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Code Issues Packages Projects Releases Wiki Activity

Fix all identified bugs and issues

Browse Source 
Critical Fixes:
- Fixed IOC extraction order: URLs now checked before domains to prevent duplicates
- Fixed overlapping IOC highlights with overlap detection
- Fixed IPv4 pattern to validate octets (0-255) preventing invalid IPs like 999.999.999.999
- Fixed IPv6 pattern to support compressed format (::)
- Fixed hash extraction order: SHA256 -> SHA1 -> MD5 to prevent misclassification

High Priority Fixes:
- Added 10s timeout to all GPG subprocess calls to prevent hangs
- Fixed indentation inconsistency in storage.py:253

Performance Improvements:
- Removed 8 time.sleep(0.1) calls from demo case creation (800ms faster startup)

Robustness Improvements:
- Added error handling to export_markdown() for IOError/OSError/PermissionError
- Implemented atomic writes for state file (set_active)
- Implemented atomic writes for settings file (set_setting)

All changes tested and verified with unit tests.
This commit is contained in:
Claude
2025-12-12 20:24:45 +00:00
parent e59f7be3e4
commit a829275ce0
6 changed files with 124 additions and 272 deletions
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159
BUG_REPORT.md
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@@ -1,159 +0,0 @@
# Bug Report - Code Review Findings
## Critical Bugs
### 1. **IOC Extraction Order Inconsistency** (models.py)
**Location:** `models.py:32-92` vs `models.py:100-162`
**Issue:** The `extract_iocs()` method extracts domains BEFORE URLs, while `extract_iocs_from_text()` extracts URLs BEFORE domains. This causes inconsistent behavior and duplicate IOC extraction.
**Impact:**
- In `extract_iocs()`: URL `https://evil.com/path` will extract both `evil.com` (as domain) and `https://evil.com/path` (as URL)
- In `extract_iocs_from_text()`: Only the full URL is extracted (correct behavior)
**Lines:**
- `extract_iocs()`: Lines 51-64 (domains), then 59-64 (URLs) ❌
- `extract_iocs_from_text()`: Lines 119-124 (URLs), then 126-132 (domains) ✅
**Fix:** URLs should be checked BEFORE domains in `extract_iocs()` to prevent domain extraction from within URLs.
---
### 2. **Overlapping IOC Highlights** (models.py:165-203)
**Location:** `models.py:165-203`
**Issue:** `extract_iocs_with_positions()` doesn't prevent overlapping highlights. URLs containing domains will have both the URL and domain highlighted, causing visual overlap.
**Impact:** In the TUI, text like `https://evil.com/path` would be highlighted twice - once for the URL and once for `evil.com` as a domain.
**Fix:** Should use the same approach as `extract_iocs_from_text()` - check URLs before domains and use the `seen` set to prevent duplicates based on position ranges.
---
### 3. **Invalid IPv4 Address Matching** (models.py, multiple locations)
**Locations:** Lines 38, 106, 157, 171
**Issue:** IPv4 pattern `r'\b(?:[0-9]{1,3}\.){3}[0-9]{1,3}\b'` matches invalid IP addresses like `999.999.999.999` because it doesn't validate that octets are in the range 0-255.
**Impact:** False positive IOC detection for invalid IPs that look like version numbers or other numeric patterns.
**Example:** Would match `999.999.999.999`, `300.400.500.600`
**Fix:** Add validation to check each octet is <= 255, or use a more restrictive pattern.
---
