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Browse files- Dockerfile +20 -0
- app.py +128 -0
- requirements.txt +6 -0
Dockerfile
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FROM python:3.9
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WORKDIR /code
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COPY ./requirements.txt /code/requirements.txt
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RUN pip install --no-cache-dir --upgrade -r /code/requirements.txt
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RUN useradd -m -u 1000 user
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USER user
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ENV HOME=/home/user \
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PATH=/home/user/.local/bin:$PATH
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WORKDIR $HOME/app
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COPY --chown=user . $HOME/app
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CMD ["uvicorn", "app:app", "--host", "0.0.0.0", "--port", "7860"]
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app.py
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from fastapi import FastAPI, Depends, HTTPException
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from pydantic import BaseModel
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import torch
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import torch.nn.functional as F
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import logging
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import sys
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from pinecone_text.sparse import SpladeEncoder
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import re
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logger = logging.getLogger(__name__)
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logging.basicConfig(
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level=logging.getLevelName("INFO"),
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handlers=[logging.StreamHandler(sys.stdout)],
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format="%(asctime)s - %(name)s - %(levelname)s - %(message)s")
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logging.info('Logging module started')
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def get_session():
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return True
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def is_database_online(session: bool = Depends(get_session)):
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return session
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app = FastAPI()
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# app.add_api_route("/healthz", health([is_database_online]))
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class EmbeddingModels:
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def __init__(self, device="cuda" if torch.cuda.is_available() else "cpu"):
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self.device = device
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logging.info(f'Using Device {self.device}')
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self.sparse_model = SpladeEncoder(device=self.device)
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def preprocessing_patent_data(self,text):
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# Removing Common tags in patent
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pattern0 = r'\b(SUBSTITUTE SHEET RULE 2 SUMMARY OF THE INVENTION|BRIEF DESCRIPTION OF PREFERRED EMBODIMENTS|BRIEF DESCRIPTION OF THE DRAWINGS/FIGURES|BEST MODE FOR CARRYING OUT THE INVENTION|BACKGROUND AND SUMMARY OF THE INVENTION|FIELD AND BACKGROUND OF THE INVENTION|BACKGROUND OF THE PRESENT INVENTION|FIELD AND BACKGROUND OF INVENTION|STAND DER TECHNIK- BACKGROUND ART|BRIEF DESCRIPTION OF THE DRAWINGS|DESCRIPTION OF THE RELATED ART|BRIEF SUMMARY OF THE INVENTION|UTILITY MODEL CLAIMS A CONTENT|DESCRIPTION OF BACKGROUND ART|BRIEF DESCRIPTION OF DRAWINGS|BACKGROUND OF THE INVENTION|BACKGROUND TO THE INVENTION|TÉCNICA ANTERIOR- PRIOR ART|DISCLOSURE OF THE INVENTION|BRIEF SUMMARY OF INVENTION|BACKGROUND OF RELATED ART|SUMMARY OF THE DISCLOSURE|SUMMARY OF THE INVENTIONS|SUMMARY OF THE INVENTION|OBJECTS OF THE INVENTION|THE CONTENT OF INVENTION|DISCLOSURE OF INVENTION|Disclosure of Invention|Complete Specification|RELATED BACKGROUND ART|BACKGROUND INFORMATION|BACKGROUND TECHNOLOGY|DETAILED DESCRIPTION|SUMMARY OF INVENTION|DETAILED DESCRIPTION|PROBLEM TO BE SOLVED|EFFECT OF INVENTION|WHAT IS CLAIMED IS|What is claimed is|What is Claim is|SUBSTITUTE SHEET|SELECTED DRAWING|BACK GROUND ART|BACKGROUND ART|Background Art|JPO&INPIT|CONSTITUTION|DEFINITIONS|Related Art|BACKGROUND|JPO&INPIT|JPO&NCIPI|COPYRIGHT|SOLUTION|SUMMARY)\b'
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text = re.sub(pattern0, '[SEP]', text, flags=re.IGNORECASE)
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text = ' '.join(text.split())
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# Removing all tags between Heading to /Heading and id=
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regex = r'<\s*heading[^>]*>(.*?)<\s*/\s*heading>|<[^<]+>|id=\"p-\d+\"|:'
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result = re.sub(regex, '[SEP]', text, flags=re.IGNORECASE)
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# find_formula_names from pat text to exclude it from below logic regex
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chemical_list = []
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pattern1 = r'\b((?:(?:H|He|Li|Be|B|C|N|O|F|Ne|Na|Mg|Al|Si|P|S|Cl|Ar|K|Ca|Sc|Ti|V|Cr|Mn|Fe|Co|Ni|Cu|Zn|Ga|Ge|As|Se|Br|Kr|Rb|Sr|Y|Zr|Nb|Mo|Tc|Ru|Rh|Pd|Ag|Cd|In|Sn|Sb|Te|I|Xe|Cs|Ba|La|Hf|Ta|W|Re|Os|Ir|Pt|Au|Hg|Tl|Pb|Bi|Po|At|Rn|Fr|Ra|Ac|Rf|Db|Sg|Bh|Hs|Mt|Ds|Rg|Cn|Nh|Fl|Mc|Lv|Ts|Og|Ce|Pr|Nd|Pm|Sm|Eu|Gd|Tb|Dy|Ho|Er|Tm|Yb|Lu|Th|Pa|U|Np|Pu|Am|Cm|Bk|Cf|Es|Fm|Md|No|Lr)\d*)+)\b'
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formula_names = re.findall(pattern1, result)
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for formula in formula_names:
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if len(formula)>=2:
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chemical_list.append(formula)
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# print("chemical_list:", chemical_list)
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# Remove numbers and alphanum inside brackets excluding chemical forms
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pattern2 = r"\((?![A-Za-z]+\))[\w\d\s,-]+\)|\([A-Za-z]\)"
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def keep_strings(text):
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matched = text.group(0)
