DnlRKorn

Update rbo.py

1

The previous link https://researcher.watson.ibm.com/researcher/files/us-fagin/topk.pdf is now dead; I replaced it with a link to the journal paper and added citations for both papers for accessibility in the future (in case...

'n_drugs' parameter appears to not function correctly when passing in an integer via a TRAPI Query

6

Hey all, I'm playing around with toggling the number of results from a specific TRAPI query. When I run the following query `{ "message": {"query_graph": { "nodes": { "disease": {...

Documentation: Many stub markdown articles with little or no content

1

``` for x in $(find . -name "*.md"); do wc -w $x; done | awk -F ' ' '$1

Add in flags which enable creation of nodes grouped by source

3

Posting as a result of KG Construction Crew discussion on July 8, 2024. The current configuration of Koza is to generate one large TSV file for all nodes parsed from...

**Mondo term (ID and Label)** MONDO:0003778/ "inborn error of immunity" MONDO:0009453/ "immune deficiency disease" MONDO:0021094/ "immunodeficiency disease" **Suggested revision and reasons** MONDO:0003778 should be changed to be a subclass of...

Koza doesn't play nicely with generators

2

I tried to replace the following line of code ``` while (row := koza_app.get_row()) is not None: xyz ``` with ``` koza_app = get_koza_app("go_annotation") def row_gen(): while True: try: row...

Weirdness in Ubergraph around RO and BFO labels (two labels for one CURIE)

1

I ran a small script that grabbed some labels from Ubergraph for some CURIEs. And got some errors (the following uses Oaklib) ``` (ORION) [dkorn@ht1 obo-labo]$ python check_for_mapping_conflicts.py WARNING:root:Multiple labels...

This issue was mentioned in #611 as something that should be a fix. **Bug/Typo/Error description** Some of our RO terms have duplicated labels, these are also getting slurped into Ubergraph...