app.py

from transformers import AutoTokenizer, AutoModelForSequenceClassification
from scipy.special import softmax
import gradio as gr

tokenizer = AutoTokenizer.from_pretrained("armheb/DNA_bert_6")
model2 = AutoModelForSequenceClassification.from_pretrained("simecek/promoters_demo")

def kmers(s, k=6):
  return [s[i:i + k] for i in range(0, len(s)-k+1)]

def tokenization(x): 
  return tokenizer(" ".join(kmers(x["seq"])), return_tensors="pt")

categories = ["not-promoter", "promoter"]

def is_promoter(DNAseq):
  input = tokenization({"seq": DNAseq})
  logits = model2(**input)['logits'].detach().numpy()
  probs = softmax(logits, axis=1)[0]
  probs = map(float, probs)

  return dict(zip(categories, probs))

text = gr.inputs.Textbox(placeholder="Input DNA sequence", lines=5)
label = gr.outputs.Label(label = "Is it a promoter?")

intf = gr.Interface(fn=is_promoter, inputs=text, outputs=label)

intf.launch()