823 lines
26 KiB
Python
823 lines
26 KiB
Python
# -*- coding: utf-8 -*-
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import os
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import sqlite3
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import zipfile
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import tempfile
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from itertools import chain
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from operator import itemgetter
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import numpy as np
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import pandas as pd
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from cv2 import cv2
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from .utils import (
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build_file_path_in_temp_dir,
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compute_accuracy,
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compute_whitespace,
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export_pdf_as_png
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)
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# minimum number of vertical textline intersections for a textedge
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# to be considered valid
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TEXTEDGE_REQUIRED_ELEMENTS = 4
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# padding added to table area on the left, right and bottom
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TABLE_AREA_PADDING = 10
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class TextEdge(object):
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"""Defines a text edge coordinates relative to a left-bottom
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origin. (PDF coordinate space)
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Parameters
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----------
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x : float
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x-coordinate of the text edge.
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y0 : float
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y-coordinate of bottommost point.
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y1 : float
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y-coordinate of topmost point.
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align : string, optional (default: 'left')
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{'left', 'right', 'middle'}
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Attributes
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----------
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intersections: int
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Number of intersections with horizontal text rows.
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is_valid: bool
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A text edge is valid if it intersects with at least
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TEXTEDGE_REQUIRED_ELEMENTS horizontal text rows.
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"""
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def __init__(self, x, y0, y1, align="left"):
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self.x = x
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self.y0 = y0
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self.y1 = y1
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self.align = align
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self.intersections = 0
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self.is_valid = False
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def __repr__(self):
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return "<TextEdge x={} y0={} y1={} align={} valid={}>".format(
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round(self.x, 2),
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round(self.y0, 2),
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round(self.y1, 2),
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self.align,
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self.is_valid,
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)
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def update_coords(self, x, y0, edge_tol=50):
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"""Updates the text edge's x and bottom y coordinates and sets
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the is_valid attribute.
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"""
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if np.isclose(self.y0, y0, atol=edge_tol):
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self.x = (self.intersections * self.x + x) / \
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float(self.intersections + 1)
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self.y0 = y0
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self.intersections += 1
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# a textedge is valid only if it extends uninterrupted
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# over a required number of textlines
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if self.intersections > TEXTEDGE_REQUIRED_ELEMENTS:
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self.is_valid = True
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class TextEdges(object):
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"""Defines a dict of left, right and middle text edges found on
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the PDF page. The dict has three keys based on the alignments,
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and each key's value is a list of camelot.core.TextEdge objects.
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"""
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def __init__(self, edge_tol=50):
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self.edge_tol = edge_tol
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self._textedges = {"left": [], "right": [], "middle": []}
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@staticmethod
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def get_x_coord(textline, align):
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"""Returns the x coordinate of a text row based on the
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specified alignment.
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"""
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x_left = textline.x0
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x_right = textline.x1
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x_middle = x_left + (x_right - x_left) / 2.0
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x_coord = {"left": x_left, "middle": x_middle, "right": x_right}
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return x_coord[align]
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def find(self, x_coord, align):
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"""Returns the index of an existing text edge using
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the specified x coordinate and alignment.
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"""
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for i, te in enumerate(self._textedges[align]):
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if np.isclose(te.x, x_coord, atol=0.5):
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return i
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return None
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def add(self, textline, align):
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"""Adds a new text edge to the current dict.
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"""
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x = self.get_x_coord(textline, align)
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y0 = textline.y0
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y1 = textline.y1
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te = TextEdge(x, y0, y1, align=align)
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self._textedges[align].append(te)
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def update(self, textline):
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"""Updates an existing text edge in the current dict.
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"""
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for align in ["left", "right", "middle"]:
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x_coord = self.get_x_coord(textline, align)
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idx = self.find(x_coord, align)
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if idx is None:
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self.add(textline, align)
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else:
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self._textedges[align][idx].update_coords(
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x_coord, textline.y0, edge_tol=self.edge_tol
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)
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def generate(self, textlines):
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"""Generates the text edges dict based on horizontal text
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rows.
