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Runtime error
Runtime error
Update app.py
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app.py
CHANGED
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@@ -4,6 +4,21 @@ from transformers.models.esm.openfold_utils.feats import atom14_to_atom37
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from proteins_viz import *
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import gradio as gr
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import spaces
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def read_mol(molpath):
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with open(molpath, "r") as fp:
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@@ -114,7 +129,7 @@ def fold_protein(test_protein):
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f.write("".join(pdb))
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image = take_care("output_structure.pdb")
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html = molecule("output_structure.pdb")
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return image, html
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iface = gr.Interface(
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title="everything-ai-proteinfold",
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@@ -125,7 +140,7 @@ iface = gr.Interface(
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lines=5,
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value=f"Paste or write amino-acidic sequence here",
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),
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outputs=[gr.Image(label="Protein static image"), gr.HTML(label="Protein 3D model")],
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examples=[
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"MVHLTPEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH",
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"MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPDESGPGCMSCKCVLS",
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from proteins_viz import *
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import gradio as gr
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import spaces
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from gradio_molecule3d import Molecule3D
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reps = [
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{
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"model": 0,
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"chain": "",
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"resname": "",
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"style": "stick",
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"color": "whiteCarbon",
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"residue_range": "",
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"around": 0,
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"byres": False,
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"visible": False
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}
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]
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def read_mol(molpath):
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with open(molpath, "r") as fp:
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f.write("".join(pdb))
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image = take_care("output_structure.pdb")
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html = molecule("output_structure.pdb")
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return image, html, "output_structure.pdb"
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iface = gr.Interface(
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title="everything-ai-proteinfold",
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lines=5,
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value=f"Paste or write amino-acidic sequence here",
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),
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outputs=[gr.Image(label="Protein static image"), gr.HTML(label="Protein 3D model"), Molecule3D(label="Molecular 3D model", reps=reps)],
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examples=[
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"MVHLTPEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH",
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"MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPDESGPGCMSCKCVLS",
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