Evaluation

ID
bdc5094c-e2a5-4f74-bd9a-e69c5a76fcf7
Submission ID
9b760f54-6f7e-4067-917c-b954e20a50c9
Method ID
dc854b14-ba0a-43df-af86-bc99177f9066
Status
Succeeded
User
User Mugshot NiTo 
Challenge
PUMA
Phase
Track 2: Preliminary test phase
Algorithm
Track2Puma (Image Version 9ecdbab2-3cb2-406e-8f7d-554400183797 )
Submission created
March 14, 2025, 12:28 p.m.
Result created
March 14, 2025, 12:28 p.m.
Position on leaderboard
15
Comment:
pp3

Metrics

{
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}