SreekarB commited on
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casl_analysis.py CHANGED
@@ -1,4 +1,4 @@
1
- import gradio as gr
2
  import boto3
3
  import json
4
  import pandas as pd
 
1
+ eimport gradio as gr
2
  import boto3
3
  import json
4
  import pandas as pd
casl_analysis_improved.py ADDED
@@ -0,0 +1,1455 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ import gradio as gr
2
+ import boto3
3
+ import json
4
+ import pandas as pd
5
+ import matplotlib.pyplot as plt
6
+ import numpy as np
7
+ import re
8
+ import logging
9
+ import os
10
+ import pickle
11
+ import csv
12
+ from PIL import Image
13
+ import io
14
+ import uuid
15
+ from datetime import datetime
16
+ import tempfile
17
+ import time
18
+ import seaborn as sns
19
+ from typing import Dict, List, Tuple, Optional
20
+
21
+ # Try to import ReportLab (needed for PDF generation)
22
+ try:
23
+ from reportlab.lib.pagesizes import letter, A4
24
+ from reportlab.lib import colors
25
+ from reportlab.platypus import SimpleDocTemplate, Paragraph, Spacer, Table, TableStyle, Image as RLImage
26
+ from reportlab.lib.styles import getSampleStyleSheet, ParagraphStyle
27
+ from reportlab.lib.units import inch
28
+ REPORTLAB_AVAILABLE = True
29
+ except ImportError:
30
+ REPORTLAB_AVAILABLE = False
31
+
32
+ # Try to import PyPDF2 (needed for PDF reading)
33
+ try:
34
+ import PyPDF2
35
+ PYPDF2_AVAILABLE = True
36
+ except ImportError:
37
+ PYPDF2_AVAILABLE = False
38
+
39
+ # Try to import speech recognition for local audio processing
40
+ try:
41
+ import speech_recognition as sr
42
+ import pydub
43
+ SPEECH_RECOGNITION_AVAILABLE = True
44
+ except ImportError:
45
+ SPEECH_RECOGNITION_AVAILABLE = False
46
+
47
+ # Configure logging
48
+ logging.basicConfig(level=logging.INFO)
49
+ logger = logging.getLogger(__name__)
50
+
51
+ # AWS credentials for Bedrock API (optional - app works without AWS)
52
+ AWS_ACCESS_KEY = os.getenv("AWS_ACCESS_KEY", "")
53
+ AWS_SECRET_KEY = os.getenv("AWS_SECRET_KEY", "")
54
+ AWS_REGION = os.getenv("AWS_REGION", "us-east-1")
55
+
56
+ # Initialize AWS clients if credentials are available
57
+ bedrock_client = None
58
+
59
+ if AWS_ACCESS_KEY and AWS_SECRET_KEY:
60
+ try:
61
+ bedrock_client = boto3.client(
62
+ 'bedrock-runtime',
63
+ aws_access_key_id=AWS_ACCESS_KEY,
64
+ aws_secret_access_key=AWS_SECRET_KEY,
65
+ region_name=AWS_REGION
66
+ )
67
+ logger.info("Bedrock client initialized successfully")
68
+ except Exception as e:
69
+ logger.error(f"Failed to initialize AWS Bedrock client: {str(e)}")
70
+
71
+ # Enhanced sample transcripts for different scenarios
72
+ SAMPLE_TRANSCRIPTS = {
73
+ "Beach Trip (Child)": """*PAR: today I would &-um like to talk about &-um a fun trip I took last &-um summer with my family.
74
+ *PAR: we went to the &-um &-um beach [//] no to the mountains [//] I mean the beach actually.
75
+ *PAR: there was lots of &-um &-um swimming and &-um sun.
76
+ *PAR: we [/] we stayed for &-um three no [//] four days in a &-um hotel near the water [: ocean] [*].
77
+ *PAR: my favorite part was &-um building &-um castles with sand.
78
+ *PAR: sometimes I forget [//] forgetted [: forgot] [*] what they call those things we built.
79
+ *PAR: my brother he [//] he helped me dig a big hole.
80
+ *PAR: we saw [/] saw fishies [: fish] [*] swimming in the water.
81
+ *PAR: sometimes I wonder [/] wonder where fishies [: fish] [*] go when it's cold.
82
+ *PAR: maybe they have [/] have houses under the water.
83
+ *PAR: after swimming we [//] I eat [: ate] [*] &-um ice cream with &-um chocolate things on top.
84
+ *PAR: what do you call those &-um &-um sprinkles! that's the word.
85
+ *PAR: my mom said to &-um that I could have &-um two scoops next time.
86
+ *PAR: I want to go back to the beach [/] beach next year.""",
87
+
88
+ "School Day (Adolescent)": """*PAR: yesterday was &-um kind of a weird day at school.
89
+ *PAR: I had this big test in math and I was like really nervous about it.
90
+ *PAR: when I got there [//] when I got to class the teacher said we could use calculators.
91
+ *PAR: I was like &-oh &-um that's good because I always mess up the &-um the calculations.
92
+ *PAR: there was this one problem about &-um what do you call it &-um geometry I think.
93
+ *PAR: I couldn't remember the formula for [//] I mean I knew it but I just couldn't think of it.
94
+ *PAR: so I raised my hand and asked the teacher and she was really nice about it.
95
+ *PAR: after the test me and my friends went to lunch and we talked about how we did.
96
+ *PAR: everyone was saying it was hard but I think I did okay.
97
+ *PAR: oh and then in English class we had to read our essays out loud.
98
+ *PAR: I hate doing that because I get really nervous and I start talking fast.
99
+ *PAR: but the teacher said mine was good which made me feel better.""",
100
+
101
+ "Adult Stroke Recovery": """*PAR: I &-um I want to talk about &-uh my &-um recovery.
102
+ *PAR: it's been &-um [//] it's hard to &-um to find the words sometimes.
103
+ *PAR: before the &-um the stroke I was &-um working at the &-uh at the bank.
104
+ *PAR: now I have to &-um practice speaking every day with my therapist.
105
+ *PAR: my wife she [//] she helps me a lot at home.
106
+ *PAR: we do &-um exercises together like &-uh reading and &-um talking about pictures.
107
+ *PAR: sometimes I get frustrated because I know what I want to say but &-um the words don't come out right.
108
+ *PAR: but I'm getting better little by little.
109
+ *PAR: the doctor says I'm making good progress.
110
+ *PAR: I hope to go back to work someday but right now I'm focusing on &-um getting better."""
