chore(qaplanetv2): bump versions

[frickjack]

Link to Jira ticket if there is one:

Environments

• qaplanetv2

Description of changes

• bump versions

[PlanXCyborg]

qaplanetv2.planx-pla.net/manifest.json

⚠️ Services on branch

• revproxy
• tube

Deployment changes

• fence
  • Commons configured with RAS staging login must add the "discovery_url" fence config, because it now defaults to RAS prod (uc-cdis/Fix/ras url fence#824)
  • If the fence config already has [CLIENT_, USER_, SESSION_]ALLOWED_SCOPES fields, and GA4GH AAI integration is desired, then add ga4gh_passport_v1 to all those lists. If default config values are being used then no change required. (uc-cdis/PXP-6406 Feat/ga4gh scope fence#799)
  • To use the new Cognito integration, apply in fence config the changes made to config-default.yaml. Otherwise no action required. (uc-cdis/PXP-5613 Feat/cognito fence#767)
• indexd
  • Indexd's blank record endpoints now allow direct iteration from a user with their access token but requires the file upload arborist role to be modified so the service is not just fence but instead * so indexd works too. see https://github.com/uc-cdis/commons-users/pull/908/files for example (uc-cdis/Update blueprint.py indexd#275)
• portal
  • At time of writing, qa-midrc is only env using the new feature flag. These changes should be deployed alongside each other to production, but nothing will break if done separately. (uc-cdis/(PXP-7097) Add optional alternate TopBar profile menu data-portal#759)
  • New value for GEN3_BUNDLE env var GEN3_BUNDLE=nct (uc-cdis/PXP-6895 NIAID CT bundle data-portal#742)
  • New optional portal config variable injectDAPTag (default value is false). If set to true, will inject DAP tag script into page header (this is required for NCT PROD env only) (uc-cdis/PXP-6895 NIAID CT bundle data-portal#742)
  • All envs should check if the dataExplorerConfig field in its portal config has ONLY arrangerConfig field but NO guppyConfig field (it is okay to have both). If so, please update dataExplorerConfig to use Guppy (uc-cdis/PXP-6409 Remove arranger data-portal#743)
  • A new Export to PFB button can be optionally enabled in the config.json. It is disabled by default. The button requires at least pelican:2020.10 release. (uc-cdis/Feat/export pfb to workspace data-portal#681)
  • Add GEN3_BUNDLE=covid19 as portal env var to enable covid bundle (uc-cdis/Feat/covid bundle data-portal#737)
  • Limited File PFB Export requires Pelican >= 0.5.0, Tube >= 0.4.1 (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • Limited File PFB Export is enabled by setting fileExplorerConfig.enableLimitedFilePFBExport: { sourceNodeField: "source_node" } and by adding buttons of buttonType export-files (Export to Terra), export-files-to-pfb (Download PFB), or export-files-to-seven-bridges (Export to Seven Bridges) to fileExplorerConfig.buttons. Example: (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "fileExplorerConfig": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • ... (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "buttons": [ (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • .... (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "enabled": true, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "type": "export-files-to-pfb", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "title": "Export All to PFB", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "rightIcon": "external-link", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "tooltipText": "You have not selected any cases to export. Please use the checkboxes on the left to select specific cases you would like to export." (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "enabled": true, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "type": "export-files", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "title": "Export All to Terra", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "rightIcon": "external-link", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "tooltipText": "You have not selected any cases to export. Please use the checkboxes on the left to select specific cases you would like to export." (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • ], (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "enableLimitedFilePFBExport": {"sourceNodeField": "source_node"}, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • Limited File PFB Export requires the source_node property to be ETL'd -- source_node should be added to props in the file section of etlMapping.yaml. Example: (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • name: mpingram_file (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • doc_type: file (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • type: collector (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • root: None (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • category: data_file (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • props: (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • name: object_id (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • name: md5sum (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • ... (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • name: source_node (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • Limited File PFB Export requires a new export-files job block to be added to the Sower config in manifest.json. The $ROOT_NODE environment variable must be set to "file", or the name of the Guppy file index if it isn't "file". For BioDataCatalyst, the EXTRA_NODES environment variable must be set to "". (This is for backwards compatibility: pelican-export includes reference_file by default on all BDCat PFB exports unless $EXTRA_NODES is set to an empty string). Example sower config: (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "pelican-export-files", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "action": "export-files", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "container": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "job-task", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "image": "quay.io/cdis/pelican-export:0.5.0", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "pull_policy": "Always", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "env": [ (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "DICTIONARY_URL", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "valueFrom": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "configMapKeyRef": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "manifest-global", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "key": "dictionary_url" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "GEN3_HOSTNAME", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "valueFrom": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "configMapKeyRef": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "manifest-global", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "key": "hostname" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "ROOT_NODE", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "value": "file" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "EXTRA_NODES", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "value": "" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • ], (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "volumeMounts": [ (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "pelican-creds-volume", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "readOnly": true, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "mountPath": "/pelican-creds.json", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "subPath": "config.json" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "peregrine-creds-volume", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "readOnly": true, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "mountPath": "/peregrine-creds.json", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "subPath": "creds.json" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • ], (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "cpu-limit": "1", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "memory-limit": "4Gi" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "volumes": [ (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "pelican-creds-volume", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "secret": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "secretName": "pelicanservice-g3auto" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "name": "peregrine-creds-volume", (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "secret": { (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "secretName": "peregrine-creds" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • } (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • ], (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • "restart_policy": "Never" (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • }, (uc-cdis/(PXP-6544) Limited PFB Export from the Files Tab data-portal#729)
  • Portal should be updated to include this fix if Indexd is above 2.12.0 or 2020.07 and user want to use Arborist UI (uc-cdis/fix: data upload auth check data-portal#702)
  • New optional config field in the index section of gitops.json called homepageChartNodeChunkSize. Sets the value for paritioning requests to Peregrine for the homepage chart. Defaults to 15 if not provided. (uc-cdis/Feat/peregrine request chunk data-portal#699)
  • New explorerConfig which can take configs for multiple tabs, backward compatiable with current dataExplorerConfig and fileExplorerConfig (uc-cdis/COV-78 Feat/multi tab explorer data-portal#676)
  • The Terra template attribute in gitops.json now expects a list of strings, not just a single string. (uc-cdis/Chore/update terra template data-portal#663)
  • Added footer link configuration to portal config: components.footer.links is an array of { text: <string, optional>, href: <string> }. (uc-cdis/(PXP-5571) Add footer links data-portal#661)
  • Added a new property to gitops.json: components.login.contact_link: { text: string, href: string }. If login.contact_link is present, it will be displayed instead of login.email. Email links can be represented in contact_link using "mailto:email@address" as the "href". (uc-cdis/(PXP-5571) Allow contact to be a link on login page data-portal#660)
  • Updated tiered access logic requires Guppy server >= 0.4.0 (uc-cdis/PXP-4794 PXP-4534 Fix/tiered access data-portal#650)
• sheepdog
  • The environment's user.yaml needs to be updated to add the new Sheepdog admin policy/resources/roles; for each user that has admin: true, grant them the new policy. See https://github.com/uc-cdis/commons-users/pull/810 for an example. (uc-cdis/PXP-4102 Feat/arb admin sheepdog#319)