feat(cli): add uninstall impact analysis engine with dry-run support #585
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Caution Review failedThe pull request is closed. 📝 WalkthroughWalkthroughAdds a full Uninstall Impact Analysis feature and CLI integration: a new analysis engine (dependency graph, service mapping, recommendation engine, removal planning), a CortexCLI Changes
Sequence Diagram(s)sequenceDiagram
actor User
participant CLI as CortexCLI
participant Analyzer as UninstallImpactAnalyzer
participant Graph as DependencyGraphBuilder
participant Services as ServiceImpactMapper
participant Recommender as RecommendationEngine
participant System as System (dpkg/apt/systemd)
User->>CLI: run "cortex remove <pkg> [--json|--execute|--yes]"
CLI->>Analyzer: analyze(<pkg>)
Analyzer->>Graph: load packages & compute transitive dependents
Graph-->>Analyzer: package graph / dependents
Analyzer->>Services: detect services affected
Services-->>Analyzer: service list & statuses
Analyzer->>Recommender: generate recommendations & removal plan
Recommender-->>Analyzer: recommendations / safe order
Analyzer-->>CLI: ImpactResult (severity, plan, services)
CLI->>User: render JSON or rich report
alt user requests execute
CLI->>User: confirm removal (unless --yes)
User->>CLI: confirm
CLI->>System: run apt-get remove/purge + autoremove
System-->>CLI: success / failure
CLI->>Analyzer: record audit (InstallationHistory)
CLI->>User: final status
else dry-run
CLI->>User: dry-run report only
end
Estimated code review effort🎯 4 (Complex) | ⏱️ ~45 minutes Possibly related PRs
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Summary of ChangesHello @RIVALHIDE, I'm Gemini Code Assist1! I'm currently reviewing this pull request and will post my feedback shortly. In the meantime, here's a summary to help you and other reviewers quickly get up to speed! This pull request significantly enhances the Highlights
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Code Review
This pull request introduces a significant and well-designed feature: an uninstall impact analysis engine. The implementation is comprehensive, covering dependency graphing, service impact mapping, and a recommendation engine. The CLI integration is clean and provides useful output formats, including a rich text report and JSON for scripting. The addition of a comprehensive test suite is also commendable.
My review includes a few suggestions for improvement:
- A high-priority fix for an incorrect logic in identifying orphaned packages.
- A refactoring of the command-line argument parsing to improve clarity and maintainability.
- Removal of dead code.
- A suggestion to refactor duplicated code for better adherence to the DRY principle.
Overall, this is a strong contribution that significantly enhances the functionality of the Cortex CLI.
I am having trouble creating individual review comments. Click here to see my feedback.
cortex/uninstall_impact.py (759-772)
The current implementation of _get_orphaned_packages is incorrect. It runs apt-get -s autoremove, which shows packages that are currently orphaned on the system, not packages that would become orphaned after removing the target package.
To get the correct list, you should simulate the removal of the target package and parse the output for packages that are "no longer required". The apt-get -s remove <package> command provides this information directly.
def _get_orphaned_packages(self, package_name: str) -> list[str]:
"""Get packages that would become orphaned after removal"""
orphaned = []
# Simulate removal of the target package to find packages that are no longer required.
success, stdout, _ = self.graph._run_command(["apt-get", "-s", "remove", package_name])
if success:
# This regex captures packages listed after "The following packages were automatically installed and are no longer required:"
match = re.search(
r"The following packages were automatically installed and are no longer required:\n(.*?)\nUse 'sudo apt autoremove'",
stdout,
re.DOTALL,
)
if match:
package_list = match.group(1).strip()
# The list of packages can be multi-line and space-separated
orphaned.extend(pkg for pkg in package_list.split() if pkg)
return orphanedcortex/cli.py (1921-1931)
The argument handling for --dry-run and --execute is a bit confusing. The use of action="store_true" with default=True for --dry-run makes its value always True initially, and it relies on mutation in main() based on the --execute flag. This can be hard to follow.
A cleaner approach would be to use a mutually exclusive group to ensure only one of --dry-run or --execute can be used, and to make the default behavior (a dry run) more explicit. This also allows removing the special handling logic from main().
Consider refactoring the argument parsing like this. You would also need to update CortexCLI.remove to use dry_run = not args.execute and remove the special handling from main() as described below:
# In main() - remove this block
# if args.execute:
# args.dry_run = False
# In CortexCLI.remove()
def remove(self, args: argparse.Namespace) -> int:
...
