ls -la /tmp/workspace/attachments/8ac06c00-e563-4810-a3f3-db34a07350ae/

cd /tmp/workspace/attachments/8ac06c00-e563-4810-a3f3-db34a07350ae/ && python3 -c " import pdfplumber with pdfplumber.open('GIT histology .pdf') as pdf: print(f'Total pages: {len(pdf.pages)}') for i, page in enumerate(pdf.pages[:5]): print(f'--- PAGE {i+1} ---') text = page.extract_text() if text: print(text[:2000]) print() "

cd /tmp/workspace/attachments/8ac06c00-e563-4810-a3f3-db34a07350ae/ && python3 -c " import pdfplumber with pdfplumber.open('GIT histology .pdf') as pdf: all_text = [] for i, page in enumerate(pdf.pages): text = page.extract_text() if text: all_text.append(f'=== PAGE {i+1} ===\n{text}') full = '\n\n'.join(all_text) print(full[:15000]) "

cd /tmp/workspace/attachments/8ac06c00-e563-4810-a3f3-db34a07350ae/ && python3 -c " import pdfplumber with pdfplumber.open('GIT histology .pdf') as pdf: all_text = [] for i, page in enumerate(pdf.pages[100:]): text = page.extract_text() if text: all_text.append(f'=== PAGE {i+101} ===\n{text}') full = '\n\n'.join(all_text) print(full) "

mkdir -p /tmp/workspace/git-histology && ls /tmp/workspace/git-histology/

mkdir -p /tmp/workspace/git-histology && python3 << 'PYEOF' from reportlab.lib.pagesizes import A4 from reportlab.lib import colors from reportlab.lib.styles import getSampleStyleSheet, ParagraphStyle from reportlab.lib.units import cm, mm from reportlab.platypus import (SimpleDocTemplate, Paragraph, Spacer, Table, TableStyle, PageBreak, HRFlowable, KeepTogether) from reportlab.platypus.flowables import Flowable from reportlab.lib.enums import TA_CENTER, TA_LEFT, TA_JUSTIFY from reportlab.graphics.shapes import Drawing, Rect, String, Line, Circle, Polygon, Path from reportlab.graphics.charts.barcharts import VerticalBarChart from reportlab.graphics import renderPDF from reportlab.graphics.shapes import Drawing import textwrap # ── colour palette ────────────────────────────────────────────────────────── C_DARK_BLUE = colors.HexColor('#1a3a5c') C_MID_BLUE = colors.HexColor('#2563a8') C_LIGHT_BLUE = colors.HexColor('#dbeafe') C_TEAL = colors.HexColor('#0d9488') C_LIGHT_TEAL = colors.HexColor('#ccfbf1') C_ORANGE = colors.HexColor('#ea580c') C_LIGHT_ORANGE= colors.HexColor('#fed7aa') C_GREEN = colors.HexColor('#16a34a') C_LIGHT_GREEN = colors.HexColor('#dcfce7') C_PURPLE = colors.HexColor('#7c3aed') C_LIGHT_PURPLE= colors.HexColor('#ede9fe') C_YELLOW = colors.HexColor('#fbbf24') C_LIGHT_YELLOW= colors.HexColor('#fef9c3') C_RED = colors.HexColor('#dc2626') C_LIGHT_RED = colors.HexColor('#fee2e2') C_GRAY = colors.HexColor('#6b7280') C_LIGHT_GRAY = colors.HexColor('#f3f4f6') C_DARK_GRAY = colors.HexColor('#374151') C_WHITE = colors.white C_BLACK = colors.black W, H = A4 # ── document ──────────────────────────────────────────────────────────────── doc = SimpleDocTemplate( '/tmp/workspace/git-histology/GIT_Histology_Complete.pdf', pagesize=A4, leftMargin=1.8*cm, rightMargin=1.8*cm, topMargin=2*cm, bottomMargin=2*cm ) # ── styles ─────────────────────────────────────────────────────────────────── styles = getSampleStyleSheet() def sty(name, **kw): s = ParagraphStyle(name, **kw) return s TITLE_STYLE = sty('TitleMain', fontSize=28, textColor=C_WHITE, alignment=TA_CENTER, fontName='Helvetica-Bold', spaceAfter=6, leading=34) SUBTITLE_STYLE = sty('SubTitle', fontSize=14, textColor=C_LIGHT_BLUE, alignment=TA_CENTER, fontName='Helvetica', spaceAfter=4, leading=18) H1 = sty('H1', fontSize=18, textColor=C_WHITE, fontName='Helvetica-Bold', spaceAfter=6, leading=22) H2 = sty('H2', fontSize=14, textColor=C_DARK_BLUE, fontName='Helvetica-Bold', spaceAfter=4, leading=18) H3 = sty('H3', fontSize=12, textColor=C_MID_BLUE, fontName='Helvetica-Bold', spaceAfter=3, leading=15) BODY = sty('Body', fontSize=10, textColor=C_DARK_GRAY, fontName='Helvetica', spaceAfter=4, leading=14, alignment=TA_JUSTIFY) BULLET = sty('Bullet', fontSize=10, textColor=C_DARK_GRAY, fontName='Helvetica', spaceAfter=3, leading=14, leftIndent=14, firstLineIndent=-10) MNEMONIC_STYLE = sty('Mnem', fontSize=11, textColor=C_PURPLE, fontName='Helvetica-Bold', spaceAfter=2, leading=14) MNEMONIC_BODY = sty('MnemBody', fontSize=10, textColor=C_DARK_GRAY, fontName='Helvetica', spaceAfter=3, leading=13, leftIndent=10) SUMMARY_STYLE = sty('SumHead', fontSize=11, textColor=C_TEAL, fontName='Helvetica-Bold', spaceAfter=3, leading=14) SUMMARY_BODY = sty('SumBody', fontSize=10, textColor=C_DARK_GRAY, fontName='Helvetica', spaceAfter=3, leading=13) MCQ_Q = sty('McqQ', fontSize=10.5, textColor=C_DARK_BLUE, fontName='Helvetica-Bold', spaceAfter=2, leading=14) MCQ_OPT = sty('McqOpt', fontSize=10, textColor=C_DARK_GRAY, fontName='Helvetica', spaceAfter=2, leading=13, leftIndent=12) MCQ_ANS = sty('McqAns', fontSize=10, textColor=C_GREEN, fontName='Helvetica-Bold', spaceAfter=5, leading=13, leftIndent=12) CAPTION = sty('Caption', fontSize=9, textColor=C_GRAY, fontName='Helvetica-Oblique', alignment=TA_CENTER, spaceAfter=6, leading=11) story = [] # ════════════════════════════════════════════════════════════════════════════ # HELPER FLOWABLES # ════════════════════════════════════════════════════════════════════════════ class ColorBox(Flowable): """A coloured rectangle background with optional title and paragraphs.""" def __init__(self, title, paragraphs, bg=C_LIGHT_BLUE, border=C_MID_BLUE, title_color=C_DARK_BLUE, width=None, radius=6): Flowable.__init__(self) self.title = title self.paragraphs = paragraphs # list of strings self.bg = bg self.border = border self.title_color = title_color self._width = width or (W - 3.6*cm) self.radius = radius def wrap(self, availW, availH): self.width = min(self._width, availW) # estimate height line_h = 14 title_h = 18 if self.title else 0 body_h = sum(len(p)//80*line_h + line_h + 4 for p in self.paragraphs) self.height = title_h + body_h + 20 return self.width, self.height def draw(self): c = self.canv c.setFillColor(self.bg) c.setStrokeColor(self.border) c.setLineWidth(1.2) c.roundRect(0, 0, self.width, self.height, self.radius, fill=1, stroke=1) y = self.height - 10 if self.title: c.setFont('Helvetica-Bold', 11) c.setFillColor(self.title_color) c.drawString(10, y - 8, self.title) y -= 20 c.setStrokeColor(self.border) c.setLineWidth(0.5) c.line(8, y+2, self.width-8, y+2) y -= 4 c.setFont('Helvetica', 9.5) c.setFillColor(C_DARK_GRAY) for para in self.paragraphs: wrapped = textwrap.wrap(para, width=int(self.width/5.5)) for line in wrapped: if y < 8: break c.drawString(10, y, line) y -= 13 class SectionHeader(Flowable): """Full-width coloured section header bar.""" def __init__(self, text, bg=C_DARK_BLUE, text_color=C_WHITE, height=32): Flowable.__init__(self) self.text = text self.bg = bg self.text_color = text_color self._height = height def wrap(self, availW, availH): self.width = availW self.height = self._height return self.width, self.height def draw(self): c = self.canv c.setFillColor(self.bg) c.roundRect(0, 0, self.width, self.height, 5, fill=1, stroke=0) c.setFont('Helvetica-Bold', 14) c.setFillColor(self.text_color) c.drawString(12, self.height/2 - 5, self.text) class SubHeader(Flowable): def __init__(self, text, bg=C_MID_BLUE, text_color=C_WHITE, height=24): Flowable.__init__(self) self.text = text self.bg = bg self.text_color = text_color self._height = height def wrap(self, availW, availH): self.width = availW self.height = self._height return self.width, self.height def draw(self): c = self.canv c.setFillColor(self.bg) c.roundRect(0, 0, self.width, self.height, 4, fill=1, stroke=0) c.setFont('Helvetica-Bold', 11) c.setFillColor(self.text_color) c.drawString(10, self.height/2 - 4, self.text) class MnemonicBox(Flowable): def __init__(self, title, mnemonic, breakdown, width=None): Flowable.__init__(self) self.title = title self.mnemonic = mnemonic self.breakdown = breakdown # list of (letter, word, meaning) self._width = width or (W - 3.6*cm) def wrap(self, availW, availH): self.width = min(self._width, availW) row_h = 16 self.height = 50 + len(self.breakdown)*row_h + 20 return self.width, self.height def draw(self): c = self.canv # outer box c.setFillColor(C_LIGHT_PURPLE) c.setStrokeColor(C_PURPLE) c.setLineWidth(1.5) c.roundRect(0, 0, self.width, self.height, 7, fill=1, stroke=1) # brain emoji label c.setFont('Helvetica-Bold', 10) c.setFillColor(C_PURPLE) c.drawString(10, self.height - 16, f'MNEMONIC: {self.title}') # mnemonic word c.setFont('Helvetica-Bold', 22) c.setFillColor(C_DARK_BLUE) c.drawString(10, self.height - 42, self.mnemonic) # breakdown y = self.height - 58 for letter, word, meaning in self.breakdown: c.setFont('Helvetica-Bold', 10) c.setFillColor(C_PURPLE) c.drawString(12, y, letter) c.setFont('Helvetica-Bold', 10) c.setFillColor(C_DARK_BLUE) c.drawString(24, y, word) c.setFont('Helvetica', 10) c.setFillColor(C_DARK_GRAY) c.drawString(24 + len(word)*6.5, y, f' - {meaning}') y -= 16 class SummaryBox(Flowable): def __init__(self, points, width=None): Flowable.