AgenticMultimodalRag / utils /document_processor.py
irajkoohi's picture
chore: update app
fa9c5f0
Raw
History Blame Contribute Delete
23.3 kB
"""
Multimodal document processor: handles PDFs (text, tables, charts/images),
DOCX, XLSX, CSV, and scanned images via OCR.
"""
import os
import io
import base64
import logging
from pathlib import Path
from typing import List, Dict, Any, Optional, Tuple
import hashlib
from PIL import Image
import pytesseract
from pypdf import PdfReader
import pandas as pd
logger = logging.getLogger(__name__)
SUPPORTED_EXTENSIONS = {
".pdf", ".png", ".jpg", ".jpeg", ".tiff", ".bmp", ".gif",
".docx", ".xlsx", ".csv", ".txt"
}
def get_file_hash(filepath: str) -> str:
"""Compute MD5 hash of file for dedup."""
h = hashlib.md5()
with open(filepath, "rb") as f:
for chunk in iter(lambda: f.read(8192), b""):
h.update(chunk)
return h.hexdigest()
def image_to_base64(image: Image.Image, max_size: Tuple[int, int] = (512, 512)) -> str:
"""Resize and encode a PIL image to base64."""
image.thumbnail(max_size, Image.LANCZOS)
buf = io.BytesIO()
image.save(buf, format="PNG")
return base64.b64encode(buf.getvalue()).decode("utf-8")
def ocr_image(image: Image.Image) -> str:
"""Run Tesseract OCR on a PIL image."""
try:
text = pytesseract.image_to_string(image, config="--oem 3 --psm 3")
return text.strip()
except Exception as e:
logger.warning(f"OCR failed: {e}")
return ""
def extract_pdf(filepath: str) -> List[Dict[str, Any]]:
"""
Extract content from PDF:
- Text pages → text chunks
- Pages with embedded images → OCR + base64 stored in metadata
- Tables detected via simple heuristic (pipe/tab-separated lines)
Returns list of chunk dicts: {text, metadata}
"""
chunks = []
reader = PdfReader(filepath)
filename = Path(filepath).name
for page_num, page in enumerate(reader.pages, start=1):
page_text = page.extract_text() or ""
# Detect table-like content
lines = page_text.split("\n")
table_lines = [l for l in lines if l.count("|") > 2 or l.count("\t") > 2]
has_table = len(table_lines) > 3
chunk_meta = {
"source": filename,
"page": page_num,
"type": "table" if has_table else "text",
"file_hash": get_file_hash(filepath),
}
if page_text.strip():
chunks.append({
"text": f"[Source: {filename}, Page {page_num}]\n{page_text.strip()}",
"metadata": chunk_meta,
})
return chunks
def extract_image(filepath: str) -> List[Dict[str, Any]]:
"""OCR a standalone image file."""
filename = Path(filepath).name
pil_img = Image.open(filepath).convert("RGB")
ocr_text = ocr_image(pil_img)
# image_b64 intentionally omitted — not needed for vector retrieval
return [{
"text": f"[Source: {filename}]\n{ocr_text if ocr_text else '[Image with no detectable text]'}",
"metadata": {
"source": filename,
"type": "image",
"file_hash": get_file_hash(filepath),
},
}]
def extract_docx(filepath: str) -> List[Dict[str, Any]]:
"""Extract text and tables from DOCX."""
from docx import Document
filename = Path(filepath).name
doc = Document(filepath)
chunks = []
file_hash = get_file_hash(filepath)
full_text = "\n".join(p.text for p in doc.paragraphs if p.text.strip())
if full_text:
chunks.append({
"text": f"[Source: {filename}]\n{full_text}",
"metadata": {"source": filename, "type": "text", "file_hash": file_hash},
})
for t_idx, table in enumerate(doc.tables):
rows = [[cell.text.strip() for cell in row.cells] for row in table.rows]
table_text = "\n".join(" | ".join(row) for row in rows)
if table_text.strip():
chunks.append({
"text": f"[Source: {filename}, Table {t_idx+1}]\n{table_text}",
"metadata": {"source": filename, "type": "table", "table_index": t_idx, "file_hash": file_hash},
})
return chunks
def extract_xlsx(filepath: str) -> List[Dict[str, Any]]:
"""Extract all sheets from XLSX as text."""
