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Dear Rolf,
Thank you very much for your comprehensive comments. I have tried them one by one.
(1) I have reduced dt from 18 seconds to 9 seconds for a resolution of 0.0275 degree, the issue remains. According to the other (and my previous) successful setups, 18s should be fine.
(2) I indeed have two versions of cdo installed, however, I tried both versions, and the issue remains the same. I am not sure whether there are any other environment setups that I have changed that could possibly cause the problem… need to have further check.
(3) I made “diff old_YUSPECIF new_YUPECIF”, and they are the same.
(4) I tried to have more frequent outputs and noticed that the NaN values arise from a specific location in the variables PS and PMSL and then spread to other variables and regions. My dt is 9s and the NaN occurred between 27s and 36 s. I also checked the YUPRHUMI and YUPRMASS, there are almost all NaN values except ntstep=0.
It seems that I cannot attach files in the channel. Thanks in advance for any further comments.
Cheers,
Delei