__init__(self) self.points = points self._width = width or (W - 3.6*cm) def wrap(self, availW, availH): self.width = min(self._width, availW) row_h = 15 self.height = 30 + len(self.points)*row_h + 10 return self.width, self.height def draw(self): c = self.canv c.setFillColor(C_LIGHT_TEAL) c.setStrokeColor(C_TEAL) c.setLineWidth(1.5) c.roundRect(0, 0, self.width, self.height, 7, fill=1, stroke=1) c.setFont('Helvetica-Bold', 11) c.setFillColor(C_TEAL) c.drawString(10, self.height - 18, ' SUMMARY NOTE') c.setLineWidth(0.5) c.setStrokeColor(C_TEAL) c.line(8, self.height-24, self.width-8, self.height-24) y = self.height - 40 for pt in self.points: wrapped = textwrap.wrap(f'• {pt}', width=int(self.width/5.6)) for i, line in enumerate(wrapped): c.setFont('Helvetica', 9.5) c.setFillColor(C_DARK_GRAY) c.drawString(12, y, line) y -= 14 def make_layers_diagram(): """ASCII-art style diagram of GIT wall layers.""" d = Drawing(400, 200) layers = [ ('Serosa / Adventitia', C_LIGHT_YELLOW, C_ORANGE), ('Muscularis Propria (outer longitudinal + inner circular)', C_LIGHT_RED, C_RED), ('Submucosa', C_LIGHT_BLUE, C_MID_BLUE), ('Muscularis Mucosa', colors.HexColor('#d1fae5'), C_GREEN), ('Lamina Propria', C_LIGHT_GREEN, C_GREEN), ('Epithelium (Lumen side)', colors.HexColor('#fef3c7'), C_ORANGE), ] y = 5 h = 28 for label, fill, stroke in layers: d.add(Rect(10, y, 380, h, fillColor=fill, strokeColor=stroke, strokeWidth=1.2)) d.add(String(20, y + h/2 - 5, label, fontSize=9, fillColor=C_DARK_GRAY, fontName='Helvetica-Bold')) y += h + 2 d.add(String(160, 185, 'GIT WALL - FUNCTIONAL LAYERS', fontSize=9, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) return d def make_mucosa_types_chart(): """Bar-chart style colour blocks for mucosa types.""" d = Drawing(460, 140) types = [ ('Protective', 'Oral/Pharynx/\nOesophagus/Anal', 'Stratified Squamous', C_LIGHT_RED, C_RED), ('Secretory', 'Stomach / LI', 'Simple Columnar', C_LIGHT_BLUE, C_MID_BLUE), ('Absorptive', 'Small Intestine', 'Simple Columnar\n+ Microvilli', C_LIGHT_GREEN, C_GREEN), ('Absorptive/\nProtective', 'Large Intestine', 'Simple Columnar', C_LIGHT_YELLOW, C_ORANGE), ] x = 10 for type_name, site, epi, fill, stroke in types: d.add(Rect(x, 10, 100, 110, fillColor=fill, strokeColor=stroke, strokeWidth=1.5, rx=5, ry=5)) d.add(String(x+5, 100, type_name, fontSize=8.5, fillColor=stroke, fontName='Helvetica-Bold')) d.add(String(x+5, 78, 'Site:', fontSize=7.5, fillColor=C_DARK_GRAY, fontName='Helvetica-Bold')) y2 = 68 for line in site.split('\n'): d.add(String(x+5, y2, line, fontSize=7.5, fillColor=C_DARK_GRAY)) y2 -= 10 d.add(String(x+5, 36, 'Epithelium:', fontSize=7.5, fillColor=C_DARK_GRAY, fontName='Helvetica-Bold')) y3 = 26 for line in epi.split('\n'): d.add(String(x+5, y3, line, fontSize=7, fillColor=C_DARK_GRAY)) y3 -= 10 x += 110 return d def make_stomach_cells_diagram(): d = Drawing(460, 180) # gastric pit d.add(String(190, 165, 'GASTRIC GLAND STRUCTURE', fontSize=9, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) # pit d.add(Rect(190, 120, 80, 40, fillColor=C_LIGHT_GRAY, strokeColor=C_GRAY, strokeWidth=1)) d.add(String(210, 136, 'Gastric Pit', fontSize=8, fillColor=C_DARK_GRAY)) # isthmus d.add(Rect(190, 80, 80, 