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"""
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for tl in textlines:
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if len(tl.get_text().strip()) > 1: # TODO: hacky
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self.update(tl)
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def get_relevant(self):
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"""Returns the list of relevant text edges (all share the same
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alignment) based on which list intersects horizontal text rows
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the most.
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"""
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intersections_sum = {
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"left": sum(
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te.intersections for te in self._textedges["left"]
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if te.is_valid
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),
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"right": sum(
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te.intersections for te in self._textedges["right"]
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if te.is_valid
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),
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"middle": sum(
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te.intersections for te in self._textedges["middle"]
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if te.is_valid
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),
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}
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# TODO: naive
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# get vertical textedges that intersect maximum number of
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# times with horizontal textlines
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relevant_align = max(intersections_sum.items(), key=itemgetter(1))[0]
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return list(filter(
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lambda te: te.is_valid,
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self._textedges[relevant_align])
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)
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def get_table_areas(self, textlines, relevant_textedges):
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"""Returns a dict of interesting table areas on the PDF page
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calculated using relevant text edges.
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"""
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def pad(area, average_row_height):
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x0 = area[0] - TABLE_AREA_PADDING
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y0 = area[1] - TABLE_AREA_PADDING
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x1 = area[2] + TABLE_AREA_PADDING
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# add a constant since table headers can be relatively up
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y1 = area[3] + average_row_height * 5
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return (x0, y0, x1, y1)
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# sort relevant textedges in reading order
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relevant_textedges.sort(key=lambda te: (-te.y0, te.x))
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table_areas = {}
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for te in relevant_textedges:
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if not table_areas:
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table_areas[(te.x, te.y0, te.x, te.y1)] = None
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else:
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found = None
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for area in table_areas:
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# check for overlap
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if te.y1 >= area[1] and te.y0 <= area[3]:
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found = area
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break
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if found is None:
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table_areas[(te.x, te.y0, te.x, te.y1)] = None
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else:
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table_areas.pop(found)
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updated_area = (
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found[0],
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min(te.y0, found[1]),
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max(found[2], te.x),
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max(found[3], te.y1),
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)
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table_areas[updated_area] = None
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# extend table areas based on textlines that overlap
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# vertically. it's possible that these textlines were
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# eliminated during textedges generation since numbers and
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# chars/words/sentences are often aligned differently.
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# drawback: table areas that have paragraphs on their sides
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# will include the paragraphs too.
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sum_textline_height = 0
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for tl in textlines:
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sum_textline_height += tl.y1 - tl.y0
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found = None
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for area in table_areas:
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# check for overlap
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if tl.y0 >= area[1] and tl.y1 <= area[3]:
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found = area
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break
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if found is not None:
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table_areas.pop(found)
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updated_area = (
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min(tl.x0, found[0]),
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min(tl.y0, found[1]),
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max(found[2], tl.x1),
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max(found[3], tl.y1),
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)
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table_areas[updated_area] = None
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average_textline_height = sum_textline_height / \
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float(len(textlines))
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# add some padding to table areas
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table_areas_padded = {}
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for area in table_areas:
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table_areas_padded[pad(area, average_textline_height)] = None
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return table_areas_padded
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class Cell(object):
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"""Defines a cell in a table with coordinates relative to a
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left-bottom origin. (PDF coordinate space)
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Parameters
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----------
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x1 : float
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x-coordinate of left-bottom point.
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y1 : float
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y-coordinate of left-bottom point.
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x2 : float
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x-coordinate of right-top point.
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y2 : float
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y-coordinate of right-top point.
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Attributes
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----------
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lb : tuple
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Tuple representing left-bottom coordinates.
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lt : tuple
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Tuple representing left-top coordinates.
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rb : tuple
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Tuple representing right-bottom coordinates.
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rt : tuple
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Tuple representing right-top coordinates.
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left : bool
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Whether or not cell is bounded on the left.
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right : bool
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Whether or not cell is bounded on the right.
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top : bool
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Whether or not cell is bounded on the top.
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bottom : bool
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Whether or not cell is bounded on the bottom.
