Arvados

Story

Resolved

Closed

Sprint Impediments

17990

[deployment][arvados-formula] ubuntu 18.04 needs to install using rvm for api and workbench

Javier Bértoli

398

impediments

-c-a

17967

Prioritize reads from different storage classes

Tom Clegg

impediments

-c-a

17211

Upgrade su92l to 18.04

Ward Vandewege

impediments

-c-a

17816

singularity not setting working directory

Peter Amstutz

impediments

-c-a

18013

[api] the rake tasks db:check_long_lived_tokens and db:fix_long_lived_tokens should take API.MaxTokenLifeTime into account

Ward Vandewege

impediments

-c-a

17978

Add storage class default/priority fields to config + exported config

Tom Clegg

17967

impediments

-c-a

17968 17968 Stephen Smith Stephen Smith 2794 Workbench2 77 Workbench2 Design for user and group management UI in wb2 Resolved Resolved 3 17968 36 2794 341 6	17971 17971 Review Peter Amstutz 47 0 17968 3 36 -c-a 5
14018 14018 Peter Amstutz Peter Amstutz 47 CWL 79 CWL arvados-cwl-runner should support setting properties on container requests Resolved Resolved 3 14018 36 47 341 2	18086 18086 Review 14018-acr-set-container-properties Peter Amstutz 47 0 14018 3 36 -c-a 5
18077 18077 Peter Amstutz Peter Amstutz 47 2.3.0 release candidate for customer beta testing Closed Closed 5 18077 36 47 341 6		18087 18087 2. Create 2.3-dev branch Lucas Di Pentima 375 0 18077 5 36 -c-a 5 18088 18088 7. Write draft release notes Peter Amstutz 47 0 18077 5 36 -c-a 5 18089 18089 3. Review branch 0 18077 5 36 -c-a 5 18090 18090 4. Create point release 0 18077 5 36 -c-a 5 18091 18091 5. Record git commits 0 18077 5 36 -c-a 5 18092 18092 6. Build release candidate packages 0 18077 5 36 -c-a 5
16655 16655 Daniel Kutyła Daniel Kutyła 1510 Workbench2 77 Workbench2 Upload speed indicator shows wrong information Resolved Resolved 3 16655 36 1510 341 1		18129 18129 Review 16655-Upload-speed-indicator-shows-wrong-information Daniel Kutyła 1510 0 16655 5 36 -c-a 5
18074 18074 Ward Vandewege Ward Vandewege 1 Set up automated update & deploy for cwlviewer Resolved Resolved 3 18074 36 1 341 3	18085 18085 Review Peter Amstutz 47 0 18074 3 36 -c-a 5
18126 18126 Lucas Di Pentima Lucas Di Pentima 375 SDKs 54 SDKs With python2 no longer supported python-rsa can be un-pinned Resolved Resolved 3 18126 36 375 341 1
17960 17960 Peter Amstutz Peter Amstutz 47 [arv-copy] document ability to copy projects Resolved Resolved 3 17960 36 47 341 1	18039 18039 Review 17960-arv-copy-projects-doc Peter Amstutz 47 0 17960 3 36 -c-a 5
18027 18027 Tom Clegg Tom Clegg 3 Crunch 52 Crunch [crunch-run] upload failed (singularity) Resolved Resolved 3 18027 36 3 341 1	18035 18035 Review 18027-unmount-fuse Tom Clegg 3 0 18027 3 36 -c-a 5 18119 18119 Review 18027-boot-probe-command Tom Clegg 3 0 18027 3 36 -c-a 5
18029 18029 Stephen Smith Stephen Smith 2794 Workbench2 77 Workbench2 NaN paging for Public Favorites when you click on the next page arrow on an empty data table Resolved Resolved 3 18029 36 2794 341 1	18031 18031 Review Stephen Smith 2794 0 18029 3 36 -c-a 5
17995 17995 Tom Clegg Tom Clegg 3 [api] add method to get collections where replication_confirmed < replication_desired Resolved Resolved 3 17995 36 3 341 2	18042 18042 Review 17995-filter-by-comparing-attrs Tom Clegg 3 0 17995 3 36 -c-a 5
17857 17857 Ward Vandewege Ward Vandewege 1 Crunch 52 Crunch Run WGS variant calling workflow on 9tee4 with LSF and Singularity enabled Resolved Resolved 3 17857 36 1 341 6	18072 18072 Make lsf dispatcher work on 9tee4 Tom Clegg 3 0 17857 3 36 -c-a 5
18102 18102 Tom Clegg Tom Clegg 3 max dispatch attempts error Resolved Resolved 3 18102 36 3 341 1	18111 18111 Review 18102-max-dispatch-attempts Tom Clegg 3 0 18102 3 36 -c-a 5
18024 18024 Peter Amstutz Peter Amstutz 47 Documentation 58 Documentation cwl ValidationException: not found (Docker installed with snap) Resolved Resolved 3 18024 36 47 341 1	18030 18030 Documentation says something about not using Snap packages Peter Amstutz 47 0 18024 3 36 -c-a 5 18044 18044 Review 18024-no-docker-snap Peter Amstutz 47 0 18024 3 36 -c-a 5
