biolink/kgx

!!set markup seen in KGX yaml output

RichardBruskiewich opened this issue · 2 comments

Various YAML outputs from KGX exhibit spurious !!set markup. This should be eliminated since it suggests a stage of error in the output which doesn't really exist.

Perhaps test_generate_graph_stats() in unit\test_summarize_graph.py can serve as a starting point for iterative repair of this flaw?

I initially focused on the 'kgx-summary' mode output of the KGX graph-summary command but I noticed that the YAML output (not commonly used in the) 'meta-knowledge-graph' mode of KGX graph-summary, has some additional strange artefacts (in addition to !!set tags). This issue is thus extended to decipher these (maybe we need to figure out what a YAML of a meta-knowledge-graph really needs to look like?)

Resolved by PR #361