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hspan : bool
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Whether or not cell spans horizontally.
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vspan : bool
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Whether or not cell spans vertically.
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text : string
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Text assigned to cell.
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"""
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def __init__(self, x1, y1, x2, y2):
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self.x1 = x1
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self.y1 = y1
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self.x2 = x2
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self.y2 = y2
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self.lb = (x1, y1)
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self.lt = (x1, y2)
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self.rb = (x2, y1)
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self.rt = (x2, y2)
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self.left = False
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self.right = False
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self.top = False
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self.bottom = False
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self.hspan = False
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self.vspan = False
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self._text = ""
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def __repr__(self):
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return "<Cell x1={} y1={} x2={} y2={}>".format(
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round(self.x1, 2),
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round(self.y1, 2),
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round(self.x2, 2),
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round(self.y2, 2)
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)
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@property
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def text(self):
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return self._text
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@text.setter
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def text(self, t):
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self._text = "".join([self._text, t])
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@property
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def bound(self):
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"""The number of sides on which the cell is bounded.
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"""
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return self.top + self.bottom + self.left + self.right
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class Table(object):
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"""Defines a table with coordinates relative to a left-bottom
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origin. (PDF coordinate space)
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Parameters
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----------
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cols : list
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List of tuples representing column x-coordinates in increasing
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order.
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rows : list
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List of tuples representing row y-coordinates in decreasing
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order.
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Attributes
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----------
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df : :class:`pandas.DataFrame`
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shape : tuple
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Shape of the table.
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accuracy : float
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Accuracy with which text was assigned to the cell.
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whitespace : float
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Percentage of whitespace in the table.
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filename : str
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Path of the original PDF
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order : int
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Table number on PDF page.
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page : int
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PDF page number.
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"""
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def __init__(self, cols, rows):
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self.cols = cols
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self.rows = rows
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self.cells = [
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[Cell(c[0], r[1], c[1], r[0]) for c in cols] for r in rows
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]
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self.df = None
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self.shape = (0, 0)
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self.accuracy = 0
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self.whitespace = 0
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self.filename = None
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self.order = None
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self.page = None
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self.flavor = None # Flavor of the parser that generated the table
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self.pdf_size = None # Dimensions of the original PDF page
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self.debug_info = None # Field holding debug data
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self._image = None
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self._image_path = None # Temporary file to hold an image of the pdf
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def __repr__(self):
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return "<{} shape={}>".format(self.__class__.__name__, self.shape)
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def __lt__(self, other):
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if self.page == other.page:
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if self.order < other.order:
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return True
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if self.page < other.page:
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return True
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@property
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def data(self):
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"""Returns two-dimensional list of strings in table.
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"""
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d = []
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for row in self.cells:
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d.append([cell.text.strip() for cell in row])
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return d
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@property
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def parsing_report(self):
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"""Returns a parsing report with %accuracy, %whitespace,
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table number on page and page number.
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"""
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# pretty?
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report = {
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"accuracy": round(self.accuracy, 2),
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"whitespace": round(self.whitespace, 2),
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"order": self.order,
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"page": self.page,
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}
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return report
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def record_metadata(self, parser):
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"""Record data about the origin of the table
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"""
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self.flavor = parser.id
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self.filename = parser.filename
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self.debug_info = parser.debug_info
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data = self.data
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self.df = pd.DataFrame(data)
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self.shape = self.df.shape
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self.whitespace = compute_whitespace(data)
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self.pdf_size = (parser.pdf_width, parser.pdf_height)
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def get_pdf_image(self):
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"""Compute pdf image and cache it
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"""
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if self._image is None:
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if self._image_path is None:
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self._image_path = build_file_path_in_temp_dir(
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os.path.basename(self.filename),
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".png"
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)
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export_pdf_as_png(self.filename, self._image_path)
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self._image = cv2.imread(self._image_path)
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return self._image
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def set_all_edges(self):
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"""Sets all table edges to True.
