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Triage preserved test-helper chores and historical review artifacts separately

Status: Open.

#1090 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 15, 2026

Make merged archives self-describing after relocation with a bundled member manifest

Status: Open.

#1075 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 14, 2026

Triage imported ontology prefix aliases and contributor metadata leaked as graph classes

Status: Open.

#1074 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 14, 2026

Track and reconcile 696 unexpected anonymous merged nodes with per-ID source evidence

Status: Open.

#1073 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 14, 2026

Review tools falsely flag registered time: IDs and inherited PATO quality decomposition

Status: Open.

#1072 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 14, 2026

GTDB, LPSN and UPA emit 1,762,462 edges with empty knowledge_level and agent_type

Status: Open.

#1071 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 14, 2026

BacDive and MediaDive serialize edge provenance as Python list text (4,274,895 merged rows)

Status: Open.

#1070 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 14, 2026

data/ subdirectories outside raw/, transformed/ and merged/ are not gitignored — a 133 MB GOLD snapshot is one git add away

Status: Open.

#1068 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 13, 2026

Cross-transform guard misses reads written as output_base_dir / SOURCE_CONSTANT, so metatraits_gtdb→gtdb is invisible to it

Status: Open.

#1067 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 13, 2026

kgx_source.py depends on KGX 2.7.0 internals with no version guard, and its copied read_edges has already drifted

Status: Open.

#1066 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 13, 2026

Stale uppercase GOLD registration in kg_model_review.py and custom_curies.yaml after #1051 unified on gold:

Status: Open.

#1065 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 13, 2026

60 MicrobeDecoder assembly cross-references still dangle after #1050; 41 have their GCF/GCA twin declared by gtdb

Status: Open.

#1064 In Knowledge-Graph-Hub/kg-microbe;

· realmarcin opened on Sep 13, 2026