## High Priority Issues
### 4. **Subprocess Timeout Missing** (crypto.py:12-18, 67-74)
**Location:** `crypto.py:12-18` and `crypto.py:67-74`
**Issue:** GPG subprocess calls have no timeout parameter. If GPG hangs (e.g., waiting for passphrase), the application will hang indefinitely.
**Impact:** Application freeze if GPG prompts for input or encounters issues.
**Fix:** Add timeout parameter to `communicate()` call:
```python
stdout, stderr = proc.communicate(timeout=10)
```
---
### 5. **Inconsistent Indentation** (storage.py:253)
**Location:** `storage.py:253`
**Issue:** Extra leading space before `return` statement - inconsistent with Python style and could indicate a logic error.
```python
except (json.JSONDecodeError, IOError):
return {"case_id": None, "evidence_id": None} # Extra space
```
**Impact:** Style inconsistency, potentially confusing for maintainers.
---
## Medium Priority Issues
### 6. **Inefficient Demo Case Creation** (storage.py:24-180)
**Location:** `storage.py:46-156`
**Issue:** Eight separate `time.sleep(0.1)` calls add 800ms of unnecessary delay during first launch.
**Impact:** Slow first-time startup experience (nearly 1 second added delay).
**Fix:** Either remove the sleeps entirely (timestamp granularity is sufficient) or use a single smaller sleep.
---
### 7. **Missing File Write Error Handling** (cli.py:68-112)
**Location:** `cli.py:68-112`
**Issue:** `export_markdown()` doesn't handle file write errors (disk full, permission denied, etc.).
**Impact:** Uncaught exceptions on export failure, no user feedback.
**Fix:** Wrap file operations in try/except and provide meaningful error messages.
---
### 8. **Incomplete IPv6 Pattern** (models.py:45, 113, 175)
**Locations:** Lines 45, 113, 175
**Issue:** IPv6 pattern `r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b'` only matches full format (8 groups), missing compressed format (`::`).
**Impact:** Won't detect compressed IPv6 addresses like `2001:db8::1` or `::1`.
**Example:** Misses `2001:0db8:85a3::8a2e:0370:7334` from demo data (line 146).
---
## Low Priority Issues
### 9. **Hash Collision Risk in IOC Classification** (tui.py:144-162)
**Location:** `tui.py:144-162`
**Issue:** `_classify_ioc()` checks hash lengths in wrong order (MD5, SHA1, SHA256). A SHA256 hash starting with 32 zeros could theoretically match the MD5 pattern first.
**Impact:** Extremely unlikely in practice due to word boundaries, but ordering is still incorrect for clarity.
**Fix:** Check longest hashes first (SHA256, SHA1, MD5).
---
### 10. **No Atomic Write for Settings** (storage.py:264-268)
**Location:** `storage.py:264-268`
**Issue:** `set_setting()` directly writes to settings file without atomic write pattern (temp file + rename) used elsewhere.
**Impact:** Settings corruption if write is interrupted.
**Fix:** Use same atomic write pattern as `save_data()`.
---
### 11. **No Atomic Write for State** (storage.py:239-244)
**Location:** `storage.py:239-244`
**Issue:** `set_active()` directly writes to state file without atomic write pattern.
**Impact:** State corruption if write is interrupted.
**Fix:** Use same atomic write pattern as `save_data()`.
---
## Summary
**Critical:** 3 bugs (IOC extraction, overlapping highlights, invalid IPv4)
**High:** 2 bugs (subprocess timeout, indentation)
**Medium:** 3 issues (inefficient sleeps, missing error handling, IPv6 pattern)
**Low:** 3 issues (hash classification order, non-atomic writes)
**Total:** 11 issues found
## Recommendations
1. **Immediate fixes:** #1 (IOC extraction order), #3 (IPv4 validation), #4 (subprocess timeout)
2. **High priority:** #2 (overlapping highlights), #5 (indentation), #7 (error handling)
3. **Nice to have:** #6 (remove sleeps), #8 (IPv6 support), #9-11 (robustness improvements)