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"""
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for row in self.cells:
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for cell in row:
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cell.left = cell.right = cell.top = cell.bottom = True
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return self
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def set_edges(self, vertical, horizontal, joint_tol=2):
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"""Sets a cell's edges to True depending on whether the cell's
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coordinates overlap with the line's coordinates within a
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tolerance.
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Parameters
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----------
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vertical : list
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List of detected vertical lines.
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horizontal : list
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List of detected horizontal lines.
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"""
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for v in vertical:
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# find closest x coord
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# iterate over y coords and find closest start and end points
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i = [
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i
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for i, t in enumerate(self.cols)
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if np.isclose(v[0], t[0], atol=joint_tol)
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]
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j = [
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j
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for j, t in enumerate(self.rows)
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if np.isclose(v[3], t[0], atol=joint_tol)
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]
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k = [
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k
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for k, t in enumerate(self.rows)
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if np.isclose(v[1], t[0], atol=joint_tol)
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]
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if not j:
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continue
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J = j[0]
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if i == [0]: # only left edge
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L = i[0]
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if k:
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K = k[0]
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while J < K:
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self.cells[J][L].left = True
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J += 1
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else:
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K = len(self.rows)
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while J < K:
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self.cells[J][L].left = True
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J += 1
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elif i == []: # only right edge
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L = len(self.cols) - 1
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if k:
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K = k[0]
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while J < K:
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self.cells[J][L].right = True
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J += 1
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else:
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K = len(self.rows)
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while J < K:
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self.cells[J][L].right = True
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J += 1
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else: # both left and right edges
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L = i[0]
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if k:
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K = k[0]
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while J < K:
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self.cells[J][L].left = True
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self.cells[J][L - 1].right = True
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J += 1
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else:
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K = len(self.rows)
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while J < K:
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self.cells[J][L].left = True
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self.cells[J][L - 1].right = True
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J += 1
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for h in horizontal:
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# find closest y coord
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# iterate over x coords and find closest start and end points
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i = [
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i
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for i, t in enumerate(self.rows)
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if np.isclose(h[1], t[0], atol=joint_tol)
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]
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j = [
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j
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for j, t in enumerate(self.cols)
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if np.isclose(h[0], t[0], atol=joint_tol)
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]
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k = [
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k
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for k, t in enumerate(self.cols)
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if np.isclose(h[2], t[0], atol=joint_tol)
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]
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if not j:
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continue
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J = j[0]
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if i == [0]: # only top edge
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L = i[0]
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if k:
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K = k[0]
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while J < K:
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self.cells[L][J].top = True
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J += 1
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else:
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K = len(self.cols)
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while J < K:
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self.cells[L][J].top = True
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J += 1
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elif i == []: # only bottom edge
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L = len(self.rows) - 1
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if k:
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K = k[0]
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while J < K:
|
|
self.cells[L][J].bottom = True
|
|
J += 1
|
|
else:
|
|
K = len(self.cols)
|
|
while J < K:
|
|
self.cells[L][J].bottom = True
|
|
J += 1
|
|
else: # both top and bottom edges
|
|
L = i[0]
|
|
if k:
|
|
K = k[0]
|
|
while J < K:
|
|
self.cells[L][J].top = True
|
|
self.cells[L - 1][J].bottom = True
|
|
J += 1
|
|
else:
|
|
K = len(self.cols)
|
|
while J < K:
|
|
self.cells[L][J].top = True
|
|
self.cells[L - 1][J].bottom = True
|
|
J += 1
|
|
|
|
return self
|
|
|
|
def set_border(self):
|
|
"""Sets table border edges to True.
|
|
"""
|
|
for r in range(len(self.rows)):
|
|
self.cells[r][0].left = True
|
|
self.cells[r][len(self.cols) - 1].right = True
|
|
for c in range(len(self.cols)):
|
|
self.cells[0][c].top = True
|
|
self.cells[len(self.rows) - 1][c].bottom = True
|
|
return self
|
|
|
|
def set_span(self):
|
|
"""Sets a cell's hspan or vspan attribute to True depending
|
|
on whether the cell spans horizontally or vertically.
