Issues

• Make a plan for the jamo_updates branch from 2025

  Task

  microbiomedata/nmdc_automation#774 · Filter by author eecavanna opened on Sep 20, 2026
  2

  

• Issue with job filtering

  microbiomedata/nmdc_automation#773 · Filter by author samobermiller opened on Sep 18, 2026

• Consider integrating Sentry with nmdc_automation to leverage its error reporting and triage functionality

  Feature

  microbiomedata/nmdc_automation#761 · Filter by author eecavanna opened on Aug 12, 2026
  

• update readme

  microbiomedata/nmdc_automation#756 · Filter by author aclum opened on Jul 10, 2026

• stabilize automation unit tests from wf version upgrades

  backlog
  Task

  microbiomedata/nmdc_automation#738 · Filter by author jasmynp opened on Jun 9, 2026

• Add checks for compatible platform types in the scheduler

  microbiomedata/nmdc_automation#737 · Filter by author aclum opened on Jun 4, 2026

• update file input logic to enable running redirected input file urls on tahoma

  microbiomedata/nmdc_automation#735 · Filter by author samobermiller opened on Jun 4, 2026
  

• develop method/rules for rescheduling jobs that fail for memory

  microbiomedata/nmdc_automation#699 · Filter by author aclum opened on Mar 23, 2026

• automation failure code is still not correct

  microbiomedata/nmdc_automation#690 · Filter by author aclum opened on Mar 16, 2026
  

• Error killed scheduler (unable to find scaffold lineage tsv) and printed all input data objects to log file

  microbiomedata/nmdc_automation#678 · Filter by author samobermiller opened on Feb 3, 2026
  6

  

• Decrease watcher INFO: Slot... logging

  microbiomedata/nmdc_automation#672 · Filter by author kaijli opened on Jan 23, 2026
  4

• Generate empty WFE records to track has_failure_categorization

  needs discussion
  Feature

  microbiomedata/nmdc_automation#666 · Filter by author kaijli opened on Jan 8, 2026
  4

• Update MetaT_ReadCount version to 0.1.0

  Version Bump
  microbiomedata/nmdc_automation#647 · Filter by author kaijli opened on Nov 13, 2025

• cleanup of cromwell job code and references

  backlog
  microbiomedata/nmdc_automation#646 · Filter by author jasmynp opened on Nov 12, 2025
  2

  

• invalid job records created when data_generation_set records share has_output data objects

  microbiomedata/nmdc_automation#637 · Filter by author aclum opened on Nov 5, 2025
  2

  

• Replace Cromwell tests with JAWS counterparts

  microbiomedata/nmdc_automation#636 · Filter by author kaijli opened on Nov 5, 2025
  

• simplify generate_submission_files function

  priority-low
  microbiomedata/nmdc_automation#613 · Filter by author aclum opened on Oct 22, 2025

• Add function to update state from JAWS manual resubmits

  microbiomedata/nmdc_automation#602 · Filter by author kaijli opened on Sep 18, 2025

• add tenacity to json:validate request

  microbiomedata/nmdc_automation#596 · Filter by author aclum opened on Aug 28, 2025

• dynamic population of CPU depending on the compute site

  microbiomedata/nmdc_automation#588 · Filter by author aclum opened on Aug 9, 2025

• support a minimum version if data is being processed by nmdc_automation

  microbiomedata/nmdc_automation#581 · Filter by author aclum opened on Aug 1, 2025
  2

  

• add logic to have projects with the same study id

  microbiomedata/nmdc_automation#578 · Filter by author aclum opened on Jul 29, 2025
  

• scheduler logger bug

  microbiomedata/nmdc_automation#549 · Filter by author aclum opened on Jun 23, 2025
  

• Merge workflows.yaml and workflows-mt.yaml to a single file

  microbiomedata/nmdc_automation#548 · Filter by author mbthornton-lbl opened on Jun 20, 2025
  4

  

• Add try statement when outputs.json is empty

  backlog
  microbiomedata/nmdc_automation#544 · Filter by author aclum opened on Jun 18, 2025
  2