111
+ }
112
+
113
+ # ===============================
114
+ # Database and Storage Functions
115
+ # ===============================
116
+
117
+ # Create data directories if they don't exist
118
+ DATA_DIR = os.environ.get("DATA_DIR", "patient_data")
119
+ RECORDS_FILE = os.path.join(DATA_DIR, "patient_records.csv")
120
+ ANALYSES_DIR = os.path.join(DATA_DIR, "analyses")
121
+ DOWNLOADS_DIR = os.path.join(DATA_DIR, "downloads")
122
+ AUDIO_DIR = os.path.join(DATA_DIR, "audio")
123
+
124
+ def ensure_data_dirs():
125
+ """Ensure data directories exist with enhanced error handling"""
126
+ global DOWNLOADS_DIR, AUDIO_DIR, ANALYSES_DIR, RECORDS_FILE
127
+ try:
128
+ os.makedirs(DATA_DIR, exist_ok=True)
129
+ os.makedirs(ANALYSES_DIR, exist_ok=True)
130
+ os.makedirs(DOWNLOADS_DIR, exist_ok=True)
131
+ os.makedirs(AUDIO_DIR, exist_ok=True)
132
+ logger.info(f"Data directories created: {DATA_DIR}")
133
+
134
+ # Create records file if it doesn't exist
135
+ if not os.path.exists(RECORDS_FILE):
136
+ with open(RECORDS_FILE, 'w', newline='', encoding='utf-8') as f:
137
+ writer = csv.writer(f)
138
+ writer.writerow([
139
+ "ID", "Name", "Record ID", "Age", "Gender",
140
+ "Assessment Date", "Clinician", "Analysis Date", "File Path",
141
+ "Summary Score", "Notes"
142
+ ])
143
+ except Exception as e:
144
+ logger.warning(f"Could not create data directories: {str(e)}")
145
+ # Fallback to tmp directory for cloud environments
146
+ temp_base = os.path.join(tempfile.gettempdir(), "casl_data")
147
+ DOWNLOADS_DIR = os.path.join(temp_base, "downloads")
148
+ AUDIO_DIR = os.path.join(temp_base, "audio")
149
+ ANALYSES_DIR = os.path.join(temp_base, "analyses")
150
+ RECORDS_FILE = os.path.join(temp_base, "patient_records.csv")
151
+
152
+ os.makedirs(DOWNLOADS_DIR, exist_ok=True)
153
+ os.makedirs(AUDIO_DIR, exist_ok=True)
154
+ os.makedirs(ANALYSES_DIR, exist_ok=True)
155
+
156
+ if not os.path.exists(RECORDS_FILE):
157
+ with open(RECORDS_FILE, 'w', newline='', encoding='utf-8') as f:
158
+ writer = csv.writer(f)
159
+ writer.writerow([
160
+ "ID", "Name", "Record ID", "Age", "Gender",
161
+ "Assessment Date", "Clinician", "Analysis Date", "File Path",
162
+ "Summary Score", "Notes"
163
+ ])
164
+
165
+ logger.info(f"Using temporary directories: {temp_base}")
166
+
167
+ # Initialize data directories
168
+ ensure_data_dirs()
169
+
170
+ def save_patient_record(patient_info: Dict, analysis_results: Dict, transcript: str) -> Optional[str]:
171
+ """Save patient record to storage with enhanced data structure"""
172
+ try:
173
+ record_id = str(uuid.uuid4())
174
+
175
+ # Extract patient information
176
+ name = patient_info.get("name", "")
177
+ patient_id = patient_info.get("record_id", "")
178
+ age = patient_info.get("age", "")
179
+ gender = patient_info.get("gender", "")
180
+ assessment_date = patient_info.get("assessment_date", "")
181
+ clinician = patient_info.get("clinician", "")
182
+ notes = patient_info.get("notes", "")
183
+
184
+ # Calculate summary score (average of CASL domain scores)
185
+ summary_score = calculate_summary_score(analysis_results)
186
+
187
+ # Create filename for the analysis data
188
+ filename = f"analysis_{record_id}.pkl"
189
+ filepath = os.path.join(ANALYSES_DIR, filename)
190
+
191
+ # Save enhanced analysis data
192
+ analysis_data = {
193
+ "patient_info": patient_info,
194
+ "analysis_results": analysis_results,
195
+ "transcript": transcript,
196
+ "timestamp": datetime.now().isoformat(),
197
+ "summary_score": summary_score,
198
+ "version": "2.0" # For future compatibility
199
+ }
200
+
201
+ with open(filepath, 'wb') as f:
202
+ pickle.dump(analysis_data, f)
203
+
204
+ # Add record to CSV file
205
+ with open(RECORDS_FILE, 'a', newline='', encoding='utf-8') as f:
206
+ writer = csv.writer(f)
207
+ writer.writerow([
208
+ record_id, name, patient_id, age, gender,
209
+ assessment_date, clinician, datetime.now().strftime('%Y-%m-%d'),
210
+ filepath, summary_score, notes
211
+ ])
212
+
213
+ return record_id
214
+
215
+ except Exception as e:
216
+ logger.error(f"Error saving patient record: {str(e)}")
217
+ return None
218
+
219
+ def calculate_summary_score(analysis_results: Dict) -> float:
220
+ """Calculate an overall summary score from CASL domain scores"""
221
+ try:
222
+ # Extract CASL scores from results
223
+ casl_data = analysis_results.get('casl_data', '')
224
+ scores = []
225
+
226
+ # Look for standard scores in the CASL data
227
+ score_pattern = r'Standard Score \((\d+)\)'
228
+ matches = re.findall(score_pattern, casl_data)
229
+
230
+ if matches:
231
+ scores = [int(score) for score in matches]
232
+ return round(sum(scores) / len(scores), 1)
233
+
234
+ return 85.0 # Default score if parsing fails
235
+ except Exception:
236
+ return 85.0
237
+
238
+ def get_all_patient_records() -> List[Dict]:
239
+ """Return a list of all patient records with enhanced filtering"""
240
+ try:
241
+ records = []
242
+ ensure_data_dirs()
243
+
244
+ if not os.path.exists(RECORDS_FILE):
245
+ return records
246
+
247
+ with open(RECORDS_FILE, 'r', newline='', encoding='utf-8') as f:
248
+ reader = csv.reader(f)
249
+ header = next(reader, None)
250
+ if not header:
251
+ return records
252
+
253
+ for row in reader:
254
+ if len(row) < 9:
255
+ continue
256
+
257
+ file_path = row[8] if len(row) > 8 else ""
258
+ file_exists = os.path.exists(file_path) if file_path else False
259
+ summary_score = row[9] if len(row) > 9 else "N/A"
260
+ notes = row[10] if len(row) > 10 else ""
261
+
262
+ record = {
263
+ "id": row[0],
264
+ "name": row[1],
265
+ "record_id": row[2],
266
+ "age": row[3],
267
+ "gender": row[4],
268
+ "assessment_date": row[5],
269
+ "clinician": row[6],
270
+ "analysis_date": row[7],
271
+ "file_path": file_path,
272
+ "summary_score": summary_score,
273
+ "notes": notes,
274
+ "status": "Valid" if file_exists else "Missing File"
275
+ }
276
+ records.append(record)
277
+
278
+ # Sort by analysis date (most recent first)
279
+ records.sort(key=lambda x: x.get('analysis_date', ''), reverse=True)
280
+ return records
281
+
282
+ except Exception as e:
283
+ logger.error(f"Error getting patient records: {str(e)}")
284
+ return []
285
+
286
+ # ===============================
287
+ # Enhanced Utility Functions
288
+ # ===============================
289
+
290
+ def read_pdf(file_path: str) -> str:
291
+ """Read text from a PDF file with better error handling"""
292
+ if not PYPDF2_AVAILABLE:
293
+ return "Error: PDF reading requires PyPDF2 library. Install with: pip install PyPDF2"
294
+
295
+ try:
296
+ with open(file_path, 'rb') as file:
297
+ pdf_reader = PyPDF2.PdfReader(file)
298
+ text = ""
299
+ for page_num, page in enumerate(pdf_reader.pages):
300
+ try:
301
+ text += page.extract_text() + "\n"
302
+ except Exception as e:
303
+ logger.warning(f"Error reading page {page_num}: {str(e)}")
304
+ continue
305
+ return text.strip()
306
+ except Exception as e:
307
+ logger.error(f"Error reading PDF: {str(e)}")
308
+ return f"Error reading PDF: {str(e)}"
309
+
310
+ def read_cha_file(file_path: str) -> str:
311
+ """Enhanced CHA file parser with better CHAT format support"""
312
+ try:
313
+ with open(file_path, 'r', encoding='utf-8', errors='ignore') as f:
314
+ content = f.read()
315
+
316
+ # Extract participant lines (starting with *PAR: or *CHI:)
317
+ participant_lines = []
318
+ investigator_lines = []
319
+
320
+ for line in content.splitlines():
321
+ line = line.strip()
322
+ if line.startswith('*PAR:') or line.startswith('*CHI:'):
323
+ participant_lines.append(line)
324
+ elif line.startswith('*INV:') or line.startswith('*EXA:'):
325
+ investigator_lines.append(line)
326
+
327
+ # Combine participant and investigator lines in chronological order
328
+ all_lines = []
329
+ for line in content.splitlines():
330
+ line = line.strip()
331
+ if line.startswith('*PAR:') or line.startswith('*CHI:') or line.startswith('*INV:') or line.startswith('*EXA:'):
332
+ all_lines.append(line)
333
+
334
+ if all_lines:
335
+ return '\n'.join(all_lines)
336
+ elif participant_lines:
337
+ return '\n'.join(participant_lines)
338
+ else:
339
+ return content
340
+
341
+ except Exception as e:
342
+ logger.error(f"Error reading CHA file: {str(e)}")
343
+ return ""
344
+
345
+ def process_upload(file) -> str:
346
+ """Enhanced file processing with support for multiple formats"""
347
+ if file is None:
348
+ return ""
349
+
350
+ file_path = file.name
351
+ file_ext = os.path.splitext(file_path)[1].lower()
352
+
353
+ try:
354
+ if file_ext == '.pdf':
355
+ return read_pdf(file_path)
356
+ elif file_ext == '.cha':
357
+ return read_cha_file(file_path)
358
+ elif file_ext in ['.txt', '.doc', '.docx']:
359
+ # For .doc/.docx, you might want to add python-docx support
360
+ with open(file_path, 'r', encoding='utf-8', errors='ignore') as f:
361
+ return f.read()
362
+ else:
363
+ # Try to read as text file
364
+ with open(file_path, 'r', encoding='utf-8', errors='ignore') as f:
365
+ content = f.read()
366
+ if len(content.strip()) == 0:
367
+ return "Error: File appears to be empty or in an unsupported format."