17989 17989 Lucas Di Pentima Lucas Di Pentima 375 SDKs 54 SDKs PySDK socket read timeout on big collection create calls Resolved Resolved 3 17989 36 375 341 1	18033 18033 Review 17989-pysdk-timeout Peter Amstutz 47 0 17989 3 36 -c-a 5
17966 17966 Peter Amstutz Peter Amstutz 47 Release Arvados 2.2.2 Resolved Resolved 3 17966 36 47 341 6	18052 18052 2. Prepare release branch Peter Amstutz 47 0 17966 3 36 -c-a 5 18053 18053 3. Review release branch Lucas Di Pentima 375 0 17966 3 36 -c-a 5 18054 18054 4. Create next redmine release Peter Amstutz 47 0 17966 3 36 -c-a 5 18055 18055 5. Record git commit Peter Amstutz 47 0 17966 3 36 -c-a 5 18056 18056 6. Build RC packages Peter Amstutz 47 0 17966 3 36 -c-a 5 18057 18057 7. Draft release notes Peter Amstutz 47 0 17966 3 36 -c-a 5 18058 18058 8. Review release notes Lucas Di Pentima 375 0 17966 3 36 -c-a 5 18059 18059 9. Test installer Peter Amstutz 47 0 17966 3 36 -c-a 5 18060 18060 10. Deploy RC packages to playground Peter Amstutz 47 0 17966 3 36 -c-a 5 18061 18061 11. Run test pipeline Peter Amstutz 47 0 17966 3 36 -c-a 5 18062 18062 12. Sign off Peter Amstutz 47 0 17966 3 36 -c-a 5 18063 18063 13. Push packages to stable Peter Amstutz 47 0 17966 3 36 -c-a 5 18064 18064 14. Publish docker image, python and ruby packages Peter Amstutz 47 0 17966 3 36 -c-a 5 18065 18065 15. Publish formula/installer for release Javier Bértoli 398 0 17966 3 36 -c-a 5 18066 18066 16. Publish arvbox image Peter Amstutz 47 0 17966 3 36 -c-a 5 18067 18067 17. Tag commits Peter Amstutz 47 0 17966 3 36 -c-a 5 18068 18068 19. Update doc site Peter Amstutz 47 0 17966 3 36 -c-a 5 18069 18069 20. Publish release on arvados.org Peter Amstutz 47 0 17966 3 36 -c-a 5 18070 18070 21. Send out release notification Peter Amstutz 47 0 17966 3 36 -c-a 5
18078 18078 Peter Amstutz Peter Amstutz 47 FUSE 69 FUSE RuntimeError: dictionary changed size during iteration Resolved Resolved 3 18078 36 47 341 1	18084 18084 Review 18078-reacquire-fuse-lock Peter Amstutz 47 0 18078 3 36 -c-a 5
18112 18112 Ward Vandewege Ward Vandewege 1 [ubuntu 18.04] bundler 1.16.1 incompatible with latest arvados-api-server and arvados-workbench packages Resolved Resolved 3 18112 36 1 341 1	18115 18115 review 18112-ubuntu1804-bundler-fix Ward Vandewege 1 0 18112 3 36 -c-a 5
18021 18021 Tom Clegg Tom Clegg 3 Keep 53 Keep Fix flaky keepstore test Resolved Resolved 3 18021 36 3 341 1	18081 18081 Review note-4 Lucas Di Pentima 375 0 18021 3 36 -c-a 5
18094 18094 Lucas Di Pentima Lucas Di Pentima 375 API 57 API Remove unused Users#update_uuid endpoint Resolved Resolved 3 18094 36 375 341 1	18095 18095 Review 18094-update-uuid-endpoint-removal Lucas Di Pentima 375 0 18094 3 36 -c-a 5
18076 18076 Lucas Di Pentima Lucas Di Pentima 375 API 57 API Properly handle cached user records that don't exist anymore on federation scenarios Resolved Resolved 3 18076 36 375 341 1	18083 18083 Review 18076-stale-cached-users-handling Lucas Di Pentima 375 0 18076 3 36 -c-a 5 18110 18110 Review 18076-user-cache-with-repository Lucas Di Pentima 375 0 18076 3 36 -c-a 5
18096 18096 Ward Vandewege Ward Vandewege 1 Run WGS variant calling workflow on 9tee4 with Slurm and Singularity enabled Resolved Resolved 3 18096 36 1 341 2
17755 17755 Ward Vandewege Ward Vandewege 1 Crunch 52 Crunch Test singularity support on a cloud cluster by running some real workflows Resolved Resolved 3 17755 36 1 341 6	17796 17796 Review Lucas Di Pentima 375 0 17755 3 36 -c-a 5
17696 17696 Lucas Di Pentima Lucas Di Pentima 375 Keep 53 Keep Exported config has default storage class(es), SDKs use the configured default storage class if not overridden Resolved Resolved 3 3.0 3.0 3.0 17696 36 375 341 2 3.0	17979 17979 Review 17696-gosdk-default-storage-class Peter Amstutz 47 0 17696 3 36 -c-a 5
17535 17535 Javier Bértoli Javier Bértoli 398 Deployment 60 Deployment Jenkins step to test provision.sh + salt formula Resolved Resolved 3 17535 36 398 341 6	17542 17542 Review #17535 commit 84e52fd52, branch 17535-test-provision-jenkins Javier Bértoli 398 0 17535 3 36 -c-a 5 17633 17633 5.5 Test installer formula/provision scripts with RC packages 0 17535 3 36 -c-a 5 17634 17634 14.5 Publish formula/provision.sh tied to release 0 17535 3 36 -c-a 5