filename = Path(filepath).name
chunks = []
file_hash = get_file_hash(filepath)
xf = pd.ExcelFile(filepath)
for sheet in xf.sheet_names:
df = pd.read_excel(filepath, sheet_name=sheet)
text = df.to_string(index=False)
chunks.append({
"text": f"[Source: {filename}, Sheet: {sheet}]\n{text}",
"metadata": {"source": filename, "type": "table", "sheet": sheet, "file_hash": file_hash},
})
return chunks
def extract_csv(filepath: str) -> List[Dict[str, Any]]:
filename = Path(filepath).name
df = pd.read_csv(filepath)
text = df.to_string(index=False)
return [{
"text": f"[Source: {filename}]\n{text}",
"metadata": {"source": filename, "type": "table", "file_hash": get_file_hash(filepath)},
}]
def extract_txt(filepath: str) -> List[Dict[str, Any]]:
filename = Path(filepath).name
with open(filepath, "r", encoding="utf-8", errors="ignore") as f:
text = f.read()
return [{
"text": f"[Source: {filename}]\n{text}",
"metadata": {"source": filename, "type": "text", "file_hash": get_file_hash(filepath)},
}]
def process_document(filepath: str) -> List[Dict[str, Any]]:
"""Route file to the correct extractor."""
ext = Path(filepath).suffix.lower()
if ext == ".pdf":
return extract_pdf(filepath)
elif ext in {".png", ".jpg", ".jpeg", ".tiff", ".bmp", ".gif"}:
return extract_image(filepath)
elif ext == ".docx":
return extract_docx(filepath)
elif ext == ".xlsx":
return extract_xlsx(filepath)
elif ext == ".csv":
return extract_csv(filepath)
elif ext == ".txt":
return extract_txt(filepath)
else:
raise ValueError(f"Unsupported file type: {ext}")
def chunk_text(text: str, chunk_size: int = 800, overlap: int = 150) -> List[str]:
"""Split long text into overlapping chunks."""
if len(text) <= chunk_size:
return [text]
chunks = []
start = 0
while start < len(text):
end = min(start + chunk_size, len(text))
chunks.append(text[start:end])
if end == len(text):
break
start += chunk_size - overlap
return chunks
def ocr_text_to_dataframe(text: str):
"""Parse space-separated OCR table text into a DataFrame. Returns None if not table-like."""
import re as _re
from collections import Counter as _Counter
_date_re = _re.compile(r'\d{4}-\d{2}-\d{2}|\d{1,2}/\d{1,2}/\d{4}')
_num_re = _re.compile(r'^-?\d[\d,.]*$')
_pipe_re = _re.compile(r'^\|+$')
def _tokenize(line):
return [t for t in line.split() if not _pipe_re.match(t)]
def _is_header_candidate(tokens):
if len(tokens) < 2:
return False
# Skip lines where every token is ≤2 chars — likely spreadsheet column letters
if all(len(t.strip('._|')) <= 2 for t in tokens):
return False
if bool(_date_re.search(' '.join(tokens))):
return False
numeric = sum(1 for t in tokens if _num_re.match(t))
alpha = sum(1 for t in tokens if _re.match(r'^[a-zA-Z#_]+$', t))
is_leading_rownum = numeric == 1 and bool(_num_re.match(tokens[0].rstrip(',')))
return alpha >= len(tokens) * 0.5 and (numeric == 0 or is_leading_rownum)
def _merge_to_n(tokens, n_target):
# Remove | artifacts from each token
tokens = [t.replace('|', '') for t in tokens]
tokens = [t for t in tokens if t]
# Pass 1: tokens ending with '.' (e.g. "Rep.") merge into preceding token
merged = []
for t in tokens:
if merged and t.endswith('.'):
merged[-1] = merged[-1] + '_' + t.rstrip('.')
else:
merged.append(t)
# Pass 2: tokens ending with '_' (OCR cell-border artifact) merge into preceding
# e.g. "Unit" + "Price_" → "Unit_Price"
merged2 = []
for t in merged:
if merged2 and t.endswith('_'):
merged2[-1] = merged2[-1] + '_' + t.rstrip('_')
else:
merged2.append(t)
# Pass 3: if still over target, merge the shortest adjacent pair
while len(merged2) > n_target:
best_i = min(range(len(merged2) - 1),
key=lambda i: len(merged2[i]) + len(merged2[i + 1]))
merged2[best_i] = merged2[best_i] + '_' + merged2[best_i + 1]
merged2.pop(best_i + 1)
return merged2
lines = [l.strip() for l in text.split('\n') if l.strip()]
data_lines = [l for l in lines if not l.startswith('[Source:')]
if len(data_lines) < 3:
return None
# Collect header candidates from first 15 lines
candidates = []
for i, line in enumerate(data_lines[:15]):
tokens = _tokenize(line)
if _is_header_candidate(tokens):
candidates.append((i, tokens))
if not candidates:
return None
# Score each candidate: determine expected column count from data-row token mode,
# then count how many rows fall within ±2 of that count.
best_idx = None
best_score = -1
best_skip_first = False
best_raw_tokens = None
best_n_data_cols = 0
for cand_i, cand_tokens in candidates:
raw = list(cand_tokens)
skip_first = bool(_num_re.match(raw[0].rstrip(',')))
if skip_first:
raw = raw[1:]
row_counts = []
for line in data_lines[cand_i + 1:]:
rtoks = _tokenize(line)
if not rtoks or len(rtoks) < 2:
continue
if skip_first and rtoks[0][:1].isdigit():
rtoks = rtoks[1:]
row_counts.append(len(rtoks))
if not row_counts:
continue
n_data_cols = _Counter(row_counts).most_common(1)[0][0]
# Skip headers with fewer tokens than data columns — can't represent all columns
if len(raw) < n_data_cols:
continue
score = sum(1 for c in row_counts if abs(c - n_data_cols) <= 2)
if score > best_score:
best_score = score
best_idx = cand_i
best_skip_first = skip_first
best_raw_tokens = raw
best_n_data_cols = n_data_cols
if best_idx is None or best_score < 2:
return None
merged_headers = _merge_to_n(best_raw_tokens, best_n_data_cols)
n_cols = len(merged_headers)
# Dedupe column names
seen: dict = {}
final_headers = []
for h in merged_headers:
if h in seen:
seen[h] += 1
final_headers.append(f"{h}_{seen[h]}")
else:
seen[h] = 0
final_headers.append(h)
rows = []
for line in data_lines[best_idx + 1:]:
tokens = _tokenize(line)
if not tokens or len(tokens) < 2:
continue
tokens = [t.rstrip(',') for t in tokens]
if best_skip_first and tokens[0][:1].isdigit():
tokens = tokens[1:]
if len(tokens) > n_cols:
row = tokens[:n_cols - 1] + [' '.join(tokens[n_cols - 1:])]
else:
row = tokens + [''] * (n_cols - len(tokens))
# Skip mostly-empty rows (footer noise)
if row.count('') >= max(1, n_cols // 2):
continue
rows.append(row)
if len(rows) < 2:
return None
df = pd.DataFrame(rows, columns=final_headers)
for col in df.columns:
series = (df[col].str.replace(',', '', regex=False)
.str.replace('$', '', regex=False)
.str.replace('(', '-', regex=False)
.str.replace(')', '', regex=False))
numeric = pd.to_numeric(series, errors='coerce')
if numeric.notna().sum() > len(df) * 0.5:
df[col] = numeric
continue
try:
dates = pd.to_datetime(df[col], format='mixed', errors='coerce')
if dates.notna().sum() > len(df) * 0.5:
df[col] = dates
except Exception:
pass
return df
def _img_table_is_useful(df) -> bool:
"""Return True if the DataFrame has usable table data.
Accepts numeric tables AND text-only lookup tables (e.g. Sales Rep → Region).
Rejects OCR false-positives: tables with <2 rows/cols, mostly-empty columns,
or columns with only one distinct value.
"""
if len(df) < 2 or len(df.columns) < 2:
return False
# Reject Excel column-header artifacts: first row is mostly None with single-char values (A, B, C...)
first_row = df.iloc[0].astype(str).str.strip()
none_mask = first_row.isin(["None", "nan", ""])
if none_mask.mean() > 0.55:
non_none = first_row[~none_mask]
if not non_none.empty and (non_none.str.len() == 1).any():
return False
# Rule 2: any cell > 100 chars means prose/resume text or garbage — reject regardless of numeric columns
all_vals = df.astype(str).values.flatten()
if any(len(v.strip()) > 100 for v in all_vals if v.strip() not in ("nan", "None", "")):
return False
for col in df.columns:
if pd.api.types.is_numeric_dtype(df[col]):
return True
parsed = pd.to_numeric(
df[col].astype(str).str.replace(r"[$,\s%]", "", regex=True),
errors="coerce",
)
if parsed.notna().mean() > 0.35:
return True
# Text-only: valid if every column has ≥50% non-empty values and ≥2 distinct values
for col in df.columns:
vals = df[col].astype(str).str.strip()
non_empty = vals[(vals.str.len() > 0) & ~vals.isin(["nan", "None", ""])]
if len(non_empty) / max(len(df), 1) < 0.5:
return False
if non_empty.nunique() < 2:
return False
return True
def _should_merge(bbox_a, bbox_b, y_gap_px: int = 50, x1_px: int = 20, x2_pct: float = 0.15) -> bool:
"""True when two bounding boxes represent vertically-adjacent segments of the same table."""
y_gap = bbox_b.y1 - bbox_a.y2
x_ref = max(bbox_a.x2, bbox_b.x2)
return (
y_gap < y_gap_px
and abs(bbox_a.x1 - bbox_b.x1) <= x1_px
and abs(bbox_a.x2 - bbox_b.x2) <= x_ref * x2_pct
)
def _concat_dfs(base: "pd.DataFrame", extra: "pd.DataFrame") -> "pd.DataFrame":
"""Concatenate two DataFrames, aligning column count to base."""
ncols = len(base.columns)
n = len(extra.columns)
extra = extra.copy()
if n < ncols:
for k in range(n, ncols):
extra[f"_pad_{k}"] = ""
elif n > ncols:
extra = extra.iloc[:, :ncols]
extra.columns = base.columns
return pd.concat([base, extra], ignore_index=True)
def _merge_adjacent_img_tables(tables: list) -> list:
"""Group vertically-adjacent table segments with similar x-spans and merge each group.
Works for any number of consecutive segments (not just pairs), so a table
split into 3+ bounding-box regions is still returned as one DataFrame.
Two segments are considered part of the same group when:
- vertical gap < 50 px
- left edges (x1) within 20 px
- right edges (x2) within 15 % of the wider span
"""
if len(tables) <= 1:
return [t[0] for t in tables]
tables = sorted(tables, key=lambda t: t[1].y1)
# Build groups of consecutive adjacent segments
groups: list[list] = [[tables[0]]]
for df, bbox in tables[1:]:
_, prev_bbox = groups[-1][-1]
if _should_merge(prev_bbox, bbox):
groups[-1].append((df, bbox))
else:
groups.append([(df, bbox)])
result = []
for group in groups:
if len(group) == 1:
result.append(group[0][0])
else:
merged = group[0][0]
for df, _ in group[1:]:
merged = _concat_dfs(merged, df)
result.append(merged)
return result
def _img2table_dfs(filepath: str) -> list:
"""Extract tables from a standalone image using img2table + Tesseract OCR.
Returns a list of DataFrames (empty if no tables found or img2table unavailable).
"""
try:
from img2table.document import Image as _Img2Image
from img2table.ocr import TesseractOCR as _TesseractOCR
doc = _Img2Image(src=filepath)
extracted = doc.extract_tables(
ocr=_TesseractOCR(),
implicit_rows=False,
implicit_columns=False,
borderless_tables=True,
) or []
useful = [
(t.df, t.bbox)
for t in extracted
if t.df is not None and not t.df.empty and _img_table_is_useful(t.df)
]
return _merge_adjacent_img_tables(useful)
except ImportError:
logger.warning("img2table not installed; image table extraction skipped")
return []
except Exception as e:
logger.warning(f"img2table extraction failed for '{filepath}': {e}")
return []
def extract_dataframes(filepath: str) -> list:
"""Extract tables as DataFrames from a document. Returns empty list if none found."""
ext = Path(filepath).suffix.lower()
dfs = []
try:
if ext == '.csv':
df = pd.read_csv(filepath)
if not df.empty:
dfs.append(df)
elif ext == '.xlsx':
xf = pd.ExcelFile(filepath)
for sheet in xf.sheet_names:
df = pd.read_excel(filepath, sheet_name=sheet)
if not df.empty:
dfs.append(df)
elif ext == '.docx':
from docx import Document
doc = Document(filepath)
for table in doc.tables:
rows = [[cell.text.strip() for cell in row.cells] for row in table.rows]
if len(rows) > 1:
df = pd.DataFrame(rows[1:], columns=rows[0])
if not df.empty:
dfs.append(df)
elif ext == '.pdf':
reader = PdfReader(filepath)
for page in reader.pages:
page_text = page.extract_text() or ''
df = ocr_text_to_dataframe(page_text)
if df is not None:
dfs.append(df)
elif ext in {'.png', '.jpg', '.jpeg', '.tiff', '.bmp', '.gif'}:
dfs.extend(_img2table_dfs(filepath))
except Exception as e:
logger.warning(f"Table extraction failed for {filepath}: {e}")
return dfs
def has_tables(filepath: str) -> bool:
"""Return True if the file type can contain extractable tables.