368
+ return content
369
+ except Exception as e:
370
+ logger.error(f"Error processing uploaded file: {str(e)}")
371
+ return f"Error reading file: {str(e)}"
372
+
373
+ # ===============================
374
+ # Enhanced Audio Processing (Local)
375
+ # ===============================
376
+
377
+ def transcribe_audio_local(audio_path: str) -> str:
378
+ """Local audio transcription using speech_recognition library"""
379
+ if not SPEECH_RECOGNITION_AVAILABLE:
380
+ return generate_demo_transcription()
381
+
382
+ try:
383
+ r = sr.Recognizer()
384
+
385
+ # Convert audio to WAV if needed
386
+ if not audio_path.endswith('.wav'):
387
+ try:
388
+ audio = pydub.AudioSegment.from_file(audio_path)
389
+ wav_path = audio_path.rsplit('.', 1)[0] + '.wav'
390
+ audio.export(wav_path, format="wav")
391
+ audio_path = wav_path
392
+ except Exception as e:
393
+ logger.error(f"Error converting audio: {str(e)}")
394
+ return f"Error: Could not process audio file. {str(e)}"
395
+
396
+ # Transcribe audio
397
+ with sr.AudioFile(audio_path) as source:
398
+ audio_data = r.record(source)
399
+ try:
400
+ text = r.recognize_google(audio_data)
401
+ return format_transcription_as_chat(text)
402
+ except sr.UnknownValueError:
403
+ return "Error: Could not understand audio"
404
+ except sr.RequestError as e:
405
+ return f"Error: Could not request results; {e}"
406
+
407
+ except Exception as e:
408
+ logger.error(f"Error in local transcription: {str(e)}")
409
+ return generate_demo_transcription()
410
+
411
+ def format_transcription_as_chat(text: str) -> str:
412
+ """Format transcribed text into CHAT format"""
413
+ # Split text into sentences and format as participant speech
414
+ sentences = re.split(r'[.!?]+', text)
415
+ chat_lines = []
416
+
417
+ for sentence in sentences:
418
+ sentence = sentence.strip()
419
+ if sentence:
420
+ chat_lines.append(f"*PAR: {sentence}.")
421
+
422
+ return '\n'.join(chat_lines)
423
+
424
+ def generate_demo_transcription() -> str:
425
+ """Generate a demo transcription when real transcription isn't available"""
426
+ return """*PAR: today I want to tell you about my favorite toy.
427
+ *PAR: it's a &-um teddy bear that I got for my birthday.
428
+ *PAR: he has &-um brown fur and a red bow.
429
+ *PAR: I like to sleep with him every night.
430
+ *PAR: sometimes I take him to school in my backpack.
431
+ *INV: what's your teddy bear's name?
432
+ *PAR: his name is &-um Brownie because he's brown.
433
+ *PAR: he makes me feel &-um safe when I'm scared."""
434
+
435
+ # ===============================
436
+ # Enhanced AI Analysis Functions
437
+ # ===============================
438
+
439
+ def call_bedrock(prompt: str, max_tokens: int = 4096) -> str:
440
+ """Enhanced Bedrock API call with better error handling"""
441
+ if not bedrock_client:
442
+ logger.info("Bedrock client not available, using enhanced demo response")
443
+ return generate_enhanced_demo_response(prompt)
444
+
445
+ try:
446
+ body = json.dumps({
447
+ "anthropic_version": "bedrock-2023-05-31",
448
+ "max_tokens": max_tokens,
449
+ "messages": [{"role": "user", "content": prompt}],
450
+ "temperature": 0.3,
451
+ "top_p": 0.9
452
+ })
453
+
454
+ response = bedrock_client.invoke_model(
455
+ body=body,
456
+ modelId='anthropic.claude-3-sonnet-20240229-v1:0',
457
+ accept='application/json',
458
+ contentType='application/json'
459
+ )
460
+ response_body = json.loads(response.get('body').read())
461
+ return response_body['content'][0]['text']
462
+ except Exception as e:
463
+ logger.error(f"Error in call_bedrock: {str(e)}")
464
+ return generate_enhanced_demo_response(prompt)
465
+
466
+ def generate_enhanced_demo_response(prompt: str) -> str:
467
+ """Generate sophisticated demo responses based on transcript analysis"""
468
+ # Analyze the transcript in the prompt to generate more realistic responses
469
+ transcript_match = re.search(r'TRANSCRIPT:\s*(.*?)(?=\n\n|\Z)', prompt, re.DOTALL)
470
+ transcript = transcript_match.group(1) if transcript_match else ""
471
+
472
+ # Count various speech patterns
473
+ um_count = len(re.findall(r'&-um|&-uh', transcript))
474
+ revision_count = len(re.findall(r'\[//\]', transcript))
475
+ repetition_count = len(re.findall(r'\[/\]', transcript))
476
+ error_count = len(re.findall(r'\[\*\]', transcript))
477
+
478
+ # Generate scores based on patterns found
479
+ fluency_score = max(70, 100 - (um_count * 2))
480
+ syntactic_score = max(70, 100 - (error_count * 3))
481
+ semantic_score = max(75, 105 - (revision_count * 2))
482
+
483
+ # Convert to percentiles
484
+ fluency_percentile = int(np.interp(fluency_score, [70, 85, 100, 115], [5, 16, 50, 84]))
485
+ syntactic_percentile = int(np.interp(syntactic_score, [70, 85, 100, 115], [5, 16, 50, 84]))
486
+ semantic_percentile = int(np.interp(semantic_score, [70, 85, 100, 115], [5, 16, 50, 84]))
487
+
488
+ # Determine performance levels
489
+ def get_performance_level(score):
490
+ if score < 70: return "Well Below Average"
491
+ elif score < 85: return "Below Average"
492
+ elif score < 115: return "Average"
493
+ elif score < 130: return "Above Average"
494
+ else: return "Well Above Average"
495
+
496
+ response = f"""<SPEECH_FACTORS_START>
497
+ Difficulty producing fluent speech: {um_count + revision_count}, {100 - fluency_percentile}
498
+ Examples:
499
+ - Direct quotes showing disfluencies from transcript
500
+ - Pauses and hesitations noted
501
+
502
+ Word retrieval issues: {um_count // 2 + 1}, {90 - semantic_percentile}
503
+ Examples:
504
+ - Word-finding difficulties observed
505
+ - Circumlocutions and fillers
506
+
507
+ Grammatical errors: {error_count}, {85 - syntactic_percentile}
508
+ Examples:
509
+ - Morphological and syntactic errors identified
510
+ - Verb tense and agreement issues
511
+
512
+ Repetitions and revisions: {repetition_count + revision_count}, {80 - fluency_percentile}
513
+ Examples:
514
+ - Self-corrections and repairs noted
515
+ - Repetitive patterns observed
516
+ <SPEECH_FACTORS_END>
517
+
518
+ <CASL_SKILLS_START>
519
+ Lexical/Semantic Skills: Standard Score ({semantic_score}), Percentile Rank ({semantic_percentile}%), {get_performance_level(semantic_score)}
520
+ Examples:
521
+ - Vocabulary usage and word selection patterns
522
+ - Semantic precision and concept expression
523
+
524
+ Syntactic Skills: Standard Score ({syntactic_score}), Percentile Rank ({syntactic_percentile}%), {get_performance_level(syntactic_score)}
525
+ Examples:
526
+ - Sentence structure and grammatical accuracy
527
+ - Morphological skill demonstration
528
+
529
+ Supralinguistic Skills: Standard Score ({fluency_score}), Percentile Rank ({fluency_percentile}%), {get_performance_level(fluency_score)}
530
+ Examples:
531
+ - Discourse organization and coherence
532
+ - Pragmatic language use and narrative skills
533
+ <CASL_SKILLS_END>
534
+
535
+ <TREATMENT_RECOMMENDATIONS_START>
536
+ - Target word-finding strategies with semantic feature analysis and phonemic cuing
537
+ - Implement sentence formulation exercises focusing on grammatical accuracy
538
+ - Practice narrative structure with visual supports and story grammar elements
539
+ - Use self-monitoring techniques to increase awareness of communication breakdowns
540
+ - Incorporate fluency shaping strategies to reduce disfluencies and improve flow
541
+ <TREATMENT_RECOMMENDATIONS_END>
542
+
543
+ <EXPLANATION_START>
544
+ The language sample demonstrates patterns consistent with a mild-to-moderate language disorder affecting primarily expressive skills. Word-finding difficulties and syntactic challenges are evident, while overall communicative intent remains clear. The presence of self-corrections indicates good metalinguistic awareness, which is a positive prognostic indicator for treatment.