# If --execute is not passed, it's a dry run.
dry_run = not args.execute
... execution_group = remove_parser.add_mutually_exclusive_group()
execution_group.add_argument(
"--dry-run",
action="store_true",
help="Show impact analysis without removing (this is the default behavior)",
)
execution_group.add_argument(
"--execute",
action="store_true",
help="Actually remove the package after analysis",
)
cortex/uninstall_impact.py (615-637)
This method get_safe_removal_order appears to be unused within the codebase. If it's not intended for current functionality, it should be removed to avoid dead code. If it's for future use, consider making it a private method (e.g., _get_safe_removal_order) to indicate it's not part of the public API yet.
cortex/uninstall_impact.py (997-1024)
The logic to convert an ImpactResult object to a JSON-serializable dictionary is duplicated here and in cortex/cli.py (lines 842-863). This can lead to inconsistencies if one location is updated and the other is not.
To follow the Don't Repeat Yourself (DRY) principle, you should refactor this logic into a method on the ImpactResult dataclass. For example:
# In cortex/uninstall_impact.py
@dataclass
class ImpactResult:
# ... existing fields ...
def to_dict(self) -> dict:
"""Converts the ImpactResult to a JSON-serializable dictionary."""
return {
"target_package": self.target_package,
"direct_dependents": self.direct_dependents,
"transitive_dependents": self.transitive_dependents,
"affected_services": [
{
"name": s.name,
"status": s.status.value,
"package": s.package,
"is_critical": s.is_critical,
}
for s in self.affected_services
],
"orphaned_packages": self.orphaned_packages,
"cascade_packages": self.cascade_packages,
"severity": self.severity.value,
"total_affected": self.total_affected,
"cascade_depth": self.cascade_depth,
"recommendations": self.recommendations,
"warnings": self.warnings,
"safe_to_remove": self.safe_to_remove,
}
# Then, in this file:
if args.json:
import json
print(json.dumps(result.to_dict(), indent=2))
# And in cortex/cli.py:
if json_output:
import json as json_module
console.print(json_module.dumps(result.to_dict(), indent=2))Additionally, the import from dataclasses import asdict on line 999 is unused and can be removed.
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Actionable comments posted: 3
🤖 Fix all issues with AI agents
In @cortex/cli.py:
- Around line 988-991: Add a type annotation to the _display_impact_report
method's result parameter by importing ImpactResult from cortex.uninstall_impact
and changing the signature to accept result: ImpactResult (e.g., def
_display_impact_report(self, result: ImpactResult) -> None:), ensuring the new
import is added near the other imports in the module.
In @cortex/uninstall_impact.py:
- Around line 759-772: _get_orphaned_packages currently only runs apt-get -s
autoremove which reports the current autoremove candidates, not what would
become orphaned after removing package_name; to fix it, first simulate removing
the target by running self.graph._run_command(["apt-get","-s","remove",
package_name]) and if that succeeds run the autoremove simulation next (e.g.
self.graph._run_command(["apt-get","-s","autoremove","--purge"])) and parse
"Remv " lines from the second command’s stdout (or, if simulation of cascading
changes is insufficient for your environment, update the docstring to state it
only returns current orphans); reference _get_orphaned_packages and the two
_run_command calls.
🧹 Nitpick comments (7)
tests/test_uninstall_impact.py (1)
117-127: Test doesn't actually verify severity ordering.The test name suggests it should verify severity comparison, but it only checks the list length. If ordering is needed (e.g.,
ImpactSeverity.LOW < ImpactSeverity.HIGH), consider usingIntEnumor implementing__lt__. Otherwise, rename or remove this test.def test_severity_ordering(self): - """Test that severity levels can be compared conceptually""" + """Test that all severity levels are defined""" severities = [ ImpactSeverity.SAFE, ImpactSeverity.LOW, ImpactSeverity.MEDIUM, ImpactSeverity.HIGH, ImpactSeverity.CRITICAL, ] self.assertEqual(len(severities), 5) + # Verify all expected values exist + expected_values = {"safe", "low", "medium", "high", "critical"} + self.assertEqual({s.value for s in severities}, expected_values)cortex/cli.py (1)
1093-1136: Consider making autoremove optional or adding confirmation.The autoremove runs automatically after package removal without explicit user consent. While this is convenient, some users may want to review orphaned packages before removal.