35, fillColor=colors.HexColor('#bfdbfe'), strokeColor=C_MID_BLUE, strokeWidth=1)) d.add(String(205, 96, 'Isthmus', fontSize=8, fillColor=C_DARK_BLUE)) # neck d.add(Rect(190, 45, 80, 30, fillColor=colors.HexColor('#bbf7d0'), strokeColor=C_GREEN, strokeWidth=1)) d.add(String(208, 58, 'Neck', fontSize=8, fillColor=C_GREEN)) # base d.add(Rect(190, 10, 80, 30, fillColor=colors.HexColor('#fed7aa'), strokeColor=C_ORANGE, strokeWidth=1)) d.add(String(210, 22, 'Base', fontSize=8, fillColor=C_ORANGE)) # labels left cells_left = [ (155, 138, 'Mucous cells', C_MID_BLUE), (155, 95, 'Parietal cells (HCl, IF)', C_RED), (155, 55, 'Chief cells (Pepsinogen)', C_ORANGE), (155, 18, 'Stem cells', C_GREEN), ] for x, y, label, col in cells_left: d.add(String(x - len(label)*4.5, y, label, fontSize=8, fillColor=col, fontName='Helvetica-Bold')) d.add(Line(x+2, y+3, 190, y+3, strokeColor=col, strokeWidth=0.8)) # Neuroendocrine right d.add(String(278, 58, 'G cells/NE cells', fontSize=8, fillColor=C_PURPLE, fontName='Helvetica-Bold')) d.add(Line(275, 61, 270, 61, strokeColor=C_PURPLE, strokeWidth=0.8)) return d def make_SI_adaptations_diagram(): d = Drawing(460, 160) d.add(String(140, 150, 'SURFACE AREA AMPLIFICATION IN SMALL INTESTINE', fontSize=8.5, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) items = [ (20, 10, 80, 130, 'Plicae\nCirculares', '3x', C_LIGHT_BLUE, C_MID_BLUE), (120, 30, 80, 110, 'Villi', '10x', C_LIGHT_GREEN, C_GREEN), (220, 50, 80, 90, 'Microvilli\n(Brush Border)', '20x', C_LIGHT_YELLOW, C_ORANGE), (320, 20, 110,120, 'Combined\nSurface Area', '600x', C_LIGHT_RED, C_RED), ] for x, y, w, h, label, mult, fill, stroke in items: d.add(Rect(x, y, w, h, fillColor=fill, strokeColor=stroke, strokeWidth=1.5, rx=4, ry=4)) d.add(String(x+5, y+h-14, label.split('\n')[0], fontSize=8, fillColor=stroke, fontName='Helvetica-Bold')) if '\n' in label: d.add(String(x+5, y+h-26, label.split('\n')[1], fontSize=8, fillColor=stroke, fontName='Helvetica-Bold')) d.add(String(x+w//2-8, y+8, mult, fontSize=11, fillColor=stroke, fontName='Helvetica-Bold')) return d def make_liver_lobule_diagram(): d = Drawing(460, 220) d.add(String(170, 210, 'HEPATIC LOBULE', fontSize=10, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) cx, cy = 230, 100 # hexagon import math pts = [] for i in range(6): angle = math.radians(60*i - 30) pts.append((cx + 90*math.cos(angle), cy + 90*math.sin(angle))) hex_path = [pts[0][0], pts[0][1]] for p in pts[1:]: hex_path += [p[0], p[1]] from reportlab.graphics.shapes import Polygon as RLPoly d.add(RLPoly(hex_path, fillColor=colors.HexColor('#fef9c3'), strokeColor=C_ORANGE, strokeWidth=2)) # central vein d.add(Circle(cx, cy, 12, fillColor=C_RED, strokeColor=colors.darkred, strokeWidth=1)) d.add(String(cx-14, cy-4, 'Central V.', fontSize=6.5, fillColor=C_WHITE, fontName='Helvetica-Bold')) # portal tracts at corners for px, py in pts: d.add(Circle(px, py, 9, fillColor=C_LIGHT_BLUE, strokeColor=C_MID_BLUE, strokeWidth=1)) d.add(String(px-7, py-3, 'PT', fontSize=6, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) # sinusoid lines for