545
+ <EXPLANATION_END>
546
+
547
+ <ADDITIONAL_ANALYSIS_START>
548
+ Strengths include maintained topic coherence and attempt at complex narrative structure. Areas of concern center on retrieval efficiency and grammatical formulation. The pattern suggests intact receptive language with specific expressive challenges that would benefit from targeted intervention focusing on lexical access and syntactic formulation.
549
+ <ADDITIONAL_ANALYSIS_END>
550
+
551
+ <DIAGNOSTIC_IMPRESSIONS_START>
552
+ Based on comprehensive analysis, this profile suggests a specific language impairment affecting expressive domains more significantly than receptive abilities. The combination of word-finding difficulties, grammatical errors, and disfluencies indicates need for structured language intervention with focus on lexical organization, syntactic practice, and metacognitive strategy development.
553
+ <DIAGNOSTIC_IMPRESSIONS_END>
554
+
555
+ <ERROR_EXAMPLES_START>
556
+ Word-finding difficulties:
557
+ - Examples of circumlocutions and word substitutions
558
+ - Pause patterns before content words
559
+
560
+ Grammatical errors:
561
+ - Specific morphological and syntactic errors
562
+ - Verb tense and agreement difficulties
563
+
564
+ Fluency disruptions:
565
+ - Repetitions, revisions, and false starts
566
+ - Filled and unfilled pause patterns
567
+ <ERROR_EXAMPLES_END>"""
568
+
569
+ return response
570
+
571
+ def parse_casl_response(response: str) -> Dict:
572
+ """Enhanced parsing of LLM response with better error handling and structure"""
573
+ # Extract sections using improved regex patterns
574
+ sections = {
575
+ 'speech_factors': extract_section(response, 'SPEECH_FACTORS'),
576
+ 'casl_data': extract_section(response, 'CASL_SKILLS'),
577
+ 'treatment_suggestions': extract_section(response, 'TREATMENT_RECOMMENDATIONS'),
578
+ 'explanation': extract_section(response, 'EXPLANATION'),
579
+ 'additional_analysis': extract_section(response, 'ADDITIONAL_ANALYSIS'),
580
+ 'diagnostic_impressions': extract_section(response, 'DIAGNOSTIC_IMPRESSIONS'),
581
+ 'specific_errors': extract_section(response, 'ERROR_EXAMPLES')
582
+ }
583
+
584
+ # Create structured analysis
585
+ structured_data = process_speech_factors(sections['speech_factors'])
586
+ casl_structured = process_casl_skills(sections['casl_data'])
587
+
588
+ # Build comprehensive report
589
+ full_report = build_comprehensive_report(sections)
590
+
591
+ return {
592
+ 'speech_factors': structured_data['dataframe'],
593
+ 'casl_data': casl_structured['dataframe'],
594
+ 'treatment_suggestions': parse_treatment_recommendations(sections['treatment_suggestions']),
595
+ 'explanation': sections['explanation'],
596
+ 'additional_analysis': sections['additional_analysis'],
597
+ 'diagnostic_impressions': sections['diagnostic_impressions'],
598
+ 'specific_errors': structured_data['errors'],
599
+ 'full_report': full_report,
600
+ 'raw_response': response,
601
+ 'summary_scores': casl_structured['summary']
602
+ }
603
+
604
+ def extract_section(text: str, section_name: str) -> str:
605
+ """Extract content between section markers"""
606
+ pattern = re.compile(f"<{section_name}_START>(.*?)<{section_name}_END>", re.DOTALL)
607
+ match = pattern.search(text)
608
+ return match.group(1).strip() if match else ""
609
+
610
+ def process_speech_factors(factors_text: str) -> Dict:
611
+ """Process speech factors into structured format"""
612
+ data = {
613
+ 'Factor': [],
614
+ 'Occurrences': [],
615
+ 'Severity': [],
616
+ 'Examples': []
617
+ }
618
+
619
+ errors = {}
620
+ lines = factors_text.split('\n')
621
+ current_factor = None
622
+
623
+ for line in lines:
624
+ line = line.strip()
625
+ if not line:
626
+ continue
627
+
628
+ # Look for factor pattern: "Factor name: count, percentile"
629
+ factor_match = re.match(r'([^:]+):\s*(\d+),\s*(\d+)', line)
630
+ if factor_match:
631
+ factor = factor_match.group(1).strip()
632
+ occurrences = int(factor_match.group(2))
633
+ severity = int(factor_match.group(3))
634
+
635
+ data['Factor'].append(factor)
636
+ data['Occurrences'].append(occurrences)
637
+ data['Severity'].append(severity)
638
+ data['Examples'].append("") # Will be filled later
639
+ current_factor = factor
640
+
641
+ elif line.startswith('- ') and current_factor:
642
+ # This is an example for the current factor
643
+ example = line[2:].strip()
644
+ if example:
645
+ # Update the last added example
646
+ if data['Examples'] and current_factor in data['Factor']:
647
+ idx = data['Factor'].index(current_factor)
648
+ if not data['Examples'][idx]:
649
+ data['Examples'][idx] = example
650
+ else:
651
+ data['Examples'][idx] += f"; {example}"
652
+ errors[current_factor] = example
653
+
654
+ return {
655
+ 'dataframe': pd.DataFrame(data),
656
+ 'errors': errors
657
+ }
658
+
659
+ def process_casl_skills(casl_text: str) -> Dict:
660
+ """Process CASL skills into structured format"""
661
+ data = {
662
+ 'Domain': ['Lexical/Semantic', 'Syntactic', 'Supralinguistic'],
663
+ 'Standard Score': [85, 85, 85], # Default values
664
+ 'Percentile': [16, 16, 16],
665
+ 'Performance Level': ['Below Average', 'Below Average', 'Below Average'],
666
+ 'Examples': ['', '', '']
667
+ }
668
+
669
+ lines = casl_text.split('\n')
670
+
671
+ for line in lines:
672
+ line = line.strip()
673
+ if not line:
674
+ continue
675
+
676
+ # Look for domain scores
677
+ score_match = re.search(r'(Lexical/Semantic|Syntactic|Supralinguistic)\s+Skills:\s+Standard Score \((\d+)\),\s+Percentile Rank \((\d+)%\),\s+(.+)', line)
678
+ if score_match:
679
+ domain = score_match.group(1)
680
+ score = int(score_match.group(2))
681
+ percentile = int(score_match.group(3))
682
+ level = score_match.group(4).strip()
683
+
684
+ if domain == 'Lexical/Semantic':
685
+ idx = 0
686
+ elif domain == 'Syntactic':
687
+ idx = 1
688
+ elif domain == 'Supralinguistic':
689
+ idx = 2
690
+ else:
691
+ continue
692
+
693
+ data['Standard Score'][idx] = score
694
+ data['Percentile'][idx] = percentile
695
+ data['Performance Level'][idx] = level
696
+
697
+ # Calculate summary statistics
698
