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# Project Tracker Status Priority Subject Assigned To Updated % Done Hours
489 GET-Evidence Feature Closed Immediate Fix PharmGKB analysis so it matches against all SNPs, not just the nsSNPs Tom Clegg 02/15/2011 03:17 PM

3047 Arvados Bug Resolved High UrlGenerationError in projects#show Tom Clegg 06/27/2014 11:15 AM

725 GET-Evidence Bug Resolved High evidence.personalgenomes.org/NKX2-5-Glu21Gln has PHP warnings at top Tom Clegg 12/07/2011 07:46 PM

2892 Arvados Bug Resolved High Error page when signing user agreement 05/28/2014 10:10 AM

480 GET-Evidence Bug Closed High NA12878 has no chr:pos on CYP2C9-R144C Tom Clegg 02/15/2011 03:17 PM

473 GET-Evidence Feature Closed High Implement auto-scoring mechanism Tom Clegg 02/16/2011 02:21 PM

477 GET-Evidence Feature Closed High Integrate trait-o-matic functionality into GET-Evidence Tom Clegg 02/16/2011 02:25 PM

487 GET-Evidence Feature Closed High Show full PGP9 and PGP12 genomes on snp.med and GET-E Tom Clegg 02/15/2011 03:17 PM

474 GET-Evidence Feature Closed High Move todo's from http://evidence.personalgenomes.org/status to trac Tom Clegg 02/15/2011 03:17 PM

451 longupload Bug New Normal handle xmlhttprequest timeouts gracefully Tom Clegg 01/13/2011 07:04 PM

1471 Tapestry Bug New Normal Researcher > Kits table content loads very slowly Tom Clegg 10/28/2013 04:46 PM

775 GET-Evidence Bug New Normal https://evidence.personalgenomes.org/ should not show huPGP site 12/06/2013 08:38 PM

11261 Arvados Bug New Normal [API] full text search on pipeline_instances table is extremely slow (wrong index?) 07/06/2021 09:24 PM

7129 Arvados Bug New Normal [Documentation] RVM and passenger recipes are missing details 07/07/2021 06:28 PM

1461 Tapestry Bug New Normal Firefox compatibility problem in kit_design creation 10/28/2013 04:47 PM

11531 Arvados Bug New Normal [API] clean up stale/conflicting dns data from deleted node records 07/06/2021 09:23 PM

1104 GET-Evidence Bug New Normal Division by zero warning when computing progress percentage Tom Clegg 08/18/2012 06:45 PM

9989 Arvados Bug New Normal [SDKs] Python SDK should use a more recent version of the google api client library 07/07/2021 06:23 PM

5560 Arvados Bug New Normal [DRAFT] [API] Good API for accessing the old_ and new_attributes in Logs table properties column Tom Clegg 07/07/2021 06:30 PM

10127 Arvados Bug New Normal [API] In each request log entry, report time spent getting current permission graph 07/07/2021 06:23 PM

556 GET-Evidence Bug New Normal Visualization improvements 04/21/2011 06:48 PM

509 GET-Evidence Bug New Normal Clean up runt variants imported by PharmGKB Tom Clegg 02/16/2011 02:54 PM

518 GET-Evidence Bug New Normal Handle "data set is no longer public" during import_genomes Tom Clegg 02/16/2011 02:54 PM

466 GET-Evidence Bug New Normal xmlrpc server is careless with huge temp files 02/11/2011 05:42 PM

17878 Arvados Bug New Normal [container shell] confusing error "channel 3: bad ext data" when forwarding tcp traffic into a container with API: false 07/08/2021 05:21 PM

1116 Tapestry Bug New Normal Selecting kit ranges at /kits should not be case-sensitive 10/28/2013 04:54 PM

6240 Arvados Bug New Normal [API] "order" params should be rejected or used (not silently ignored) even when they reference columns missing from the "select" param 07/07/2021 06:29 PM

10729 Arvados Bug New Normal [Crunch2] Propagate error messages if sbatch command succeeds but crunch-run can't run (or can't log to the Arvados API) 07/07/2021 06:21 PM

10445 Arvados Bug New Normal [SDKs] Fix memory leak in Python SDK Collection class 07/07/2021 06:22 PM

15118 Arvados Bug New Normal [keepstore] Return 5xx (not 4xx) if block is not found due to transient backend device failure 07/06/2021 09:08 PM

478 GET-Evidence Bug New Normal Keep "overall odds ratio" updated when editing individual sets of OR figures Tom Clegg 02/15/2011 03:17 PM

16436 Arvados Bug New Normal [install] Ensure postgresql has en_US.UTF-8 collation 05/18/2020 03:12 PM

16830 Arvados Bug New Normal [keep-web] S3 PutObject response should have content MD5 07/06/2021 09:12 PM

10946 Arvados Bug New Normal [Docs] [SDKs] Mention in API docs and discovery doc that destroy=delete and index=list 07/07/2021 05:26 PM