💡 Suggested improvement
if result.returncode == 0: self._print_success(f"'{package}' removed successfully") - # Offer autoremove - console.print() - cx_print("Running autoremove to clean up orphaned packages...", "info") - autoremove_result = subprocess.run( - ["sudo", "apt-get", "autoremove", "-y"], - capture_output=True, - text=True, - timeout=300, - ) + # Suggest autoremove instead of running automatically + cx_print( + "Run 'sudo apt autoremove' to clean up orphaned packages.", + "info" + ) - if autoremove_result.returncode == 0: - cx_print("Cleanup complete", "success") - else: - cx_print("Autoremove completed with warnings", "warning") - return 0Alternatively, consider adding an
--autoremoveflag to let users opt-in to automatic cleanup.cortex/uninstall_impact.py (5)
1-29: Good module structure with comprehensive docstring.The module-level docstring clearly explains the purpose and components. Imports are well-organized. However,
logging.basicConfigat module level may interfere with application-level logging configuration.💡 Consider lazy logging configuration
-logging.basicConfig(level=logging.INFO) -logger = logging.getLogger(__name__) +logger = logging.getLogger(__name__) +# Let the application configure logging; don't call basicConfig at module level
198-211: Cache file created without explicit permissions.The cache file at
~/.cortex/dep_graph_cache.jsonis created without setting restrictive permissions. While this file contains package metadata (not secrets), it's good practice to set appropriate permissions.🔒 Suggested improvement
def _save_cache(self) -> None: """Save dependency graph to cache file""" try: self.CACHE_FILE.parent.mkdir(parents=True, exist_ok=True) + # Set restrictive permissions on cache directory + self.CACHE_FILE.parent.chmod(0o700) data = { "installed": list(self._installed_packages), "essential": list(self._essential_packages), "manual": list(self._manual_packages), "timestamp": time.time(), } - with open(self.CACHE_FILE, "w") as f: + # Write with restrictive permissions + import tempfile + fd, tmp_path = tempfile.mkstemp(dir=self.CACHE_FILE.parent) + try: + with os.fdopen(fd, 'w') as f: + json.dump(data, f) + os.chmod(tmp_path, 0o600) + os.rename(tmp_path, self.CACHE_FILE) + except: + os.unlink(tmp_path) + raise - json.dump(data, f) except OSError as e: logger.debug(f"Cache save failed: {e}")
137-147: Broad exception catch may mask unexpected errors.The catch-all
Exceptionat line 146 could hide unexpected issues. Consider logging the exception type for debugging:except Exception as e: - return (False, "", str(e)) + logger.debug(f"Unexpected error in _run_command: {type(e).__name__}: {e}") + return (False, "", str(e))
408-414: Consider separating exception handling for clarity.The tuple catch
(subprocess.TimeoutExpired, FileNotFoundError, Exception)works but is less clear than separate handlers. The broadExceptioncatch at the end makes the specific catches redundant.def _run_command(self, cmd: list[str], timeout: int = 10) -> tuple[bool, str, str]: """Execute command and return (success, stdout, stderr)""" try: result = subprocess.run(cmd, capture_output=True, text=True, timeout=timeout) return (result.returncode == 0, result.stdout, result.stderr) - except (subprocess.TimeoutExpired, FileNotFoundError, Exception) as e: + except subprocess.TimeoutExpired: + return (False, "", "Command timed out") + except FileNotFoundError: + return (False, "", f"Command not found: {cmd[0]}") + except Exception as e: + logger.debug(f"Command failed: {type(e).__name__}: {e}") return (False, "", str(e))
998-999: Unused import:asdict.The
asdictimport from dataclasses is not used; the code constructs the dict manually to handle enum serialization.if args.json: import json - from dataclasses import asdict # Convert to dict (handle enums) data = {
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**/*.py
📄 CodeRabbit inference engine (AGENTS.md)
**/*.py: Follow PEP 8 style guide for Python code
Include type hints in Python code
Add docstrings for all public APIs in Python code
Use dry-run mode by default for all installation operations
Do not use silent sudo - require explicit user confirmation for privilege escalation
Implement Firejail sandboxing for execution of untrusted code
Log all operations to ~/.cortex/history.db for audit purposes
Files:
cortex/cli.pytests/test_uninstall_impact.pycortex/uninstall_impact.py
tests/**/*.py
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Files:
tests/test_uninstall_impact.py
🔇 Additional comments (13)
tests/test_uninstall_impact.py (3)
1-30: LGTM! Comprehensive test suite with proper mocking.The test module provides good coverage of the uninstall impact analysis components. The imports are well-organized and the test structure follows unittest conventions properly.
647-693: Good integration test approach with mocked system calls.The integration test properly isolates from real system commands while testing the complete analysis flow. The helper method
_mock_graph_commandsprovides realistic mock responses for different apt/dpkg commands.