+ avg_score = sum(data['Standard Score']) / len(data['Standard Score'])
699
+ avg_percentile = sum(data['Percentile']) / len(data['Percentile'])
700
+
701
+ return {
702
+ 'dataframe': pd.DataFrame(data),
703
+ 'summary': {
704
+ 'average_score': round(avg_score, 1),
705
+ 'average_percentile': round(avg_percentile, 1),
706
+ 'overall_level': get_performance_level(avg_score)
707
+ }
708
+ }
709
+
710
+ def get_performance_level(score: float) -> str:
711
+ """Determine performance level from standard score"""
712
+ if score < 70:
713
+ return "Well Below Average"
714
+ elif score < 85:
715
+ return "Below Average"
716
+ elif score < 115:
717
+ return "Average"
718
+ elif score < 130:
719
+ return "Above Average"
720
+ else:
721
+ return "Well Above Average"
722
+
723
+ def parse_treatment_recommendations(treatment_text: str) -> List[str]:
724
+ """Parse treatment recommendations into a list"""
725
+ recommendations = []
726
+ lines = treatment_text.split('\n')
727
+
728
+ for line in lines:
729
+ line = line.strip()
730
+ if line.startswith('- '):
731
+ recommendations.append(line[2:])
732
+ elif line.startswith('β€’ '):
733
+ recommendations.append(line[2:])
734
+ elif line and not line.startswith('#'):
735
+ recommendations.append(line)
736
+
737
+ return [rec for rec in recommendations if rec]
738
+
739
+ def build_comprehensive_report(sections: Dict) -> str:
740
+ """Build a comprehensive formatted report"""
741
+ report = """# Speech Language Assessment Report
742
+
743
+ ## Speech Factors Analysis
744
+
745
+ {speech_factors}
746
+
747
+ ## CASL Skills Assessment
748
+
749
+ {casl_data}
750
+
751
+ ## Treatment Recommendations
752
+
753
+ {treatment_suggestions}
754
+
755
+ ## Clinical Explanation
756
+
757
+ {explanation}
758
+ """.format(**sections)
759
+
760
+ if sections['additional_analysis']:
761
+ report += f"\n## Additional Analysis\n\n{sections['additional_analysis']}"
762
+
763
+ if sections['diagnostic_impressions']:
764
+ report += f"\n## Diagnostic Impressions\n\n{sections['diagnostic_impressions']}"
765
+
766
+ if sections['specific_errors']:
767
+ report += f"\n## Detailed Error Examples\n\n{sections['specific_errors']}"
768
+
769
+ return report
770
+
771
+ def create_enhanced_visualizations(speech_factors_df: pd.DataFrame, casl_data_df: pd.DataFrame) -> plt.Figure:
772
+ """Create enhanced visualizations with better styling"""
773
+ # Set professional styling
774
+ plt.style.use('default')
775
+ sns.set_palette("husl")
776
+
777
+ fig = plt.figure(figsize=(15, 10))
778
+
779
+ # Create a 2x2 grid
780
+ gs = fig.add_gridspec(2, 2, hspace=0.3, wspace=0.3)
781
+
782
+ # Speech factors bar chart
783
+ ax1 = fig.add_subplot(gs[0, 0])
784
+ if not speech_factors_df.empty:
785
+ factors_sorted = speech_factors_df.sort_values('Occurrences', ascending=True)
786
+ bars = ax1.barh(factors_sorted['Factor'], factors_sorted['Occurrences'],
787
+ color=sns.color_palette("viridis", len(factors_sorted)))
788
+ ax1.set_title('Speech Factors Frequency', fontsize=12, fontweight='bold')
789
+ ax1.set_xlabel('Occurrences')
790
+
791
+ # Add value labels
792
+ for i, bar in enumerate(bars):
793
+ width = bar.get_width()
794
+ ax1.text(width + 0.1, bar.get_y() + bar.get_height()/2,
795
+ f'{width:.0f}', ha='left', va='center')
796
+
797
+ # CASL scores
798
+ ax2 = fig.add_subplot(gs[0, 1])
799
+ if not casl_data_df.empty:
800
+ bars = ax2.bar(casl_data_df['Domain'], casl_data_df['Standard Score'],
801
+ color=sns.color_palette("muted", len(casl_data_df)))
802
+ ax2.set_title('CASL Domain Scores', fontsize=12, fontweight='bold')
803
+ ax2.set_ylabel('Standard Score')
804
+ ax2.axhline(y=100, color='red', linestyle='--', alpha=0.7, label='Average (100)')
805
+ ax2.axhline(y=85, color='orange', linestyle='--', alpha=0.7, label='Below Average (85)')
806
+ ax2.legend()
807
+
808
+ # Add score labels
809
+ for i, bar in enumerate(bars):
810
+ height = bar.get_height()
811
+ ax2.text(bar.get_x() + bar.get_width()/2, height + 1,
812
+ f'{height:.0f}', ha='center', va='bottom')
813
+
814
+ # Severity heatmap
815
+ ax3 = fig.add_subplot(gs[1, :])
816
+ if not speech_factors_df.empty:
817
+ # Create a severity matrix
818
+ severity_data = speech_factors_df[['Factor', 'Severity']].set_index('Factor')
819
+ severity_matrix = severity_data.T
820
+
821
+ im = ax3.imshow([severity_data['Severity'].values], cmap='RdYlBu_r', aspect='auto')
822
+ ax3.set_xticks(range(len(severity_data)))
823
+ ax3.set_xticklabels(severity_data.index, rotation=45, ha='right')
824
+ ax3.set_yticks([])
825
+ ax3.set_title('Severity Percentiles (Higher = More Severe)', fontsize=12, fontweight='bold')
826
+
827
+ # Add colorbar
828
+ cbar = plt.colorbar(im, ax=ax3, orientation='horizontal', pad=0.1, shrink=0.8)
829
+ cbar.set_label('Severity Percentile')
830
+
831
+ # Add text annotations
832
+ for i, severity in enumerate(severity_data['Severity'].values):
833
+ ax3.text(i, 0, f'{severity}%', ha='center', va='center',
834
+ color='white' if severity > 50 else 'black', fontweight='bold')
835
+
836
+ plt.tight_layout()
837
+ return fig
838
+
839
+ def analyze_transcript_enhanced(transcript: str, age: int, gender: str) -> Dict:
840
+ """Enhanced transcript analysis with comprehensive assessment"""
841
+
842
+ # Enhanced CASL analysis prompt
843
+ prompt = f"""
844
+ You are an expert speech-language pathologist conducting a comprehensive CASL-2 assessment.
845
+ Analyze this transcript for a {age}-year-old {gender} patient.
846
+
847
+ TRANSCRIPT:
848
+ {transcript}
849
+
850
+ Provide a detailed analysis following this exact format with specific section markers:
851
+
852
+ <SPEECH_FACTORS_START>
853
+ [For each factor, provide: Factor name: count, severity_percentile
854
+ Then list 2-3 specific examples with "- " bullets]
855
+ Difficulty producing fluent speech: X, Y
856
+ Examples:
857
+ - "exact quote from transcript"
858
+ - "another exact quote"
859
+
860
+ Word retrieval issues: X, Y
861
+ Examples:
862
+ - "exact quote showing word-finding difficulty"
863
+ - "another example"
864
+
865
+ [Continue for all relevant factors...]
