Examples of queries that time out (> 5 mins)

[andrewsu]

Using this issue to catalog queries that time out past the 5 minute threshold set by the ARS.

First example is a creative mode query for "what treats obstructive sleep apnea syndrome (MONDO:0007147)":

{
    "message": {
        "query_graph": {
            "edges": {
                "t_edge": {
                    "knowledge_type": "inferred",
                    "object": "on",
                    "predicates": [
                        "biolink:treats"
                    ],
                    "subject": "sn"
                }
            },
            "nodes": {
                "on": {
                    "categories": [
                        "biolink:Disease"
                    ],
                    "ids": [
                        "MONDO:0007147"
                    ]
                },
                "sn": {
                    "categories": [
                        "biolink:ChemicalEntity"
                    ]
                }
            }
        }
    }
}

[colleenXu]

Other queries that took > 5 min to run when I was testing templates locally:

"Treats" creative mode

All run the first two templates (direct + through pheno). So the 2nd template (through pheno) is what is taking a while to run. Original comment

DiseaseOrPheno Name	ID	Time
Noonan syndrome	MONDO:0018997	5 min 20 s (will be cut off)
Fabry disease	MONDO:0010526	5 min 43 s (will be cut off)
Nephrotic syndrome	MONDO:0005377	5 min 45 s (will be cut off)

---

Chem - affects - Gene

I don't have specific queries. My notes say that some of the chemicals/genes tested in the past and NOT recorded in the recent tests would take > 5 min to run (or would run quickly and return 0 results).