9921 Arvados Bug New Normal [SDKs] Python SDK duplicates resource attributes in top level of params 07/07/2021 06:23 PM

9363 Arvados Bug New Normal [keep-balance] Avoid deleting recently-referenced blocks 07/06/2021 09:12 PM

7880 Arvados Bug New Normal [Crunch] crunch-dispatch should run the bundled version of crunch-job specified by Gemfile.lock 07/07/2021 06:27 PM

13144 Arvados Bug New Normal [SDKs] Wean all components off old arvadosclient and keepclient libraries 05/06/2022 06:49 PM

5451 Arvados Bug New Normal [Documentation] Fix Go SDK comments so they look reasonable in godoc 07/07/2021 06:30 PM

17345 Arvados Bug New Normal [boot] handle dependency upgrades better in "arvados-package build" 07/06/2021 09:12 PM

18114 Arvados Bug New Normal [a-d-c] slow down retries when CreateInstance returns non-quota/non-throttle errors 09/07/2021 06:11 PM

4696 Arvados Bug New Normal [SDKs] one_task_per_input_stream fails due to unsupported APIs. Remove it from docs, examples, and SDK. 07/07/2021 06:31 PM

3573 Arvados Bug New Normal [Workbench] When showing a shared project, do not include "Home" in breadcrumbs. 07/07/2021 06:36 PM

13047 Arvados Bug New Normal Log apiClientAuth UUIDs in keep-web, keepproxy, etc. 02/07/2018 07:07 PM

11863 Arvados Bug New Normal [Go] CLI programs should exit 0 after giving -help 07/06/2021 09:21 PM

479 GET-Evidence Bug New Normal NSF-Lys702Asn shows wrong hapmap frequency Tom Clegg 02/16/2011 02:57 PM

3622 Arvados Bug New Normal [API] [refactor] Move system_group, system_user, etc to class methods in Group and User 07/06/2021 09:27 PM

500 GET-Evidence Bug New Normal Trait-o-matic GET-E importer "AttributeError: 'tuple' object has no attribute 'remove'" Tom Clegg 11/07/2012 10:46 AM

3691 Arvados Bug New Normal [Workbench] Suppress "ajax failed" error messages when ajax fails due to browser navigation event. 07/07/2021 06:36 PM

11154 Arvados Bug New Normal [Docs] Migrate install docs from command line flags to YAML configs (keepproxy, keep-web) 07/07/2021 05:25 PM

10018 Arvados Bug New Normal [Workbench] Double-clicking "show version" link causes modal deadlock 07/07/2021 06:23 PM

11260 Arvados Bug New Normal [API] "arv group contents" produces a 404 error (seems to POST instead of GET?) 07/06/2021 09:24 PM

14488 Arvados Bug New Normal [keepstore] Do not try to trash blocks that were already trashed in previous sweep 07/06/2021 09:09 PM

6412 Tapestry Bug New Normal Admin cannot use UserFilesController#reprocess unless admin account is marked "enrolled" 06/24/2015 08:16 PM

16224 Arvados Bug New Normal [tests] Jenkins isn't testing the python SDK on python3 03/06/2020 06:36 PM

6318 Arvados Bug New Normal [SDKs] Go SDK locator regexp (and its tests) should agree with the documented format 07/07/2021 06:29 PM

18586 Arvados Bug New Normal Remove docs/code for unsupported AsyncPermissionsUpdateInterval 12/14/2021 04:21 PM

7120 Arvados Bug New Normal [Keep] keepproxy should log real IP address 07/07/2021 06:28 PM

14022 Arvados Bug New Normal [Tests] Timeouts causing build failures on jenkins 08/13/2018 07:34 PM

18334 Arvados Bug New Normal Accept release info changes in docker recipes 11/04/2021 03:23 PM

11148 Arvados Bug New Normal [Crunch2] Propagate dispatch error messages (e.g., sbatch fails) to user via logs/websocket 07/07/2021 05:25 PM

3224 Arvados Bug New Normal [Workbench] Search box on collections page should use infinite scroll instead of (broken) page number links 07/07/2021 06:36 PM

6780 Arvados Bug New Normal [git] "git clone https://..." with a bogus token should respond 4xx, not 5xx 07/07/2021 06:29 PM

17413 Arvados Bug New Normal [arv-mount] Exit (instead of undefined behavior) after unhandled exception 07/06/2021 09:08 PM

4771 Arvados Bug New Normal [Workbench] Collection content hash should stay up-to-date (e.g., while uploading files) 07/07/2021 06:31 PM

12349 Arvados Bug New Normal [API] Validate container requests "output_path must be in a writable mount" 09/27/2017 04:15 PM

5841 Arvados Bug New Normal [Workbench] Link to script sources on github when repository is a github url 07/07/2021 06:30 PM

