From the round-2 review of #244 (#84).
The census folds entity-qualified namespaces into their registry for some registries:
The same shape stays unfolded for other counted heatmap registries:
| namespace |
registry |
Mech |
occurrences |
gtdb.genome |
GTDB |
TaxonMech |
135,164 |
pdb.ligand |
PDB |
ProteinTraitsMech |
14,863 |
pdb-ccd |
PDB |
AntibioticMech |
333 |
uniprot.location |
UniProt |
CellStructureMech |
656 |
uniprot.ptm |
UniProt |
ProteinTraitsMech |
468 |
UniProtKB-KW |
UniProt |
ProteinTraitsMech |
127 |
RHEA-COMP |
RHEA |
ProteinTraitsMech |
11,169, in grounding: fields |
TaxonMech's genome_id: field holds both img.taxon: (counted) and gtdb.genome: (dropped). The README's stated rule doesn't match the code.
Fix: write down one rule and apply it evenly. The precedent in norm is to fold every namespace named for or qualified by a counted registry into that registry.
From the round-2 review of #244 (#84).
The census folds entity-qualified namespaces into their registry for some registries:
gold.ecosystem,bacdive.isolation_sourceandpubchem.compound, before Fold every spelling of a registry the census already counts #244;kegg.compound,kegg.drug,KEGG_REACTION,img.taxon,mediadive.*andpubchem.aid, in Fold every spelling of a registry the census already counts #244.The same shape stays unfolded for other counted heatmap registries:
gtdb.genomepdb.ligandpdb-ccduniprot.locationuniprot.ptmUniProtKB-KWRHEA-COMPgrounding:fieldsTaxonMech's
genome_id:field holds bothimg.taxon:(counted) andgtdb.genome:(dropped). The README's stated rule doesn't match the code.Fix: write down one rule and apply it evenly. The precedent in
normis to fold every namespace named for or qualified by a counted registry into that registry.