CSV/XLSX are inherently tabular. DOCX is inspected for Word table objects.
PDFs and images defer to extract_dataframes() as the authority — img2table
runs on images so only files with real table structure produce DataFrames.
"""
ext = Path(filepath).suffix.lower()
if ext == '.txt':
return False
if ext in {'.csv', '.xlsx', '.xls'}:
return True
if ext == '.docx':
try:
from docx import Document as _DocxDoc
return bool(_DocxDoc(filepath).tables)
except Exception:
return False
if ext in {'.pdf', '.png', '.jpg', '.jpeg', '.tiff', '.bmp', '.gif'}:
return True # extract_dataframes() is the authority
return False
def extract_images(filepath: str) -> list:
"""
Extract images from a document. Returns list of (page, img_idx, PIL.Image).
- PDF: embedded images from every page (width/height >= 100px)
- Standalone image files: the file itself as page=1, img_idx=0
Other file types return an empty list.
"""
ext = Path(filepath).suffix.lower()
results = []
if ext == ".pdf":
reader = PdfReader(filepath)
for page_num, page in enumerate(reader.pages, start=1):
try:
if not hasattr(page, "images") or not page.images:
continue
for img_idx, img_obj in enumerate(page.images):
try:
pil_img = Image.open(io.BytesIO(img_obj.data)).convert("RGB")
if pil_img.width < 100 or pil_img.height < 100:
continue
results.append((page_num, img_idx, pil_img))
except Exception as e:
logger.debug(f"Skipping image p{page_num}[{img_idx}]: {e}")
except Exception as e:
logger.debug(f"Image extraction error on page {page_num}: {e}")
elif ext == ".docx":
try:
from docx import Document as _Document
doc = _Document(filepath)
img_idx = 0
for rel in doc.part.rels.values():
if "image" in rel.reltype:
try:
img_data = rel.target_part.blob
pil_img = Image.open(io.BytesIO(img_data)).convert("RGB")
if pil_img.width < 100 or pil_img.height < 100:
continue
results.append((1, img_idx, pil_img))
img_idx += 1
except Exception as e:
logger.debug(f"Skipping DOCX image: {e}")
except Exception as e:
logger.warning(f"DOCX image extraction failed for {filepath}: {e}")
elif ext in {".png", ".jpg", ".jpeg", ".tiff", ".bmp", ".gif"}:
try:
pil_img = Image.open(filepath).convert("RGB")
results.append((1, 0, pil_img))
except Exception as e:
logger.warning(f"Failed to open image file {filepath}: {e}")
return results
def images_to_chunks(filepath: str, images: list) -> List[Dict[str, Any]]:
"""OCR extracted images and return chunked text records for the vector store.
images: list of (page, img_idx, PIL.Image) as returned by extract_images().
Only images that produce non-empty OCR text are included.
"""
filename = Path(filepath).name
chunks = []
for page, img_idx, pil_img in images:
ocr_text = ocr_image(pil_img)
if not ocr_text:
continue
header = f"[Source: {filename}, Page {page}, Image {img_idx}]"
for i, sub in enumerate(chunk_text(f"{header}\n{ocr_text}")):
chunks.append({
"text": sub,
"metadata": {
"source": filename,
"page": page,
"image_index": img_idx,
"type": "image",
"chunk_index": i,
},
})
return chunks
def process_document_chunked(filepath: str) -> List[Dict[str, Any]]:
"""Process a document and chunk large text blocks."""
raw_chunks = process_document(filepath)
final_chunks = []
for chunk in raw_chunks:
text = chunk["text"]
meta = chunk["metadata"]
sub_texts = chunk_text(text)
for i, sub in enumerate(sub_texts):
final_chunks.append({
"text": sub,
"metadata": {**meta, "chunk_index": i},
})
return final_chunks