ling luo

icon indicating a website link https://lingluodlut.github.io/ icon indicating an email [email protected]

icon company Dalian University of Technology icon location China icon location Natural Language Processing, Biomedical Text Mining, Machine Learning

Results 7 comments of ling luo

Can get CUDA to work with torch but not with tensorflow

@JuanVargas Hi, I also meet the same problem. Do you solve it?

Error when using the finetuned model generated with example data

I think you used the unmatch lable.vocab files. The bioformer-softmax-es-finetune.h5 model should use ../vocab/AIO_label.vocab, as this model is trained to predict (Gene, Chemical, Disease, Variant, Species, CellLine, ALL) entity types,...

Integrate into Elasticsearch

Hi, we used the same config.json with the PubMedBERT model. I think you can find it in BiomedNLP-PubMedBERT-base-uncased-abstract folder.

typing_extensions issue

Hi, this issue is likely due to an incompatibility between the versions of the emoji and typing_extensions libraries installed in your environment, but not AIONER. Could you list the versions...

'LRSchedule_LINEAR' must override get_config()

Sorry for the late response. Could you provide more details? Which script did you run that caused this error?

Run on a device without GPU

Hi, You can run PhenoTagger using only the CPU, but it will process text slowly. I don't think this error is related to the GPU usage. It seems to be...

CUDA version issue

The issue of TensorFlow not detecting GPU devices is not caused by PhenoTagger. My current cuda version is 12.4. You can find the reason by checking TensorFlow's issues.