vqdang

@John-P Aside from the adhoc implementation for multiplex OME TIFF no z-axis, no time axis. This is the fix location of what I think is a bug. https://github.com/TissueImageAnalytics/tiatoolbox/blob/794662db6043c9fa230b8e4a01d7b7dd01a06661/tiatoolbox/wsicore/wsireader.py#L3552-L3585

I heavily discourage using the TensorFlow branch but the link is here https://github.com/vqdang/hover_net/tree/tensorflow-final/src#training

Hi @jjhbw , I was busied with other stuffs. I ended up rolling another version for not doing the caching. I have looked at your version a while back, here...

Could you please detail how you performed this? This requires you to alter either https://github.com/vqdang/hover_net/blob/9b21c8620313b2cd2458611b244e4a4ef4ee8865/run_train.py#L274 or the https://github.com/vqdang/hover_net/blob/9b21c8620313b2cd2458611b244e4a4ef4ee8865/models/hovernet/opt.py#L23 to manually hook the pretrained weights from the first phase. If you...

Hi, you can refer to this https://github.com/TissueImageAnalytics/CoNIC/tree/docker-template/conic_baseline to use the inference code. The above page also contains the pretrained HoVerNet on Lizard for the CONIC challenge. If you are not...

I think I may know what is wrong then now that I reread your comment. > So I transfer run_infer code from MASTER to CONIC, I don't know is it...

I will leave this open, this bug is peculiar. Could you please provide your system information if possible? It may help others later. Thank you @hitxiaoting

Hi, I am sorry for the late reply. The above can happen when the number of instances of type 1 for training is small. I think it should be the...

Not sure of your exact setup but that error often happens due to `batch_size` of the last step being 1. Try to ensure that `batch_size` is always > 1. https://github.com/vqdang/hover_net/issues/103#issuecomment-798997624

Hi @kiven1213 , I'm not exactly sure which functionality you are speaking about here. Pairing is only done in metrics code, which is either in PQ https://github.com/vqdang/hover_net/blob/a0f80c7acb9a14964d597d15d7ebd9688a0230cb/metrics/stats_utils.py#L178 or in here...