mskcc/beagle

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Voyager Backend

Stars: 2
Forks: 7
Open beginner issues: 0
Indexed issues: 99
Avg merge: 4d 58m
Merged PRs (30d): 7

Dominant language: Python
License: Apache-2.0
Last GitHub push: Sep 18, 2026
Latest indexed: Sep 19, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: help wanted

Beginner friendly Everything

Open All

99 open issues indexed

Remove all harded references to juno Open

Difficulty 2/5 1-3 hours Newbie friendliness 68/100

mskcc/beagle#1500 · Opened Mar 23, 2026
How will strict syntax affect repo Open

mskcc/beagle#1493 · 1 assignee · Opened Feb 19, 2026
Update mock metadata Open

mskcc/beagle#1125 · 1 assignee · Opened Oct 11, 2022
Cannot logout of admin on swagger page Open

bug

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

mskcc/beagle#1122 · Opened Sep 29, 2022
tempo-mpgen column names inconsistent with schema Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

mskcc/beagle#1068 · 1 comment · Opened Jun 1, 2022
Operator errors are hidden in the logs Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

mskcc/beagle#1058 · Opened May 18, 2022
Approved users does not populate the user model Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 35/100

mskcc/beagle#1053 · Opened May 12, 2022
Cannot log out as admin Open

bug

Difficulty 2/5 1-3 hours Newbie friendliness 25/100

mskcc/beagle#1052 · Opened May 12, 2022
Replace User Specific Paths on Jinja Template Open

mskcc/beagle#1034 · 1 assignee · Opened Apr 29, 2022
Github Repo page for Tempo Open

Difficulty 2/5 1-3 hours Newbie friendliness 25/100

mskcc/beagle#1030 · Opened Apr 28, 2022
Need to updated paths Open

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

mskcc/beagle#1028 · 1 comment · Opened Apr 28, 2022
checking if historical pairing file was de-synced Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

mskcc/beagle#996 · Opened Feb 4, 2022
Check isCmoRequest flag on import Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

mskcc/beagle#987 · Opened Dec 23, 2021
Jobs restarted through the retry endpoint start with resume_attempts 0 Open

bug

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

mskcc/beagle#984 · Opened Dec 15, 2021
Job restart failed to submit if job_store is cleaned up Open

Difficulty 3/5 1-2 days Newbie friendliness 20/100

mskcc/beagle#963 · Opened Oct 20, 2021
Notifier search does not search on status Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

mskcc/beagle#939 · Opened Sep 14, 2021
Modified_date should have db_index=true Open

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

mskcc/beagle#929 · Opened Aug 30, 2021
Queries on created_date do not work Open

bug

Difficulty 4/5 3-5 days Newbie friendliness 15/100

mskcc/beagle#928 · Opened Aug 30, 2021
Add migration to backfill jira ids to jobgroups Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

mskcc/beagle#927 · Opened Aug 30, 2021
Need to backfill deliveryDate metadata on empty fields Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

mskcc/beagle#926 · Opened Aug 30, 2021
Many of the jobgroup jira_id fields are empy Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 45/100

mskcc/beagle#925 · Opened Aug 24, 2021
Handle JIRA status when 0 samples are imported Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

mskcc/beagle#924 · Opened Aug 23, 2021
Number of runs that complete differs from the number of runs that succeeded in OperatorRun Open

bug

Difficulty 4/5 3-5 days Newbie friendliness 35/100

mskcc/beagle#920 · Opened Aug 19, 2021
Some pooled normal fastq files show up twice in the mapping file Open

Difficulty 3/5 1-2 days Newbie friendliness 30/100

mskcc/beagle#917 · Opened Aug 18, 2021
Elastic apm configuration parameters should be set through env Open

Difficulty 2/5 1-3 hours Newbie friendliness 38/100

mskcc/beagle#915 · Opened Aug 16, 2021
Assign study id(s) to sample metadata, IMPACT/HemePACT data sets mostly Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

mskcc/beagle#891 · Opened Jun 29, 2021
Refactor runner/tasks to work with abstract RunObjects in order to support Nextflow Open

Difficulty 5/5 Over a week Newbie friendliness 30/100

mskcc/beagle#888 · Opened Jun 22, 2021
[MetaDB] Separate NATS job into different queue Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

mskcc/beagle#887 · Opened Jun 22, 2021
[MetaDB] - Change deploy script to start NATS listening job Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

mskcc/beagle#886 · Opened Jun 22, 2021
Update helix filters operator output directory Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

mskcc/beagle#885 · Opened Jun 18, 2021
Argos operator - need to fix pairing with pooled normals through /v0/run/operator/pairs Open

bug

Difficulty 4/5 3-5 days Newbie friendliness 25/100

mskcc/beagle#884 · Opened Jun 18, 2021
Missing conflict reasons Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

mskcc/beagle#880 · Opened Jun 15, 2021
filter_redact=True behavior inconsistent; what is expected behavior Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

mskcc/beagle#877 · Opened Jun 9, 2021
Restarting jobs with updates to inputs Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

mskcc/beagle#875 · Opened Jun 8, 2021
Standardize logging for Celery tasks Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

mskcc/beagle#863 · Opened Jun 1, 2021
Hiseq Rapid Run and Hiseq High Output conflict Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

mskcc/beagle#854 · 4 comments · Opened May 27, 2021
For ETL, assign dirs, subdirs, and files being moved to CMO storage space to group cmoigo Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

mskcc/beagle#846 · Opened May 18, 2021
Add PipelineType Open

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

mskcc/beagle#843 · Opened May 18, 2021
Pipeline Completed before all runs are completed Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

mskcc/beagle#833 · Opened May 7, 2021
Fix started time for runs Open

Difficulty 5/5 Over a week Newbie friendliness 10/100

mskcc/beagle#826 · 1 comment · Opened May 3, 2021
Job notification when an operator receives bad inputs errors out Open

Difficulty 2/5 1-3 hours Newbie friendliness 55/100

mskcc/beagle#821 · Opened Apr 15, 2021
Deployment strategy for Voyager Open

Difficulty 5/5 Over a week Newbie friendliness 15/100

mskcc/beagle#820 · 1 comment · Opened Apr 14, 2021
Updated metadata JSON from beagle_etl sometimes don't output all json files into directory Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

mskcc/beagle#806 · Opened Apr 6, 2021
Use Batch call to get Status of Job from Ridgeback Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

mskcc/beagle#803 · Opened Apr 6, 2021
Put work dir, lsf.log, input.json paths in Jira comments Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

mskcc/beagle#801 · 1 comment · Opened Apr 5, 2021
Regex query does not seem to be working Open

mskcc/beagle#786 · 1 assignee · Opened Mar 30, 2021
parallelize access operators Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

mskcc/beagle#785 · Opened Mar 30, 2021
Index table and endpoint for autocomplete Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

mskcc/beagle#777 · Opened Mar 29, 2021
Value queries on the same field should be treated as OR queries Open

mskcc/beagle#775 · 3 comments · 1 assignee · Opened Mar 25, 2021
Configure LSF walltime per Run Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 35/100

mskcc/beagle#742 · Opened Mar 8, 2021

mskcc/beagle

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