|
|
"""
|
|
for row in self.cells:
|
|
for cell in row:
|
|
left = cell.left
|
|
right = cell.right
|
|
top = cell.top
|
|
bottom = cell.bottom
|
|
if cell.bound == 4:
|
|
continue
|
|
elif cell.bound == 3:
|
|
if not left and (right and top and bottom):
|
|
cell.hspan = True
|
|
elif not right and (left and top and bottom):
|
|
cell.hspan = True
|
|
elif not top and (left and right and bottom):
|
|
cell.vspan = True
|
|
elif not bottom and (left and right and top):
|
|
cell.vspan = True
|
|
elif cell.bound == 2:
|
|
if left and right and (not top and not bottom):
|
|
cell.vspan = True
|
|
elif top and bottom and (not left and not right):
|
|
cell.hspan = True
|
|
elif cell.bound in [0, 1]:
|
|
cell.vspan = True
|
|
cell.hspan = True
|
|
return self
|
|
|
|
def to_csv(self, path, **kwargs):
|
|
"""Writes Table to a comma-separated values (csv) file.
|
|
|
|
For kwargs, check :meth:`pandas.DataFrame.to_csv`.
|
|
|
|
Parameters
|
|
----------
|
|
path : str
|
|
Output filepath.
|
|
|
|
"""
|
|
kw = {"encoding": "utf-8", "index": False, "header": False,
|
|
"quoting": 1}
|
|
kw.update(kwargs)
|
|
self.df.to_csv(path, **kw)
|
|
|
|
def to_json(self, path, **kwargs):
|
|
"""Writes Table to a JSON file.
|
|
|
|
For kwargs, check :meth:`pandas.DataFrame.to_json`.
|
|
|
|
Parameters
|
|
----------
|
|
path : str
|
|
Output filepath.
|
|
|
|
"""
|
|
kw = {"orient": "records"}
|
|
kw.update(kwargs)
|
|
json_string = self.df.to_json(**kw)
|
|
with open(path, "w") as f:
|
|
f.write(json_string)
|
|
|
|
def to_excel(self, path, **kwargs):
|
|
"""Writes Table to an Excel file.
|
|
|
|
For kwargs, check :meth:`pandas.DataFrame.to_excel`.
|
|
|
|
Parameters
|
|
----------
|
|
path : str
|
|
Output filepath.
|
|
|
|
"""
|
|
kw = {
|
|
"sheet_name": "page-{}-table-{}".format(self.page, self.order),
|
|
"encoding": "utf-8",
|
|
}
|
|
kw.update(kwargs)
|
|
# pylint: disable=abstract-class-instantiated
|
|
writer = pd.ExcelWriter(path)
|
|
self.df.to_excel(writer, **kw)
|
|
writer.save()
|
|
|
|
def to_html(self, path, **kwargs):
|
|
"""Writes Table to an HTML file.
|
|
|
|
For kwargs, check :meth:`pandas.DataFrame.to_html`.
|
|
|
|
Parameters
|
|
----------
|
|
path : str
|
|
Output filepath.
|
|
|
|
"""
|
|
html_string = self.df.to_html(**kwargs)
|
|
with open(path, "w") as f:
|
|
f.write(html_string)
|
|
|
|
def to_sqlite(self, path, **kwargs):
|
|
"""Writes Table to sqlite database.
|
|
|
|
For kwargs, check :meth:`pandas.DataFrame.to_sql`.
|
|
|
|
Parameters
|
|
----------
|
|
path : str
|
|
Output filepath.
|
|
|
|
"""
|
|
kw = {"if_exists": "replace", "index": False}
|
|
kw.update(kwargs)
|
|
conn = sqlite3.connect(path)
|
|
table_name = "page-{}-table-{}".format(self.page, self.order)
|
|
self.df.to_sql(table_name, conn, **kw)
|
|
conn.commit()
|
|
conn.close()
|
|
|
|
|
|
class TableList(object):
|
|
"""Defines a list of camelot.core.Table objects. Each table can
|
|
be accessed using its index.