866
+ <SPEECH_FACTORS_END>
867
+
868
+ <CASL_SKILLS_START>
869
+ Lexical/Semantic Skills: Standard Score (X), Percentile Rank (Y%), Performance Level
870
+ Examples:
871
+ - "specific example of vocabulary use"
872
+
873
+ Syntactic Skills: Standard Score (X), Percentile Rank (Y%), Performance Level
874
+ Examples:
875
+ - "specific grammatical pattern example"
876
+
877
+ Supralinguistic Skills: Standard Score (X), Percentile Rank (Y%), Performance Level
878
+ Examples:
879
+ - "discourse organization example"
880
+ <CASL_SKILLS_END>
881
+
882
+ <TREATMENT_RECOMMENDATIONS_START>
883
+ - Specific, actionable treatment recommendation
884
+ - Another targeted intervention strategy
885
+ - Additional therapeutic approach
886
+ <TREATMENT_RECOMMENDATIONS_END>
887
+
888
+ <EXPLANATION_START>
889
+ Comprehensive clinical explanation of findings and their significance.
890
+ <EXPLANATION_END>
891
+
892
+ <ADDITIONAL_ANALYSIS_START>
893
+ Additional insights for treatment planning and prognosis.
894
+ <ADDITIONAL_ANALYSIS_END>
895
+
896
+ <DIAGNOSTIC_IMPRESSIONS_START>
897
+ Summary of diagnostic findings with specific evidence and recommendations.
898
+ <DIAGNOSTIC_IMPRESSIONS_END>
899
+
900
+ <ERROR_EXAMPLES_START>
901
+ Organized listing of all specific error examples by category.
902
+ <ERROR_EXAMPLES_END>
903
+
904
+ Be sure to:
905
+ 1. Use exact quotes from the transcript as evidence
906
+ 2. Provide realistic standard scores (70-130 range, mean=100, SD=15)
907
+ 3. Calculate appropriate percentiles
908
+ 4. Give specific, evidence-based treatment recommendations
909
+ 5. Consider the patient's age and developmental expectations
910
+ """
911
+
912
+ # Get analysis from AI or demo
913
+ response = call_bedrock(prompt)
914
+
915
+ # Parse and structure the response
916
+ results = parse_casl_response(response)
917
+
918
+ return results
919
+
920
+ # ===============================
921
+ # Enhanced PDF Export Functions
922
+ # ===============================
923
+
924
+ def export_enhanced_pdf(results: Dict, patient_info: Dict) -> str:
925
+ """Create enhanced PDF report with professional styling"""
926
+ if not REPORTLAB_AVAILABLE:
927
+ return "ERROR: PDF export requires ReportLab library. Install with: pip install reportlab"
928
+
929
+ try:
930
+ # Generate filename
931
+ patient_name = patient_info.get("name", "Unknown")
932
+ safe_name = re.sub(r'[^\w\s-]', '', patient_name).strip()
933
+ if not safe_name:
934
+ safe_name = f"analysis_{datetime.now().strftime('%Y%m%d%H%M%S')}"
935
+
936
+ ensure_data_dirs()
937
+ pdf_path = os.path.join(DOWNLOADS_DIR, f"{safe_name}_CASL_Report.pdf")
938
+
939
+ # Create document with better styling
940
+ doc = SimpleDocTemplate(pdf_path, pagesize=A4,
941
+ rightMargin=72, leftMargin=72,
942
+ topMargin=72, bottomMargin=18)
943
+
944
+ styles = getSampleStyleSheet()
945
+
946
+ # Custom styles
947
+ title_style = ParagraphStyle(
948
+ 'CustomTitle',
949
+ parent=styles['Heading1'],
950
+ fontSize=18,
951
+ spaceAfter=30,
952
+ alignment=1, # Center
953
+ textColor=colors.navy
954
+ )
955
+
956
+ heading_style = ParagraphStyle(
957
+ 'CustomHeading',
958
+ parent=styles['Heading2'],
959
+ fontSize=14,
960
+ spaceAfter=12,
961
+ textColor=colors.darkblue,
962
+ borderWidth=1,
963
+ borderColor=colors.lightgrey,
964
+ borderPadding=5,
965
+ backColor=colors.lightgrey
966
+ )
967
+
968
+ story = []
969
+
970
+ # Title page
971
+ story.append(Paragraph("COMPREHENSIVE SPEECH-LANGUAGE ASSESSMENT", title_style))
972
+ story.append(Paragraph("CASL-2 Analysis Report", styles['Heading2']))
973
+ story.append(Spacer(1, 20))
974
+
975
+ # Patient information table
976
+ patient_data = []
977
+ for key, value in patient_info.items():
978
+ if value:
979
+ display_key = key.replace('_', ' ').title()
980
+ patient_data.append([display_key + ":", str(value)])
981
+
982
+ if patient_data:
983
+ patient_table = Table(patient_data, colWidths=[150, 300])
984
+ patient_table.setStyle(TableStyle([
985
+ ('BACKGROUND', (0, 0), (0, -1), colors.lightgrey),
986
+ ('TEXTCOLOR', (0, 0), (0, -1), colors.black),
987
+ ('ALIGN', (0, 0), (0, -1), 'RIGHT'),
988
+ ('FONTNAME', (0, 0), (0, -1), 'Helvetica-Bold'),
989
+ ('FONTSIZE', (0, 0), (-1, -1), 10),
990
+ ('GRID', (0, 0), (-1, -1), 1, colors.black),
991
+ ('VALIGN', (0, 0), (-1, -1), 'TOP'),
992
+ ]))
993
+ story.append(patient_table)
994
+ story.append(Spacer(1, 20))
995
+
996
+ # Add sections
997
+ sections = [
998
+ ("Speech Factors Analysis", results.get('speech_factors', pd.DataFrame())),
999
+ ("CASL Skills Assessment", results.get('casl_data', pd.DataFrame())),
1000
+ ("Treatment Recommendations", results.get('treatment_suggestions', [])),
1001
+ ("Clinical Explanation", results.get('explanation', "")),
1002
+ ("Additional Analysis", results.get('additional_analysis', "")),
1003
+ ("Diagnostic Impressions", results.get('diagnostic_impressions', ""))
1004
+ ]
1005
+
1006
+ for section_title, content in sections:
1007
+ story.append(Paragraph(section_title, heading_style))
1008
+
1009
+ if isinstance(content, pd.DataFrame) and not content.empty:
1010
+ # Convert DataFrame to table
1011
+ table_data = [content.columns.tolist()] + content.values.tolist()
1012
+ table = Table(table_data)
1013
+ table.setStyle(TableStyle([
1014
+ ('BACKGROUND', (0, 0), (-1, 0), colors.grey),
1015
+ ('TEXTCOLOR', (0, 0), (-1, 0), colors.whitesmoke),
1016
+ ('ALIGN', (0, 0), (-1, -1), 'LEFT'),
1017
+ ('FONTNAME', (0, 0), (-1, 0), 'Helvetica-Bold'),
1018
+ ('FONTSIZE', (0, 0), (-1, -1), 9),
1019
+ ('BOTTOMPADDING', (0, 0), (-1, 0), 12),
1020
+ ('BACKGROUND', (0, 1), (-1, -1), colors.beige),
1021
+ ('GRID', (0, 0), (-1, -1), 1, colors.black)
1022
+ ]))
1023
+ story.append(table)
1024
+ elif isinstance(content, list):
1025
+ for item in content:
1026
+ story.append(Paragraph(f"β€’ {item}", styles['Normal']))
1027
+ elif isinstance(content, str) and content:
1028
+ story.append(Paragraph(content, styles['Normal']))
1029
+
1030
+ story.append(Spacer(1, 12))
1031
+
1032
+ # Footer
1033
+ story.append(Spacer(1, 30))
1034
+ footer_text = f"Report generated on {datetime.now().strftime('%B %d, %Y at %I:%M %p')}"
1035
+ story.append(Paragraph(footer_text, styles['Normal']))
1036
+
1037
+ # Build PDF
1038
+ doc.build(story)
1039
+ logger.info(f"Enhanced PDF report saved: {pdf_path}")
1040
+ return pdf_path
1041
+
1042
+ except Exception as e:
1043
+ logger.error(f"Error creating enhanced PDF: {str(e)}")
1044
+ return f"Error creating PDF: {str(e)}"
1045
+
1046
+ # ===============================
1047
+ # Enhanced Gradio Interface
1048
+ # ===============================
1049
+
1050
+ def create_enhanced_interface():
1051
+ """Create the enhanced Gradio interface with improved UX"""
1052
+
1053
+ # Custom CSS for better styling
1054
+ custom_css = """
1055
+ .gradio-container {
1056
+ font-family: 'Segoe UI', Tahoma, Geneva, Verdana, sans-serif;
1057
+ }
1058
+ .tab-nav {
1059
+ background-color: #f8f9fa;
1060
+ }
1061
+ .output-markdown {
1062
+ background-color: #f8f9fa;
1063
+ border: 1px solid #dee2e6;
1064
+ border-radius: 0.375rem;
1065
+ padding: 1rem;
1066
+ }
1067
+ """
1068
+
1069
+ with gr.Blocks(title="Enhanced CASL Analysis Tool", css=custom_css, theme=gr.themes.Soft()) as app:
1070
+
1071
+ gr.Markdown("""
1072
+ # πŸ—£οΈ Enhanced CASL Analysis Tool
1073
+
1074
+ **Comprehensive Assessment of Spoken Language (CASL-2)**
1075
+
1076
+ Professional speech-language assessment tool with advanced analytics and reporting capabilities.
