How to fix the bug, Thanks

[zhaocc91]

cmd: python DeepCIP.py -n example -I circires_case.fa

The error is:

2025-03-05 16:02:41.308818: IRES prediction starting...

---

./pred_struc/ exist
Structure prediction...
[WARNING] window size 150 larger than sequence length 148
[WARNING] window size 150 larger than sequence length 148
[WARNING] window size 150 larger than sequence length 139
[WARNING] window size 150 larger than sequence length 62
[WARNING] window size 150 larger than sequence length 127
[WARNING] window size 150 larger than sequence length 107
[WARNING] window size 150 larger than sequence length 77
[WARNING] window size 150 larger than sequence length 54
[WARNING] window size 150 larger than sequence length 149
[WARNING] window size 150 larger than sequence length 130
[WARNING] window size 150 larger than sequence length 139
[WARNING] window size 150 larger than sequence length 138
[WARNING] window size 150 larger than sequence length 107
Structure prediction done!
Pre-processed data found: Graph_Data/processed/example_rna_graph.pt, loding...
Traceback (most recent call last):
File "DeepCIP.py", line 201, in
DeepCIP_predict()
File "DeepCIP.py", line 137, in DeepCIP_predict
...
obj = instantiator(cls, _cls_kwargs) if instantiator else cls(**_cls_kwargs)
File "fusion_gnn.py", line 166, in compiles.compiles.fusion_gnn.PL_Fusion.init
File "fusion_gnn.py", line 64, in compiles.compiles.fusion_gnn.Fusion_model.init
File "S_LSTM.py", line 470, in compiles.compiles.S_LSTM.PL_sLSTM.init
TypeError: new() missing 1 required positional argument: 'task'
(deepcip) chengchengzhao@user:/mnt/data/zcc/DeepCIP-main$

[zhouyx911]

This issue may be related to package versions. Based on my investigation, newer versions of torchmetrics introduced changes to certain parameters, which might be causing this error. I recommend downgrading torchmetrics to an earlier version, such as torchmetrics==0.9.3, and checking if the issue persists. If the problem remains unresolved, you may also need to downgrade PyTorch Lightning.