82
trace/cli.py
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@@ -66,50 +66,54 @@ def quick_add_note(content: str):
storage.save_data()
def export_markdown(output_file: str = "export.md"):
storage = Storage()
try:
storage = Storage()
with open(output_file, "w") as f:
f.write("# Forensic Notes Export\n\n")
f.write(f"Generated on: {time.ctime()}\n\n")
with open(output_file, "w") as f:
f.write("# Forensic Notes Export\n\n")
f.write(f"Generated on: {time.ctime()}\n\n")
for case in storage.cases:
f.write(f"## Case: {case.case_number}\n")
if case.name:
f.write(f"**Name:** {case.name}\n")
if case.investigator:
f.write(f"**Investigator:** {case.investigator}\n")
f.write(f"**Case ID:** {case.case_id}\n\n")
for case in storage.cases:
f.write(f"## Case: {case.case_number}\n")
if case.name:
f.write(f"**Name:** {case.name}\n")
if case.investigator:
f.write(f"**Investigator:** {case.investigator}\n")
f.write(f"**Case ID:** {case.case_id}\n\n")
f.write("### Case Notes\n")
if not case.notes:
f.write("_No notes._\n")
for note in case.notes:
write_note(f, note)
f.write("\n### Evidence\n")
if not case.evidence:
f.write("_No evidence._\n")
for ev in case.evidence:
f.write(f"#### Evidence: {ev.name}\n")
if ev.description:
f.write(f"_{ev.description}_\n")
f.write(f"**ID:** {ev.evidence_id}\n")
# Include source hash if available
source_hash = ev.metadata.get("source_hash")
if source_hash:
f.write(f"**Source Hash:** `{source_hash}`\n")
f.write("\n")
f.write("##### Evidence Notes\n")
if not ev.notes:
f.write("### Case Notes\n")
if not case.notes:
f.write("_No notes._\n")
for note in ev.notes:
for note in case.notes:
write_note(f, note)
f.write("\n")
f.write("---\n\n")
print(f"Exported to {output_file}")
f.write("\n### Evidence\n")
if not case.evidence:
f.write("_No evidence._\n")
for ev in case.evidence:
f.write(f"#### Evidence: {ev.name}\n")
if ev.description:
f.write(f"_{ev.description}_\n")
f.write(f"**ID:** {ev.evidence_id}\n")
# Include source hash if available
source_hash = ev.metadata.get("source_hash")
if source_hash:
f.write(f"**Source Hash:** `{source_hash}`\n")
f.write("\n")
f.write("##### Evidence Notes\n")
if not ev.notes:
f.write("_No notes._\n")
for note in ev.notes:
write_note(f, note)
f.write("\n")
f.write("---\n\n")
print(f"Exported to {output_file}")
except (IOError, OSError, PermissionError) as e:
print(f"Error: Failed to export to {output_file}: {e}")
sys.exit(1)
def write_note(f, note: Note):
f.write(f"- **{time.ctime(note.timestamp)}**\n")

12
trace/crypto.py
View File

@@ -15,7 +15,7 @@ class Crypto:
stderr=subprocess.PIPE,
text=True
)
stdout, stderr = proc.communicate()
stdout, stderr = proc.communicate(timeout=10)
if proc.returncode != 0:
return []
@@ -41,8 +41,8 @@ class Crypto:
return keys
except FileNotFoundError:
return [] # GPG not installed
except (FileNotFoundError, subprocess.TimeoutExpired):
return [] # GPG not installed or timed out
@staticmethod
def sign_content(content: str, key_id: str = None) -> str:
@@ -71,7 +71,7 @@ class Crypto:
stderr=subprocess.PIPE,
text=True
)
stdout, stderr = proc.communicate(input=content)
stdout, stderr = proc.communicate(input=content, timeout=10)
if proc.returncode != 0:
# Fallback: maybe no key is found or gpg error
@@ -79,8 +79,8 @@ class Crypto:
return ""
return stdout
except FileNotFoundError:
return "" # GPG not installed
except (FileNotFoundError, subprocess.TimeoutExpired):
return "" # GPG not installed or timed out
@staticmethod
def hash_content(content: str, timestamp: float) -> str:

85
trace/models.py
View File

@@ -35,19 +35,26 @@ class Note:
self.iocs = []
# IPv4 addresses
ipv4_pattern = r'\b(?:[0-9]{1,3}\.){3}[0-9]{1,3}\b'
ipv4_pattern = r'\b(?:(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\.){3}(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\b'
for match in re.findall(ipv4_pattern, self.content):
if match not in seen:
seen.add(match)
self.iocs.append(match)
# IPv6 addresses (simplified)
ipv6_pattern = r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b'
# IPv6 addresses (supports compressed format)
ipv6_pattern = r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b|\b(?:[0-9a-fA-F]{1,4}:)*::(?:[0-9a-fA-F]{1,4}:)*[0-9a-fA-F]{0,4}\b'
for match in re.findall(ipv6_pattern, self.content):
if match not in seen:
seen.add(match)
self.iocs.append(match)
# URLs (check before domains to prevent double-matching)
url_pattern = r'https?://[^\s]+'
for match in re.findall(url_pattern, self.content):
if match not in seen:
seen.add(match)
self.iocs.append(match)
# Domain names (basic pattern)
domain_pattern = r'\b(?:[a-zA-Z0-9](?:[a-zA-Z0-9-]{0,61}[a-zA-Z0-9])?\.)+[a-zA-Z]{2,}\b'
for match in re.findall(domain_pattern, self.content):
@@ -56,16 +63,9 @@ class Note:
seen.add(match)
self.iocs.append(match)
# URLs
url_pattern = r'https?://[^\s]+'
for match in re.findall(url_pattern, self.content):
if match not in seen:
seen.add(match)
self.iocs.append(match)
# MD5 hashes (32 hex chars)
md5_pattern = r'\b[a-fA-F0-9]{32}\b'
for match in re.findall(md5_pattern, self.content):
# SHA256 hashes (64 hex chars) - check longest first
sha256_pattern = r'\b[a-fA-F0-9]{64}\b'
for match in re.findall(sha256_pattern, self.content):
if match not in seen:
seen.add(match)
self.iocs.append(match)
@@ -77,9 +77,9 @@ class Note:
seen.add(match)
self.iocs.append(match)
# SHA256 hashes (64 hex chars)
sha256_pattern = r'\b[a-fA-F0-9]{64}\b'
for match in re.findall(sha256_pattern, self.content):
# MD5 hashes (32 hex chars)
md5_pattern = r'\b[a-fA-F0-9]{32}\b'
for match in re.findall(md5_pattern, self.content):
if match not in seen:
seen.add(match)
self.iocs.append(match)
@@ -103,14 +103,14 @@ class Note:
seen = set()
# IPv4 addresses
ipv4_pattern = r'\b(?:[0-9]{1,3}\.){3}[0-9]{1,3}\b'
ipv4_pattern = r'\b(?:(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\.){3}(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\b'
for match in re.findall(ipv4_pattern, text):
if match not in seen:
seen.add(match)
iocs.append((match, 'ipv4'))
# IPv6 addresses (simplified)
ipv6_pattern = r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b'
# IPv6 addresses (supports compressed format)
ipv6_pattern = r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b|\b(?:[0-9a-fA-F]{1,4}:)*::(?:[0-9a-fA-F]{1,4}:)*[0-9a-fA-F]{0,4}\b'
for match in re.findall(ipv6_pattern, text):
if match not in seen:
seen.add(match)
@@ -166,39 +166,56 @@ class Note:
"""Extract IOCs with their positions for highlighting. Returns list of (text, start, end, type) tuples"""
import re
highlights = []
covered_ranges = set()
def overlaps(start, end):
"""Check if range overlaps with any covered range"""
for covered_start, covered_end in covered_ranges:
if not (end <= covered_start or start >= covered_end):
return True
return False
def add_highlight(match, ioc_type):
"""Add highlight if it doesn't overlap with existing ones"""
start, end = match.start(), match.end()
if not overlaps(start, end):
highlights.append((match.group(), start, end, ioc_type))
covered_ranges.add((start, end))
# IPv4 addresses
for match in re.finditer(r'\b(?:[0-9]{1,3}\.){3}[0-9]{1,3}\b', text):
highlights.append((match.group(), match.start(), match.end(), 'ipv4'))
ipv4_pattern = r'\b(?:(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\.){3}(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\b'
for match in re.finditer(ipv4_pattern, text):
add_highlight(match, 'ipv4')
# IPv6 addresses
for match in re.finditer(r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b', text):
highlights.append((match.group(), match.start(), match.end(), 'ipv6'))
# IPv6 addresses (supports compressed format)
ipv6_pattern = r'\b(?:[0-9a-fA-F]{1,4}:){7}[0-9a-fA-F]{1,4}\b|\b(?:[0-9a-fA-F]{1,4}:)*::(?:[0-9a-fA-F]{1,4}:)*[0-9a-fA-F]{0,4}\b'
for match in re.finditer(ipv6_pattern, text):
add_highlight(match, 'ipv6')
# URLs (check before domains)
# URLs (check before domains to prevent double-matching)
for match in re.finditer(r'https?://[^\s]+', text):
highlights.append((match.group(), match.start(), match.end(), 'url'))
add_highlight(match, 'url')
# Domain names
for match in re.finditer(r'\b(?:[a-zA-Z0-9](?:[a-zA-Z0-9-]{0,61}[a-zA-Z0-9])?\.)+[a-zA-Z]{2,}\b', text):
if not match.group().startswith('example.'):
highlights.append((match.group(), match.start(), match.end(), 'domain'))
add_highlight(match, 'domain')
# SHA256 hashes
# SHA256 hashes (64 hex chars) - check longest first
for match in re.finditer(r'\b[a-fA-F0-9]{64}\b', text):
highlights.append((match.group(), match.start(), match.end(), 'sha256'))
add_highlight(match, 'sha256')
# SHA1 hashes
# SHA1 hashes (40 hex chars)
for match in re.finditer(r'\b[a-fA-F0-9]{40}\b', text):
highlights.append((match.group(), match.start(), match.end(), 'sha1'))
add_highlight(match, 'sha1')
# MD5 hashes
# MD5 hashes (32 hex chars)
for match in re.finditer(r'\b[a-fA-F0-9]{32}\b', text):
highlights.append((match.group(), match.start(), match.end(), 'md5'))
add_highlight(match, 'md5')
# Email addresses
for match in re.finditer(r'\b[A-Za-z0-9._%+-]+@[A-Za-z0-9.-]+\.[A-Z|a-z]{2,}\b', text):
highlights.append((match.group(), match.start(), match.end(), 'email'))
add_highlight(match, 'email')
return highlights