1077
+ """)
1078
+
1079
+ with gr.Tabs() as main_tabs:
1080
+
1081
+ # Enhanced Analysis Tab
1082
+ with gr.TabItem("πŸ“Š Analysis", id=0):
1083
+ with gr.Row():
1084
+ with gr.Column(scale=1):
1085
+ gr.Markdown("### πŸ‘€ Patient Information")
1086
+
1087
+ patient_name = gr.Textbox(
1088
+ label="Patient Name",
1089
+ placeholder="Enter patient name",
1090
+ info="Required for record keeping"
1091
+ )
1092
+ record_id = gr.Textbox(
1093
+ label="Medical Record ID",
1094
+ placeholder="Enter medical record ID"
1095
+ )
1096
+
1097
+ with gr.Row():
1098
+ age = gr.Number(
1099
+ label="Age (years)",
1100
+ value=8,
1101
+ minimum=1,
1102
+ maximum=120,
1103
+ info="Patient's chronological age"
1104
+ )
1105
+ gender = gr.Radio(
1106
+ ["male", "female", "other"],
1107
+ label="Gender",
1108
+ value="male"
1109
+ )
1110
+
1111
+ assessment_date = gr.Textbox(
1112
+ label="Assessment Date",
1113
+ placeholder="MM/DD/YYYY",
1114
+ value=datetime.now().strftime('%m/%d/%Y')
1115
+ )
1116
+ clinician_name = gr.Textbox(
1117
+ label="Clinician Name",
1118
+ placeholder="Enter clinician name"
1119
+ )
1120
+ clinical_notes = gr.Textbox(
1121
+ label="Clinical Notes",
1122
+ placeholder="Additional observations or context",
1123
+ lines=2
1124
+ )
1125
+
1126
+ gr.Markdown("### πŸ“ Speech Transcript")
1127
+
1128
+ # Sample transcript selection
1129
+ sample_selector = gr.Dropdown(
1130
+ choices=list(SAMPLE_TRANSCRIPTS.keys()),
1131
+ label="Load Sample Transcript",
1132
+ info="Choose a sample for demonstration"
1133
+ )
1134
+
1135
+ file_upload = gr.File(
1136
+ label="Upload Transcript File",
1137
+ file_types=[".txt", ".cha", ".pdf"],
1138
+ info="Supports .txt, .cha, and .pdf files"
1139
+ )
1140
+
1141
+ transcript = gr.Textbox(
1142
+ label="Speech Transcript (CHAT format preferred)",
1143
+ placeholder="Enter or upload transcript...",
1144
+ lines=12,
1145
+ info="Use CHAT format for best results"
1146
+ )
1147
+
1148
+ with gr.Row():
1149
+ analyze_btn = gr.Button(
1150
+ "πŸ” Analyze Transcript",
1151
+ variant="primary",
1152
+ size="lg"
1153
+ )
1154
+ save_record_btn = gr.Button(
1155
+ "πŸ’Ύ Save Record",
1156
+ variant="secondary"
1157
+ )
1158
+
1159
+ with gr.Column(scale=1):
1160
+ gr.Markdown("### πŸ“ˆ Analysis Results")
1161
+
1162
+ # Results tabs
1163
+ with gr.Tabs():
1164
+ with gr.TabItem("πŸ“‹ Report"):
1165
+ analysis_output = gr.Markdown(
1166
+ label="Analysis Report",
1167
+ elem_classes=["output-markdown"]
1168
+ )
1169
+
1170
+ with gr.TabItem("πŸ“Š Visualizations"):
1171
+ plot_output = gr.Plot(
1172
+ label="Analysis Plots",
1173
+ info="Visual representation of assessment results"
1174
+ )
1175
+
1176
+ with gr.TabItem("πŸ“‘ Data Tables"):
1177
+ with gr.Row():
1178
+ factors_table = gr.Dataframe(
1179
+ label="Speech Factors",
1180
+ interactive=False
1181
+ )
1182
+ with gr.Row():
1183
+ casl_table = gr.Dataframe(
1184
+ label="CASL Domain Scores",
1185
+ interactive=False
1186
+ )
1187
+
1188
+ # Export options
1189
+ gr.Markdown("### πŸ“€ Export Options")
1190
+ with gr.Row():
1191
+ if REPORTLAB_AVAILABLE:
1192
+ export_pdf_btn = gr.Button(
1193
+ "πŸ“„ Export PDF Report",
1194
+ variant="secondary"
1195
+ )
1196
+ else:
1197
+ gr.Markdown("⚠️ PDF export unavailable - install ReportLab")
1198
+
1199
+ export_csv_btn = gr.Button(
1200
+ "πŸ“Š Export Data (CSV)",
1201
+ variant="secondary"
1202
+ )
1203
+
1204
+ export_status = gr.Markdown("")
1205
+
1206
+ # Enhanced Transcription Tab
1207
+ with gr.TabItem("🎀 Transcription", id=1):
1208
+ with gr.Row():
1209
+ with gr.Column(scale=1):
1210
+ gr.Markdown("### 🎡 Audio Processing")
1211
+ gr.Markdown("""
1212
+ Upload audio recordings for automatic transcription.
1213
+ Supports various audio formats and provides CHAT-formatted output.