10008 Arvados Bug New Normal [SDKs] [Python] When reading data through Collection et al., signatures should refresh automatically when needed 07/07/2021 06:23 PM

6274 Arvados Bug New Normal [API] [Workbench] Home project should be a real object (group with group_class="project"), not current_user. 07/07/2021 06:29 PM

10298 Arvados Bug New Normal [Crunch2] [API] Accept collection UUID or PDH as container_image in a container request 07/06/2021 09:11 PM

6439 Arvados Bug New Normal [Workbench] Copying jobs causes "SubmitIdReused" error if submit_id is not null 07/07/2021 06:29 PM

13763 Arvados Bug New Normal [API] groups#contents response should obey caller-provided order (not sort on type first) 07/06/2021 09:10 PM

12082 Arvados Bug New Normal [SDKs] Improve wording of Keep error messages in Python SDK 07/06/2021 09:19 PM

14405 Arvados Bug New Normal [API] Avoid long-running transactions when sweeping trashed objects 07/06/2021 09:09 PM

10708 Arvados Bug New Normal [Crunch2] crunch-run fails trying to set swappiness on ubuntu 1204 kernel 07/07/2021 06:21 PM

6772 Arvados Bug New Normal [API] Should not be necessary to host git repos on the same host as API server 07/07/2021 06:29 PM

7232 Arvados Bug New Normal [Keep] keepstore should notify sysadmin about error conditions (trying harder than just log.Print()) 07/07/2021 06:28 PM

4700 Arvados Bug New Normal [Workbench] Websocket client should only subscribe to events about relevant objects, not all events. 07/07/2021 06:31 PM

7743 Arvados Bug New Normal [Workbench] Hide file preview buttons when preview isn't possible with current keep-web config 07/07/2021 06:27 PM

9967 Arvados Bug New Normal [keep-balance] Do not delete blocks referenced by collections with replication_desired=0 Tom Morris 07/07/2021 06:23 PM

15757 Arvados Bug New Normal [FUSE] occasional deadlock in tests.test_unmount.UnmountTest.test_replace 07/06/2021 09:12 PM

17561 Arvados Bug New Normal [arvados-dispatch-cloud] inst.SetTags() and inst.Destroy() should respect rate-limiting responses from cloud provider 06/02/2021 08:02 PM

7141 Arvados Bug New Normal [API] Advertise anonymous token in discovery document 07/07/2021 06:28 PM

16852 Arvados Bug New Normal [keep-balance] replication level distribution should account for volumes' built-in replication 07/06/2021 09:12 PM

10794 Arvados Bug New Normal [keepstore] Refactor volume Get/Put funcs to BlockReader/BlockWriter interfaces 07/07/2021 06:21 PM

3989 Arvados Bug New Normal [Workbench] [DRAFT] Fix clock/node time reporting on Workbench pipeline page 07/07/2021 06:36 PM

10689 Arvados Bug New Normal Crunch1 jobs should still work on a slurm setup configured for Crunch2 07/07/2021 06:21 PM

4324 Arvados Bug New Normal [Docker] Fix supervisor.conf to supervise services instead of running init.d start script and hoping everything is OK 07/07/2021 06:35 PM

3625 Arvados Bug New Normal [Workbench] API token provided in query string should not be ignored just because the session already has a token. 07/07/2021 06:36 PM

17597 Arvados Bug New Normal [keep-web] Improve error response when AnonymousUserToken not configured and no token provided by client 04/28/2021 06:24 PM

5541 Arvados Bug New Normal [Workbench] Buttons should have consistent ctrl-click and right-click behavior 07/07/2021 06:30 PM

3037 Arvados Bug New Normal [API] websocket clients should not put API tokens in path or query string 07/07/2021 06:36 PM

16851 Arvados Bug New Normal [keep-balance] "underreplicated blocks" are overcounted in log messages 07/06/2021 09:12 PM

5820 Arvados Bug New Normal [Workbench] Missing link target in iframe error message 07/07/2021 06:30 PM

13162 Arvados Bug New Normal [SDKs] Remove arvadosclient and keepclient libraries 07/06/2021 09:10 PM

15727 Arvados Bug New Normal [FUSE] Unhandled exception while getting discovery doc 07/06/2021 09:12 PM

5201 Arvados Feature New Normal [SDKs] arv-put --description X --properties P should set respective attrs on new collection. 07/07/2021 06:30 PM

15457 Arvados Feature New Normal [Controller] Delegate new container requests to other clusters based on location of input data 07/06/2021 09:12 PM

7694 Arvados Feature New Normal [API] [Workbench] Check for nonexistent config params during rake config:check 07/07/2021 06:27 PM

7024 Arvados Feature New Normal [Keep] keepstore status.json should report runtime environment 07/07/2021 06:28 PM

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