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Core Gen3 Release (Printer’s Row)

uc-cdis/fence

Bug Fixes

  • remove assertion that is breaking tests. (#897)
  • Fix parsing for redirect url in RAS (#895)
  • Fix 'object dict can't be used in 'await' expression' error during usersync (#894)
  • Allow permitted users to generate a signed upload url for public records (i.e. those records with authz=[“/open”]) (#893)
  • Fix RAS login intermittent failure after callback (#891)
  • Do not try to record audit logs for upload presigned URLs - fixes issue when hitting the /data/upload/<guid> endpoint (#889)
  • allow user to authenticate to gen3 successfully even if we fail to retrieve RAS visa during login. (#834)
  • Fixed Visa Update cronjob not clearing expired refresh tokens. (#883)

Dependency Updates

  • gen3authz to version 1.0.5 (#894)
  • Base image pybase3-1.5.0 (Rust toolchain fix for cryptography dependency) (#894)

Improvements

  • Use fence config to determine whether or not to parse visas during login. (#891)
  • Add _status and _version endpoints to Swagger doc (#888)
  • bump up jQuery for remediating Outdated jQuery Library vulnerability (#882)

New Features

  • Audit Service integration: Fence creates audit logs for data downloads and user logins (#885)
  • Added upstream_expires_in parameter in the /authorization endpoint to manually add refresh token expiration time. (#883)

Deployment Changes

uc-cdis/guppy

Improvements

  • add hideEmptyFilterSection flag and functionality to hide empty filter sections (#116)
  • add handling of edge case where tab will have no visible filters (#116)

Dependency Updates

  • Update @gen3/ui-component dependency to version 0.7.0 (#116)

uc-cdis/peregrine

Dependency Updates

  • psqlgraph: up to 3.0.1 (#175)

uc-cdis/data-portal

New Features

  • add hideEmptyFilterSection flag and functionality to hide empty filter sections (#833)
  • add handling of edge case where tab will have no visible filters (#833)

Dependency Updates

  • Update @gen3/ui-component dependency to version 0.7.0 (#833)
  • Update @gen3/guppy dependency to version 0.11.3 (#833)

Improvements

  • Change explorerConfig.table.fields to optional (#818)
  • Add local portal documentation to data-portal repo (#831)
  • Update the path to the PRC top10 chart data (#832)
  • Add optional config hideSubmissionIfIneligible to hide link/button to /submission for users who don't have permission to submit data (#829)
  • Clarified documentation on study viewer. (#817)
  • Add ellipsis and width options to studyColumns (#828)
  • make map legend slightly transparent (#827)
  • Fixed Pentest Info Disclosure: Support Packages & Config Files vulnerability (#824)
  • Fixed Pentest Outdated Nginx Version vulnerability (#824)
  • Use NPM 7 in dockerfile (#824)
  • Use Ubuntu 20.04 as base image in dockerfile (#824)
  • Use Nginx 1.18 in dockerfile (#824)

Bug Fixes

  • Fixed a bug causing page routes cannot be correctly resolved by react router (#825)
  • change the way activeTab is set so that it always highlights which page the user is on (#823)
  • refactor navigation to work with current standards (#823)

uc-cdis/sheepdog

Dependency Updates

  • psqlgraph: up to 3.0.1 (#344)

uc-cdis/ssjdispatcher

Improvements

  • Link to cloud-automation setup docs (#37)

uc-cdis/tube

Bug Fixes

  • Fix bug where whitespace is unintentionally left in name (#143)

uc-cdis/workspace-token-service

Bug Fixes

  • Fix image build failures caused by the absence of g++ (#29)

uc-cdis/metadata-service

New Features

  • add DELETE /objects/{guid} endpoint to delete indexd and metadata records (#20)

uc-cdis/mariner

Bug Fixes

  • Checks for a refresh token before running a workflow via Workspace Token Service, fetching a new refresh token if expired. This prevents a workflow from failing and not fetching commons data if user never opens /workspace within the last 30 days. (#46)

uc-cdis/mariner

Bug Fixes

  • Checks for a refresh token before running a workflow via Workspace Token Service, fetching a new refresh token if expired. This prevents a workflow from failing and not fetching commons data if user never opens /workspace within the last 30 days. (#46)

uc-cdis/mariner

Bug Fixes

  • Checks for a refresh token before running a workflow via Workspace Token Service, fetching a new refresh token if expired. This prevents a workflow from failing and not fetching commons data if user never opens /workspace within the last 30 days. (#46)

uc-cdis/cloud-automation

Bug Fixes

  • Prevent hung gen3qa-check-bucket-access pods. (#1575)

Improvements

  • Install Rust and Rust toolchain in python-nginx image to fix issues installing cryptography (#1568)
  • Roll all: deploy audit-service before fence (#1548)

New Features

  • Add covid19-bayes-model job (#1563)
  • Make copies of the "nb-etl" files; rename them "covid19-notebook-etl". The new "covid19-notebook-etl" job (daily) only runs notebooks. The old files will stay here until we can completely deprecate the "nb-etl" job (weekly), which runs notebooks + the Bayes model. The "nb-etl" job will eventually be replaced by a "covid19-bayes-model" job that only runs the Bayes model. (#1556)

Dependency Updates

  • Bumps ini from 1.3.5 to 1.3.7. (#1470)

Breaking Changes