Selected GH17 results for 10^6 structures

GH17 substructure search speed

OpenBabel with binary+SMILES storage and FP2 fingerprint

Query	Hits	no Index	Hits	with Index
GH2	4840	108807 ms	4840	21164 ms
GH7	260	105050 ms	260	1934 ms
GH13	580	118978 ms	580	52416 ms
GH16	26910	109886 ms	26910	64742 ms

Indigo with binary storage and ext+sub fingerprint

Query	Hits	no Index	Hits	with Index
GH2	4840	213075 ms	4840	27887 ms
GH7	410	178963 ms	410	4451 ms
GH13	580	251938 ms	580	39134 ms
GH16	27100	172534 ms	27100	80523 ms

Bingo 1.7beta2 with molfiles as text storage

Query	Hits	no Index	Hits	with Index
GH2	4710	647889 ms	4710	21733 ms
GH7	410	538784 ms	410	6658 ms
GH13	580	675093 ms	580	12418 ms
GH16	27100	528891 ms	27100	28541 ms

Index build times

System	Index build time
pgchem with OpenBabel or Indigo	352137 ms
Bingo	3458681ms

Again, Bingo without it's index is apparently killed by the overhead of parsing text into the internal molecule format. With index it's a mixed bag, while it shines at GH13 and GH16, pgchem is about equal or faster at GH2 and GH7.