client-side cert is not set
• Upgrade to Django v4.2
• Upgrade to Postgres v16
• Upgrade to python-irodsclient v2.2.0
• Upgrade to altamISA v0.3.0
• Upgrade to SODAR Core v1.0.5
• Remove Python v3.8 support
• Remove Postgres <12 support
• Remove iRODS <4.3 support
• SODAR Core v1.0 updates: OIDC auth support, new REST API versioning, owner/delegate remote sync controls, etc

See changelog for a complete list of updates.

v0.15.1

Release for minor updates, maintenance and bug fixes.

• Fix generic assay plugin issues
• Upgrade critical dependencies
• Minor updates and bug fixes

See changelog for a complete list of updates.

v0.15.0

Feature release.

• Add isatemplates app for management of custom ISA-Tab templates
• Add generic assay plugin
• Add BAM/CRAM/VCF omit pattern display in study shortcut modal
• Add row links display override using assay comment
• Add iRODS checksum calculation retrying
• Add Cyberduck documentation
• Disable lock requirement for project and role update taskflows
• Make sheet template output dir field visibility optional
• Upgrade critical dependencies
• Minor updates and bug fixes

See changelog for a complete list of updates.

v0.14.2

Release for minor updates, maintenance and bug fixes.

• Add CRAM file support for cancer/germline study links and IGV sessions
• Add path glob pattern support for IGV session BAM/VCF omit settings
• Add assay plugin shortcut collection creation in landing zones
• Add iRODS data request details in timeline events
• Add landing zone statistics in siteinfo
• Fix iRODS data request issues
• Fix IRODS_ROOT_PATH issues
• Fix LDAP TLS settings
• Fix iRODS stats badge stuck in "updating"
• Fix landing zone status updating not working in project details card
• Fix landing zone creation crash with large amount of created collections
• Fix multiple sheet editor issues
• Minor updates and bug fixes
• Upgrade to SODAR Core v0.13.4

See changelog for a complete list of updates.

v0.14.1

Release for minor updates, maintenance and bug fixes.

• Add iRODS v4.3 support
• Add sheet sync setting validation
• Change default IGV genome to "b37_1kg"
• Fix landing zone locking controls for non-superusers
• Fix access to new HP ontology URLs
• Fix sheet column toggle modal UI issues
• Minor updates and bug fixes
• Upgrade to SODAR Core v0.13.3

See changelog for a complete list of updates.

v0.14.0

Major feature update.

• Add general read-only iRODS access tickets for assay collections
• Add support for additional sample sheet templates
• Add landing zone updating
• Add automated checksum calculation in landing zone validation and moving
• Add iRODS delete request REST API views
• Add iRODS delete request batch handling in UI
• Add iRODS access ticket REST API views
• Add iRODS environment retrieval REST API view
• Add cytof assay plugin
• Add "create" tag for sample sheet versions
• Add user setting for maximum sample sheet table height
• Add "normalizesheets" management command to clean up existing sample sheets
• Improve sheet template creation form
• Landingzones UI improvements
• Sample sheet table resizing and rendering improvements
• Add study table cache disabling
• Minor updates and bug fixes
• Upgrade to SODAR Core v0.13.2
• SODAR Core v0.13 updates: full role inheritance, finder role, etc.

See changelog for a complete list of updates.

v0.13.4

Release for minor sample sheet updates, maintenance and bug fixes.

• Update ISA-Tab template dependency to cubi-isa-templates
• Allow assay tables with no materials after sample
• Fix sample sheet creation form resubmit handling
• Fix django-autocomplete-light Docker build crash

See changelog for a complete list of updates.

v0.13.3

Release for minor updates, maintenance and bug fixes.

• Add ProjectIrodsFileListAPIView API endpoint
• Display study and assay plugin icons to contributors and above
• Remove SPECIAL_FILE_LINK_HEADERS hack
• Update URL patterns
• Upgrade dependencies, fix site for Django v3.2.19+

See changelog for a complete list of updates.

v0.13.2

Maintenance and bug fix release.

• Improve iRODS path validation
• Minor updates and bug fixes

See changelog for a complete list of updates.

v0.13.1

Release for minor updates, maintenance and bug fixes.

• Allow restricting landing zone write access
• Add API examples to manual
• Minor updates and bug fixes

See changelog for a complete list of updates.