I am interested in running Uniprot's Protein descriptor model, ProtNLM, to add some bonus descriptors for a big chunk of protein sequence I have. They have a trial notebook available here that I demoed in mid-February without issue. I believe I had to change the lines !python3 -m pip install -q -U tensorflow==2.8.2 !python3 -m pip install -q -U tensorflow-text==2.8.2 to be >=2.8.2 since the 2.8.2 version couldn't be installed, but I was able to predict some proteins and show it off. Now, when I login to this demo notebook, I can't run the model whatsoever. The third cell, which intakes the sequence, can't find the run_inference() function: NameError Traceback (most recent call last) <ipython-input-5-4a7325a0e004> in <cell line: 0>() 8 sequence = sequence.replace(' ', '') 9 ---> 10 names, scores = run_inference(sequence) 11 12 for name, score, i in zip(names, scores, range(len(names))): NameError: name 'run_inference' is not defined I didn't see this function defined in the notebook, so I assumed it was internal to tensorflow (maybe only version 2.8.2, but I couldn't find anything in searching docs), or otherwise loaded with the model. How can I get this script running again? Continue reading...