29
trace/storage.py
View File

@@ -43,9 +43,6 @@ Key objectives:
case_note1.extract_iocs()
demo_case.notes.append(case_note1)
# Wait a moment for different timestamp
time.sleep(0.1)
case_note2 = Note(content="""Investigation lead: Employee reported suspicious email from sender@phishing-domain.com
Initial analysis shows potential credential harvesting attempt.
Review email headers and attachments for IOCs. #phishing #email-analysis""")
@@ -54,8 +51,6 @@ Review email headers and attachments for IOCs. #phishing #email-analysis""")
case_note2.extract_iocs()
demo_case.notes.append(case_note2)
time.sleep(0.1)
# Create evidence 1: Compromised laptop
evidence1 = Evidence(
name="Employee Laptop HDD",
@@ -74,8 +69,6 @@ Chain of custody maintained throughout process. #forensics #imaging #chain-of-cu
note1.extract_iocs()
evidence1.notes.append(note1)
time.sleep(0.1)
note2 = Note(content="""Discovered suspicious connections to external IP addresses:
- 192.168.1.100 (local gateway)
- 203.0.113.45 (external, geolocation: Unknown)
@@ -88,8 +81,6 @@ Browser history shows visits to malicious-site.com and data-exfil.net.
note2.extract_iocs()
evidence1.notes.append(note2)
time.sleep(0.1)
note3 = Note(content="""Malware identified in temp directory:
File: evil.exe
MD5: d41d8cd98f00b204e9800998ecf8427e
@@ -102,8 +93,6 @@ Submitting to VirusTotal for analysis. #malware #hash-analysis #virustotal""")
note3.extract_iocs()
evidence1.notes.append(note3)
time.sleep(0.1)
note4 = Note(content="""Timeline analysis reveals:
- 2024-01-15 09:23:45 - Suspicious email received
- 2024-01-15 09:24:12 - User clicked phishing link https://evil-domain.com/login
@@ -118,8 +107,6 @@ User credentials compromised. Recommend immediate password reset. #timeline #lat
demo_case.evidence.append(evidence1)
time.sleep(0.1)
# Create evidence 2: Network logs
evidence2 = Evidence(
name="Firewall Logs",
@@ -139,8 +126,6 @@ Total data transferred: approximately 2.3 GB over 4 hours.
note5.extract_iocs()
evidence2.notes.append(note5)
time.sleep(0.1)
note6 = Note(content="""Contact information found in malware configuration:
Email: attacker@malicious-domain.com
Backup C2: 2001:0db8:85a3:0000:0000:8a2e:0370:7334 (IPv6)
@@ -153,8 +138,6 @@ Cross-referencing with threat intelligence databases. #threat-intel #attribution
demo_case.evidence.append(evidence2)
time.sleep(0.1)
# Create evidence 3: Email forensics
evidence3 = Evidence(
name="Phishing Email",
@@ -240,8 +223,11 @@ class StateManager:
state = self.get_active()
state["case_id"] = case_id
state["evidence_id"] = evidence_id
with open(self.state_file, 'w') as f:
# Atomic write: write to temp file then rename
temp_file = self.state_file.with_suffix(".tmp")
with open(temp_file, 'w') as f:
json.dump(state, f)
temp_file.replace(self.state_file)
def get_active(self) -> dict:
if not self.state_file.exists():
@@ -250,7 +236,7 @@ class StateManager:
with open(self.state_file, 'r') as f:
return json.load(f)
except (json.JSONDecodeError, IOError):
return {"case_id": None, "evidence_id": None}
return {"case_id": None, "evidence_id": None}
def get_settings(self) -> dict:
if not self.settings_file.exists():
@@ -264,5 +250,8 @@ class StateManager:
def set_setting(self, key: str, value):
settings = self.get_settings()
settings[key] = value
with open(self.settings_file, 'w') as f:
# Atomic write: write to temp file then rename
temp_file = self.settings_file.with_suffix(".tmp")
with open(temp_file, 'w') as f:
json.dump(settings, f)
temp_file.replace(self.settings_file)

11
trace/tui.py
View File

@@ -144,17 +144,18 @@ class TUI:
def _classify_ioc(self, ioc):
"""Classify IOC type based on pattern"""
import re
if re.match(r'^[a-fA-F0-9]{32}$', ioc):
return 'MD5'
# Check longest hashes first to avoid misclassification
if re.match(r'^[a-fA-F0-9]{64}$', ioc):
return 'SHA256'
elif re.match(r'^[a-fA-F0-9]{40}$', ioc):
return 'SHA1'
elif re.match(r'^[a-fA-F0-9]{64}$', ioc):
return 'SHA256'
elif re.match(r'^[a-fA-F0-9]{32}$', ioc):
return 'MD5'
elif re.match(r'^https?://', ioc):
return 'URL'
elif '@' in ioc:
return 'EMAIL'
elif re.match(r'^(?:[0-9]{1,3}\.){3}[0-9]{1,3}$', ioc):
elif re.match(r'^(?:(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)\.){3}(?:25[0-5]|2[0-4][0-9]|[01]?[0-9][0-9]?)$', ioc):
return 'IPv4'
elif ':' in ioc and any(c in '0123456789abcdefABCDEF' for c in ioc):
return 'IPv6'