px, py in pts: d.add(Line(cx, cy, px, py, strokeColor=colors.HexColor('#fca5a5'), strokeWidth=0.8, strokeDashArray=[3, 2])) # legend d.add(Rect(350, 160, 12, 8, fillColor=C_RED)) d.add(String(366, 160, 'Central Vein', fontSize=7.5, fillColor=C_DARK_GRAY)) d.add(Rect(350, 145, 12, 8, fillColor=C_LIGHT_BLUE, strokeColor=C_MID_BLUE, strokeWidth=0.8)) d.add(String(366, 145, 'Portal Tract', fontSize=7.5, fillColor=C_DARK_GRAY)) d.add(Line(350, 135, 362, 135, strokeColor=colors.HexColor('#fca5a5'), strokeWidth=1, strokeDashArray=[3,2])) d.add(String(366, 131, 'Sinusoids', fontSize=7.5, fillColor=C_DARK_GRAY)) return d def make_portal_tract_diagram(): d = Drawing(300, 120) d.add(String(80, 110, 'PORTAL TRIAD', fontSize=9, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) # triangle pts = [150, 90, 70, 20, 230, 20] from reportlab.graphics.shapes import Polygon as RLPoly d.add(RLPoly(pts, fillColor=C_LIGHT_GRAY, strokeColor=C_GRAY, strokeWidth=1.5)) # three circles d.add(Circle(150, 80, 16, fillColor=C_LIGHT_RED, strokeColor=C_RED, strokeWidth=1.5)) d.add(String(136, 76, 'Hepatic A.', fontSize=6.5, fillColor=C_RED, fontName='Helvetica-Bold')) d.add(Circle(88, 24, 18, fillColor=C_LIGHT_BLUE, strokeColor=C_MID_BLUE, strokeWidth=1.5)) d.add(String(72, 20, 'Portal V.', fontSize=6.5, fillColor=C_MID_BLUE, fontName='Helvetica-Bold')) d.add(Circle(212, 24, 18, fillColor=C_LIGHT_GREEN, strokeColor=C_GREEN, strokeWidth=1.5)) d.add(String(198, 20, 'Bile Duct', fontSize=6.5, fillColor=C_GREEN, fontName='Helvetica-Bold')) return d def make_acinus_zones_diagram(): d = Drawing(380, 160) d.add(String(130, 150, 'HEPATIC ACINUS - ZONES', fontSize=9, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) # ellipse-like zones from reportlab.graphics.shapes import Ellipse d.add(Ellipse(190, 80, 170, 60, fillColor=colors.HexColor('#fee2e2'), strokeColor=C_RED, strokeWidth=1.5)) d.add(Ellipse(190, 80, 120, 42, fillColor=colors.HexColor('#fef3c7'), strokeColor=C_ORANGE, strokeWidth=1.5)) d.add(Ellipse(190, 80, 70, 24, fillColor=C_LIGHT_GREEN, strokeColor=C_GREEN, strokeWidth=1.5)) # labels d.add(String(178, 76, 'Zone 1', fontSize=8, fillColor=C_GREEN, fontName='Helvetica-Bold')) d.add(String(248, 80, 'Zone 2', fontSize=8, fillColor=C_ORANGE, fontName='Helvetica-Bold')) d.add(String(310, 76, 'Zone 3', fontSize=8, fillColor=C_RED, fontName='Helvetica-Bold')) # portal tracts d.add(Circle(80, 80, 10, fillColor=C_LIGHT_BLUE, strokeColor=C_MID_BLUE, strokeWidth=1.5)) d.add(String(65, 76, 'PT', fontSize=7, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) d.add(Circle(300, 80, 10, fillColor=C_LIGHT_BLUE, strokeColor=C_MID_BLUE, strokeWidth=1.5)) d.add(String(285, 76, 'PT', fontSize=7, fillColor=C_DARK_BLUE, fontName='Helvetica-Bold')) # central vein note d.add(String(50, 20, 'Zone 1 = Best oxygenated (nearest PT)', fontSize=8, fillColor=C_GREEN)) d.add(String(50, 8, 'Zone 3 = Most vulnerable to ischaemia (nearest Central V.)', fontSize=8, fillColor=C_RED)) return d print("Helper functions defined OK") PYEOF echo "Exit code: $?"