Spaces:
Runtime error
Runtime error
Allow orbital tab to resolve names
Browse files
app.py
CHANGED
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@@ -86,9 +86,28 @@ def smiles_to_name(smiles: str) -> str:
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return f"No name available. Canonical SMILES: {canonical_smiles}"
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def smiles_to_molecular_orbitals(
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"""Generate HOMO/LUMO isosurfaces using Psikit, when available."""
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mol = _mol_from_smiles(smiles)
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if mol.GetNumAtoms() > 30:
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raise gr.Error("Please provide a molecule with 30 atoms or fewer for orbital visualization.")
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@@ -127,6 +146,11 @@ def smiles_to_molecular_orbitals(smiles: str) -> str:
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mol_block = Chem.MolToMolBlock(pk.mol)
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html_sections: list[str] = []
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labels = ["HOMO", "LUMO"]
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for cube_file, label in zip(cube_candidates[:2], labels):
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cube_data = cube_file.read_text()
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@@ -151,6 +175,9 @@ def smiles_to_molecular_orbitals(smiles: str) -> str:
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if not html_sections:
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return "<p>Could not prepare HOMO/LUMO visualizations.</p>"
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return "".join(html_sections)
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except Exception as exc: # pragma: no cover - runtime heavy
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return f"<p>Unable to compute molecular orbitals: {exc}</p>"
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@@ -230,10 +257,13 @@ smiles_to_name_interface = gr.Interface(
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orbital_interface = gr.Interface(
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fn=smiles_to_molecular_orbitals,
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inputs=
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outputs=gr.HTML(label="Molecular Orbitals"),
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api_name="smiles_to_mo",
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description="Generate HOMO/LUMO isosurfaces using Psikit (CPU-intensive).",
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)
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name_interface = gr.Interface(
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return f"No name available. Canonical SMILES: {canonical_smiles}"
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def smiles_to_molecular_orbitals(smiles_input: str, name_input: str) -> str:
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"""Generate HOMO/LUMO isosurfaces using Psikit, when available."""
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smiles = smiles_input.strip()
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name = name_input.strip()
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if not smiles and not name:
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raise gr.Error("Enter a SMILES string or a chemical name to compute orbitals.")
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if name:
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try:
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resolved = cirpy.resolve(name, "smiles")
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except Exception as exc:
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return f"<p>Could not resolve '{name}' to SMILES: {exc}</p>"
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if not resolved:
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return f"<p>No SMILES found for '{name}'. Try a different name or supply a SMILES directly.</p>"
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smiles = resolved
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if not smiles:
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raise gr.Error("Unable to determine SMILES for orbital calculation.")
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mol = _mol_from_smiles(smiles)
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canonical_smiles = Chem.MolToSmiles(mol)
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if mol.GetNumAtoms() > 30:
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raise gr.Error("Please provide a molecule with 30 atoms or fewer for orbital visualization.")
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mol_block = Chem.MolToMolBlock(pk.mol)
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html_sections: list[str] = []
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if name_input.strip():
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html_sections.append(
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f"<p><strong>Resolved '{name_input.strip()}' to SMILES:</strong> {canonical_smiles}</p>"
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)
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labels = ["HOMO", "LUMO"]
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for cube_file, label in zip(cube_candidates[:2], labels):
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cube_data = cube_file.read_text()
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if not html_sections:
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return "<p>Could not prepare HOMO/LUMO visualizations.</p>"
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if not html_sections:
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return "<p>Could not prepare HOMO/LUMO visualizations.</p>"
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return "".join(html_sections)
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except Exception as exc: # pragma: no cover - runtime heavy
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return f"<p>Unable to compute molecular orbitals: {exc}</p>"
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orbital_interface = gr.Interface(
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fn=smiles_to_molecular_orbitals,
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inputs=[
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gr.Textbox(label="SMILES", placeholder="e.g., CC(=O)O"),
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gr.Textbox(label="Chemical Name", placeholder="Optional, e.g., benzene"),
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],
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outputs=gr.HTML(label="Molecular Orbitals"),
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api_name="smiles_to_mo",
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description="Generate HOMO/LUMO isosurfaces using Psikit (CPU-intensive). Provide SMILES or a name.",
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)
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name_interface = gr.Interface(
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