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if any(item in matched for item in chemical_list):
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return matched
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return ' '
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cleaned_text = re.sub(pattern2, keep_strings, result)
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cleaned_text = ' '.join(cleaned_text.split())
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cleaned_text= re.sub("(\[SEP\]+\s*)+", ' ', cleaned_text, flags=re.IGNORECASE)
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# below new logic to remove chemical compounds (eg.chemical- polymerizable compounds)
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p_text2=re.sub('[\—\-\═\=]', ' ', cleaned_text)
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pattern1 = r'\b((?:(?:H|He|Li|Be|B|C|N|O|F|Ne|Na|Mg|Al|Si|P|S|Cl|Ar|K|Ca|Sc|Ti|V|Cr|Mn|Fe|Co|Ni|Cu|Zn|Ga|Ge|As|Se|Br|Kr|Rb|Sr|Y|Zr|Nb|Mo|Tc|Ru|Rh|Pd|Ag|Cd|In|Sn|Sb|Te|I|Xe|Cs|Ba|La|Hf|Ta|W|Re|Os|Ir|Pt|Au|Hg|Tl|Pb|Bi|Po|At|Rn|Fr|Ra|Ac|Rf|Db|Sg|Bh|Hs|Mt|Ds|Rg|Cn|Nh|Fl|Mc|Lv|Ts|Og|Ce|Pr|Nd|Pm|Sm|Eu|Gd|Tb|Dy|Ho|Er|Tm|Yb|Lu|Th|Pa|U|Np|Pu|Am|Cm|Bk|Cf|Es|Fm|Md|No|Lr)\d*)+)\b'
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cleaned_text = re.sub(pattern1, "", p_text2)
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cleaned_text = re.sub(' ,+|, +', ' ', cleaned_text)
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cleaned_text = re.sub(' +', ' ', cleaned_text)
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cleaned_text = re.sub('\.+', '.', cleaned_text)
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cleaned_text = re.sub('[0-9] [0-9] +', ' ', cleaned_text)
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cleaned_text = re.sub('( )', ' ', cleaned_text)
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cleaned_text=cleaned_text.strip()
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return cleaned_text
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def get_single_sparse_text_embedding(self, df_chunk):
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df_chunk = self.preprocessing_patent_data(df_chunk)
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txt_sp = self.sparse_model.encode_documents(df_chunk)
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# tensor = torch.tensor(txt_sp['values'])
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# normalized_tensor = F.normalize(tensor, p=2.0, dim=0, eps=1e-12)
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# values = normalized_tensor.tolist()
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# # Update the sparse_vector with normalized values
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# normalized_sparse_vector = {
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# 'indices': txt_sp['indices'],
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# 'values': values
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# }
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return txt_sp
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def normalize_sparse_vector_values(self,sparse_vector):
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"""
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Normalize the values of a sparse vector to a 0-1 range using min-max scaling,
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considering a known range of sparse scores.
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Args:
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sparse_vector: A dict representing a sparse vector with 'indices' and 'values'
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min_score: The minimum score in the range of sparse scores (default is 0)
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max_score: The maximum score in the range of sparse scores (default is 6000)
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Returns:
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A dict representing the sparse vector with normalized 'values'.
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"""
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# normalized_values = [(value - min_score) / (max_score - min_score) for value in sparse_vector['values']]
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self.tensor = torch.tensor(sparse_vector['values'])
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self.normalized_tensor = F.normalize(self.tensor, p=2.0, dim=0, eps=1e-12)
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values = self.normalized_tensor.tolist()
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# Update the sparse_vector with normalized values
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self.normalized_sparse_vector = {
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'indices': sparse_vector['indices'],
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'values': values
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}
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return self.normalized_sparse_vector
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model = EmbeddingModels()
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class TextInput(BaseModel):
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text: str
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@app.post("/sparse/")
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async def embed_text(item: TextInput):
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try:
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logging.info(f'Received text for embedding: {item.text}')
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embeddings = model.get_single_sparse_text_embedding(item.text)
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logging.info('Embedding process completed')
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return embeddings
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except Exception as e:
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logging.error(f'Error during embedding process: {e}')
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raise HTTPException(status_code=500, detail=str(e))
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requirements.txt
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fastapi
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uvicorn
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torch
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pinecone_text
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fastapi_health
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pinecone-text[splade]
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