compute_stats.py [for type mode]

I failed to get compute_stats output using this command:

python compute_stats.py --mode=type --pred_dir=/home/hovernet/mydrive/HoverNet/hover_net/logs/infer_output/mat --true_dir=/home/hovernet/mydrive/HoverNet/hover_net/dataset/CoNSeP/Test/Labels

Traceback (most recent call last): File “compute_stats.py”, line 248, in <module> run_nuclei_type_stat(args.pred_dir, args.true_dir) File “compute_stats.py”, line 104, in run_nuclei_type_stat paired_all = np.concatenate(paired_all, axis=0) File “<array_function internals>”, line 6, in concatenate ValueError: need at least one array to concatenate

Apparently, the code failed to get the correct .mat files in the predictions folder. After opening the prediction .mat file, I only got “inst_map” and inst_type. I wonder there is no “inst_centroid” in the prediction folder got through inference.

[MTalhaAbdullah]

@vqdang Thank you so much, now it’s working. I just had to add “/” at the end of the path to make it run.

[MTalhaAbdullah]

I failed to get compute_stats output using this command:

python compute_stats.py --mode=type --pred_dir=/home/hovernet/mydrive/HoverNet/hover_net/logs/infer_output/mat --true_dir=/home/hovernet/mydrive/HoverNet/hover_net/dataset/CoNSeP/Test/Labels

Traceback (most recent call last): File “compute_stats.py”, line 248, in run_nuclei_type_stat(args.pred_dir, args.true_dir) File “compute_stats.py”, line 104, in run_nuclei_type_stat paired_all = np.concatenate(paired_all, axis=0) File “<array_function internals>”, line 6, in concatenate ValueError: need at least one array to concatenate

Apparently, the code failed to get the correct .mat files in the predictions folder. After opening the prediction .mat file, I only got “inst_map” and inst_type. I wonder there is no “inst_centroid” in the prediction folder got through inference.

Same issue as earlier, maybe the order of dictionary keys in prediction .mat files causing error. Shouldn’t the order of inst_uid and inst_type be the same as GT ?