1214
+ """)
1215
+
1216
+ transcription_age = gr.Number(
1217
+ label="Patient Age",
1218
+ value=8,
1219
+ minimum=1,
1220
+ maximum=120,
1221
+ info="Age affects transcription model selection"
1222
+ )
1223
+
1224
+ audio_input = gr.Audio(
1225
+ type="filepath",
1226
+ label="Audio Recording",
1227
+ info="Upload .wav, .mp3, .m4a, or other audio files"
1228
+ )
1229
+
1230
+ transcribe_btn = gr.Button(
1231
+ "🎧 Transcribe Audio",
1232
+ variant="primary"
1233
+ )
1234
+
1235
+ with gr.Column(scale=1):
1236
+ transcription_output = gr.Textbox(
1237
+ label="Transcription Result",
1238
+ placeholder="Transcribed text will appear here...",
1239
+ lines=15,
1240
+ info="CHAT-formatted transcription"
1241
+ )
1242
+
1243
+ transcription_status = gr.Markdown("")
1244
+
1245
+ with gr.Row():
1246
+ copy_to_analysis_btn = gr.Button(
1247
+ "πŸ“‹ Use for Analysis",
1248
+ variant="secondary"
1249
+ )
1250
+ save_transcription_btn = gr.Button(
1251
+ "πŸ’Ύ Save Transcription",
1252
+ variant="secondary"
1253
+ )
1254
+
1255
+ # Enhanced Records Management Tab
1256
+ with gr.TabItem("πŸ“š Records", id=2):
1257
+ gr.Markdown("### πŸ—ƒοΈ Patient Records Management")
1258
+
1259
+ with gr.Row():
1260
+ refresh_records_btn = gr.Button(
1261
+ "πŸ”„ Refresh Records",
1262
+ variant="secondary"
1263
+ )
1264
+ delete_record_btn = gr.Button(
1265
+ "πŸ—‘οΈ Delete Selected",
1266
+ variant="stop"
1267
+ )
1268
+
1269
+ records_table = gr.Dataframe(
1270
+ label="Patient Records",
1271
+ headers=["ID", "Name", "Age", "Gender", "Date", "Clinician", "Score", "Status"],
1272
+ interactive=True,
1273
+ wrap=True
1274
+ )
1275
+
1276
+ selected_record_info = gr.Markdown("")
1277
+
1278
+ with gr.Row():
1279
+ load_record_btn = gr.Button(
1280
+ "πŸ“‚ Load Selected Record",
1281
+ variant="primary"
1282
+ )
1283
+ export_records_btn = gr.Button(
1284
+ "πŸ“Š Export All Records",
1285
+ variant="secondary"
1286
+ )
1287
+
1288
+ # ===============================
1289
+ # Event Handlers
1290
+ # ===============================
1291
+
1292
+ def load_sample_transcript(sample_name):
1293
+ if sample_name in SAMPLE_TRANSCRIPTS:
1294
+ return SAMPLE_TRANSCRIPTS[sample_name]
1295
+ return ""
1296
+
1297
+ def perform_analysis(transcript_text, age_val, gender_val, name, record_id, clinician, assessment_date, notes):
1298
+ if not transcript_text or len(transcript_text.strip()) < 20:
1299
+ return "❌ Error: Please provide a longer transcript (at least 20 characters)", None, None, None
1300
+
1301
+ try:
1302
+ # Perform enhanced analysis
1303
+ results = analyze_transcript_enhanced(transcript_text, age_val, gender_val)
1304
+
1305
+ # Create visualizations
1306
+ if not results['speech_factors'].empty or not results['casl_data'].empty:
1307
+ fig = create_enhanced_visualizations(results['speech_factors'], results['casl_data'])
1308
+ else:
1309
+ fig = None
1310
+
1311
+ return (
1312
+ results['full_report'],
1313
+ fig,
1314
+ results['speech_factors'],
1315
+ results['casl_data']
1316
+ )
1317
+
1318
+ except Exception as e:
1319
+ logger.exception("Error during analysis")
1320
+ return f"❌ Error during analysis: {str(e)}", None, None, None
1321
+
1322
+ def save_patient_record_handler(name, record_id, age_val, gender_val, assessment_date, clinician, notes, transcript_text, analysis_report):
1323
+ if not name or not transcript_text or not analysis_report:
1324
+ return "❌ Error: Missing required information for saving record"
1325
+
1326
+ try:
1327
+ patient_info = {
1328
+ "name": name,
1329
+ "record_id": record_id,
1330
+ "age": age_val,
1331
+ "gender": gender_val,
1332
+ "assessment_date": assessment_date,
1333
+ "clinician": clinician,
1334
+ "notes": notes
1335
+ }
1336
+
1337
+ # For saving, we need to re-parse the analysis
1338
+ # This is a simplified version - in practice you'd store the full results
1339
+ results = {"full_report": analysis_report}
1340
+
1341
+ saved_id = save_patient_record(patient_info, results, transcript_text)
1342
+
1343
+ if saved_id:
1344
+ return f"βœ… Record saved successfully! ID: {saved_id}"
1345
+ else:
1346
+ return "❌ Error: Failed to save record"
1347
+
1348
+ except Exception as e:
1349
+ return f"❌ Error saving record: {str(e)}"
1350
+
1351
+ def transcribe_audio_handler(audio_path, age_val):
1352
+ if not audio_path:
1353
+ return "Please upload an audio file first.", "❌ No audio file provided"
1354
+
1355
+ try:
1356
+ result = transcribe_audio_local(audio_path)
1357
+
1358
+ if SPEECH_RECOGNITION_AVAILABLE:
1359
+ status = "βœ… Transcription completed using local speech recognition"
1360
+ else:
1361
+ status = "ℹ️ Demo transcription (install speech_recognition for real transcription)"
1362
+
1363
+ return result, status
1364
+
1365
+ except Exception as e:
1366
+ error_msg = f"❌ Transcription failed: {str(e)}"
1367
+ return f"Error: {str(e)}", error_msg
1368
+
1369
+ def load_records():
1370
+ records = get_all_patient_records()
1371
+ if not records:
1372
+ return []
1373
+
1374
+ # Format for display
1375
+ display_records = []
1376
+ for record in records:
1377
+ display_records.append([
1378
+ record['id'][:8] + "...", # Truncated ID
1379
+ record['name'],
1380
+ record['age'],
1381
+ record['gender'],
1382
+ record['assessment_date'],
1383
+ record['clinician'],
1384
+ record.get('summary_score', 'N/A'),
1385
+ record['status']
1386
+ ])
1387
+
1388
+ return display_records
1389
+
1390
+ # Connect event handlers
1391
+ sample_selector.change(load_sample_transcript, sample_selector, transcript)
1392
+ file_upload.upload(process_upload, file_upload, transcript)
1393
+
1394
+ analyze_btn.click(
1395
+ perform_analysis,
1396
+ inputs=[transcript, age, gender, patient_name, record_id, clinician_name, assessment_date, clinical_notes],
1397
+ outputs=[analysis_output, plot_output, factors_table, casl_table]
1398
+ )
1399
+
1400
+ save_record_btn.click(
1401
+ save_patient_record_handler,
1402
+ inputs=[patient_name, record_id, age, gender, assessment_date, clinician_name, clinical_notes, transcript, analysis_output],
1403
+ outputs=[export_status]
1404
+ )
1405
+
1406
+ transcribe_btn.click(
1407
+ transcribe_audio_handler,
1408
+ inputs=[audio_input, transcription_age],
1409
+ outputs=[transcription_output, transcription_status]
1410
+ )
1411
+
1412
+ copy_to_analysis_btn.click(
1413
+ lambda x: (x, gr.update(selected=0)),
1414
+ inputs=[transcription_output],
1415
+ outputs=[transcript, main_tabs]
1416
+ )
1417
+
1418
+ refresh_records_btn.click(
1419
+ load_records,
1420
+ outputs=[records_table]
1421
+ )
1422
+
1423
+ # Load records on startup
1424
+ app.load(load_records, outputs=[records_table])
1425
+
1426
+ return app
1427
+
1428
+ if __name__ == "__main__":
1429
+ # Check dependencies and provide helpful messages
1430
+ missing_deps = []
1431
+ if not REPORTLAB_AVAILABLE:
1432
+ missing_deps.append("reportlab (for PDF export)")
1433
+ if not PYPDF2_AVAILABLE:
1434
+ missing_deps.append("PyPDF2 (for PDF reading)")
1435
+ if not SPEECH_RECOGNITION_AVAILABLE:
1436
+ missing_deps.append("speech_recognition & pydub (for audio transcription)")
1437
+
1438
+ if missing_deps:
1439
+ print("πŸ“‹ Optional dependencies not found:")
1440
+ for dep in missing_deps:
1441
+ print(f" - {dep}")
1442
+ print("\nThe app will work with reduced functionality. Install missing packages for full features.")
1443
+
1444
+ if not AWS_ACCESS_KEY or not AWS_SECRET_KEY:
1445
+ print("ℹ️ AWS credentials not configured - using demo mode for AI analysis.")
1446
+ print(" Set AWS_ACCESS_KEY and AWS_SECRET_KEY environment variables for full functionality.")
1447
+
1448
+ print("πŸš€ Starting Enhanced CASL Analysis Tool...")
1449
+ app = create_enhanced_interface()
1450
+ app.launch(
1451
+ show_api=False,
1452
+ server_name="0.0.0.0", # For cloud deployment
1453
+ server_port=7860, # Standard Gradio port
1454
+ share=False
1455
+ )
requirements_improved.txt ADDED
@@ -0,0 +1,12 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ gradio>=4.0.0
2
+ pandas>=1.5.0
3
+ numpy>=1.21.0
4
+ matplotlib>=3.5.0
5
+ seaborn>=0.11.0
6
+ Pillow>=8.0.0
7
+ reportlab>=3.6.0
8
+ boto3>=1.28.0
9
+ botocore>=1.31.0
10
+ PyPDF2>=3.0.0
11
+ speech_recognition>=3.10.0
12
+ pydub>=0.25.0