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Enzo Reis de Oliveira
commited on
Commit
·
cb4cd4f
1
Parent(s):
f3e37c7
Searching for smiles regardless of the position column
Browse files
app.py
CHANGED
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@@ -21,31 +21,44 @@ model = load_smi_ted(
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# 3) Single function to process either a single SMILES or a CSV of SMILES
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def process_inputs(smiles: str, file_obj):
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#
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if file_obj is not None:
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try:
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df_in = pd.read_csv(file_obj.name)
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embeddings = []
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for sm in smiles_list:
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vec = model.encode(sm, return_torch=True)[0].tolist()
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embeddings.append(vec)
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out_df = pd.DataFrame(embeddings)
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out_df.insert(0, "smiles", smiles_list)
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out_df.to_csv("embeddings.csv", index=False)
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msg = f"Processed batch of {len(smiles_list)} SMILES. Download embeddings.csv."
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return msg, gr.update(value="embeddings.csv", visible=True)
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except Exception as e:
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return f"Error processing batch: {e}", gr.update(visible=False)
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#
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smiles = smiles.strip()
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if not smiles:
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return "Please enter a SMILES or upload a CSV file.", gr.update(visible=False)
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try:
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vec = model.encode(smiles, return_torch=True)[0].tolist()
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#
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cols = ["smiles"] + [f"dim_{i}" for i in range(len(vec))]
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df_out = pd.DataFrame([[smiles] + vec], columns=cols)
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df_out.to_csv("embeddings.csv", index=False)
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@@ -53,6 +66,7 @@ def process_inputs(smiles: str, file_obj):
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except Exception as e:
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return f"Error extracting embedding: {e}", gr.update(visible=False)
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# 4) Build the Gradio Blocks interface
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with gr.Blocks() as demo:
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gr.Markdown(
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# 3) Single function to process either a single SMILES or a CSV of SMILES
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def process_inputs(smiles: str, file_obj):
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# Se um arquivo CSV for fornecido, processa em batch
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if file_obj is not None:
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try:
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df_in = pd.read_csv(file_obj.name)
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# Procura coluna "smiles" (case‐insensitive), mas sem aceitar prefixes/sufixos
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smiles_cols = [col for col in df_in.columns if col.lower() == "smiles"]
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if not smiles_cols:
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return (
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"Error: The CSV must have a column named 'Smiles' with the respective SMILES.",
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gr.update(visible=False),
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)
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smiles_col = smiles_cols[0]
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smiles_list = df_in[smiles_col].astype(str).tolist()
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embeddings = []
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for sm in smiles_list:
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vec = model.encode(sm, return_torch=True)[0].tolist()
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embeddings.append(vec)
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# Constroi DataFrame de saída
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out_df = pd.DataFrame(embeddings)
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out_df.insert(0, "smiles", smiles_list)
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out_df.to_csv("embeddings.csv", index=False)
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msg = f"Processed batch of {len(smiles_list)} SMILES. Download embeddings.csv."
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return msg, gr.update(value="embeddings.csv", visible=True)
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except Exception as e:
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return f"Error processing batch: {e}", gr.update(visible=False)
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# Modo single
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smiles = smiles.strip()
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if not smiles:
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return "Please enter a SMILES or upload a CSV file.", gr.update(visible=False)
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try:
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vec = model.encode(smiles, return_torch=True)[0].tolist()
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# Salva CSV com header
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cols = ["smiles"] + [f"dim_{i}" for i in range(len(vec))]
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df_out = pd.DataFrame([[smiles] + vec], columns=cols)
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df_out.to_csv("embeddings.csv", index=False)
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except Exception as e:
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return f"Error extracting embedding: {e}", gr.update(visible=False)
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+
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# 4) Build the Gradio Blocks interface
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with gr.Blocks() as demo:
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gr.Markdown(
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