baranzinilab / psev Goto Github PK

• Please move production to ITRB prod asap
• Also we will want ITRB testing and staging soon

On line 117 of connect_all_patients.py, I end up with an empty list for direct_hit_list because the byte objects in node_list (line 28) have not been decoded to get strings. Therefore, the list in line 116 ends up with all False values. I fixed this by adding the following line right after node_list is read from file on line 28:

node_list = np.array([node.decode() for node in node_list])

This fixed the issue, giving me a list of 3183 items for direct_hit_list (on line 117). This, then, gave me the expected output:

SEP STATS: (3183,) Counter({'SideEffect': 1851, 'Compound': 922, 'Symptom': 257, 'Disease': 137, 'Gene': 16})