|
|
|
|
Attributes
|
|
----------
|
|
n : int
|
|
Number of tables in the list.
|
|
|
|
"""
|
|
|
|
def __init__(self, tables):
|
|
self._tables = tables
|
|
|
|
def __repr__(self):
|
|
return "<{} n={}>".format(self.__class__.__name__, self.n)
|
|
|
|
def __len__(self):
|
|
return len(self._tables)
|
|
|
|
def __getitem__(self, idx):
|
|
return self._tables[idx]
|
|
|
|
@staticmethod
|
|
def _format_func(table, f):
|
|
return getattr(table, "to_{}".format(f))
|
|
|
|
@property
|
|
def n(self):
|
|
return len(self)
|
|
|
|
def _write_file(self, f=None, **kwargs):
|
|
dirname = kwargs.get("dirname")
|
|
root = kwargs.get("root")
|
|
ext = kwargs.get("ext")
|
|
for table in self._tables:
|
|
filename = os.path.join(
|
|
"{}-page-{}-table-{}{}".format(root, table.page, table.order,
|
|
ext)
|
|
)
|
|
filepath = os.path.join(dirname, filename)
|
|
to_format = self._format_func(table, f)
|
|
to_format(filepath)
|
|
|
|
def _compress_dir(self, **kwargs):
|
|
path = kwargs.get("path")
|
|
dirname = kwargs.get("dirname")
|
|
root = kwargs.get("root")
|
|
ext = kwargs.get("ext")
|
|
zipname = os.path.join(os.path.dirname(path), root) + ".zip"
|
|
with zipfile.ZipFile(zipname, "w", allowZip64=True) as z:
|
|
for table in self._tables:
|
|
filename = os.path.join(
|
|
"{}-page-{}-table-{}{}".format(root,
|
|
table.page,
|
|
table.order,
|
|
ext)
|
|
)
|
|
filepath = os.path.join(dirname, filename)
|
|
z.write(filepath, os.path.basename(filepath))
|
|
|
|
def export(self, path, f="csv", compress=False):
|
|
"""Exports the list of tables to specified file format.
|
|
|
|
Parameters
|
|
----------
|
|
path : str
|
|
Output filepath.
|
|
f : str
|
|
File format. Can be csv, json, excel, html and sqlite.
|
|
compress : bool
|
|
Whether or not to add files to a ZIP archive.
|
|
|
|
"""
|
|
dirname = os.path.dirname(path)
|
|
basename = os.path.basename(path)
|
|
root, ext = os.path.splitext(basename)
|
|
if compress:
|
|
dirname = tempfile.mkdtemp()
|
|
|
|
kwargs = {"path": path, "dirname": dirname, "root": root, "ext": ext}
|
|
|
|
if f in ["csv", "json", "html"]:
|
|
self._write_file(f=f, **kwargs)
|
|
if compress:
|
|
self._compress_dir(**kwargs)
|
|
elif f == "excel":
|
|
filepath = os.path.join(dirname, basename)
|
|
# pylint: disable=abstract-class-instantiated
|
|
writer = pd.ExcelWriter(filepath)
|
|
for table in self._tables:
|
|
sheet_name = "page-{}-table-{}".format(table.page, table.order)
|
|
table.df.to_excel(writer, sheet_name=sheet_name,
|
|
encoding="utf-8")
|
|
writer.save()
|
|
if compress:
|
|
zipname = os.path.join(os.path.dirname(path), root) + ".zip"
|
|
with zipfile.ZipFile(zipname, "w", allowZip64=True) as z:
|
|
z.write(filepath, os.path.basename(filepath))
|
|
elif f == "sqlite":
|
|
filepath = os.path.join(dirname, basename)
|
|
for table in self._tables:
|
|
table.to_sqlite(filepath)
|
|
if compress:
|
|
zipname = os.path.join(os.path.dirname(path), root) + ".zip"
|
|
with zipfile.ZipFile(zipname, "w", allowZip64=True) as z:
|
|
z.write(filepath, os.path.basename(filepath))
|