695-696: Test suite meets coverage guidelines.The test suite provides comprehensive coverage for the uninstall impact analysis engine. Based on coding guidelines requiring >80% coverage for tests, this suite appears to meet that threshold with 52 tests covering data models, core components, and integration flows.
cortex/cli.py (4)
27-27: LGTM! Import for uninstall impact analysis components.The import correctly brings in the necessary components from the new
uninstall_impactmodule.
2404-2443: LGTM! Argument parser follows dry-run by default guideline.The remove command parser correctly implements:
--dry-runas default (line 2413-2415)--executeto explicitly perform removal-y/--yesfor non-interactive use--jsonfor scripting integrationThis aligns with coding guidelines requiring dry-run mode by default for installation operations.
2811-2815: LGTM! Correct handling of --execute flag override.The logic properly overrides
dry_runtoFalsewhen--executeis specified, ensuring the mutual exclusivity between dry-run and execute modes works as expected.
2289-2289: LGTM! Help table updated with remove command.cortex/uninstall_impact.py (6)
31-48: LGTM! Well-defined enums with clear semantics.Both enums use descriptive string values that will serialize well to JSON for scripting output.
50-110: LGTM! Well-structured dataclasses with proper defaults.The dataclasses correctly use
field(default_factory=list)for mutable defaults, avoiding the common Python pitfall. Type hints are comprehensive.
347-403: Good service mapping with critical service identification.The
PACKAGE_SERVICE_MAPprovides comprehensive coverage for common packages, andCRITICAL_SERVICESproperly identifies services that warrant high severity warnings (SSH, Docker, databases, web servers).
526-598: Well-designed recommendation engine with context-aware suggestions.The recommendations cover:
- Critical/High impact warnings
- Running service warnings with specific names
- Critical service warnings with alternative access advice
- Dependent package removal suggestions
- Orphaned package cleanup hints
- Safe removal confirmation
- Alternative package suggestions
Good UX design for helping users make informed decisions.
869-966: LGTM! Clean facade pattern with well-documented public API.
UninstallImpactAnalyzerprovides a simple interface for CLI usage while hiding implementation complexity. Theformat_impact_reportmethod produces consistent, readable output. All public methods have docstrings as required by coding guidelines.
665-738: Core analysis method is well-implemented.The
analyzemethod provides comprehensive impact analysis:
- Checks package existence and installation status
- Identifies essential packages
- Resolves direct and transitive dependents
- Detects cascade and orphaned packages
- Maps affected services
- Calculates severity based on multiple factors
- Generates contextual recommendations
The logic flow is clear and handles edge cases (non-installed packages, non-existent packages) appropriately.
| def _get_orphaned_packages(self, package_name: str) -> list[str]: | ||
| """Get packages that would become orphaned after removal""" | ||
| orphaned = [] | ||
|
|
||
| # Simulate removal and check for autoremove candidates | ||
| success, stdout, _ = self.graph._run_command(["apt-get", "-s", "autoremove", "--purge"]) | ||
|
|
||
| if success: | ||
| for line in stdout.split("\n"): | ||
| if line.startswith("Remv "): | ||
| pkg = line.split()[1] | ||
| orphaned.append(pkg) | ||
|
|
||
| return orphaned |
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Orphaned packages detection may be inaccurate.
The _get_orphaned_packages method runs apt-get -s autoremove --purge which shows current autoremove candidates, not packages that would become orphaned after removing the target package. This could be misleading.
🐛 Suggested fix
def _get_orphaned_packages(self, package_name: str) -> list[str]:
"""Get packages that would become orphaned after removal"""
orphaned = []
- # Simulate removal and check for autoremove candidates
- success, stdout, _ = self.graph._run_command(["apt-get", "-s", "autoremove", "--purge"])
+ # Get current autoremove candidates
+ success_before, stdout_before, _ = self.graph._run_command(
+ ["apt-get", "-s", "autoremove"]
+ )
+ current_orphans = set()
+ if success_before:
+ for line in stdout_before.split("\n"):
+ if line.startswith("Remv "):
+ current_orphans.add(line.split()[1])
+
+ # Simulate removal and check for new autoremove candidates
+ success, stdout, _ = self.graph._run_command(
+ ["apt-get", "-s", "remove", package_name]
+ )
+ # Then check what autoremove would do after that removal
+ # Note: This is an approximation since we can't chain simulations
if success:
for line in stdout.split("\n"):
if line.startswith("Remv "):
pkg = line.split()[1]
- orphaned.append(pkg)
+ if pkg not in current_orphans and pkg != package_name:
+ orphaned.append(pkg)
return orphanedAlternatively, document that this shows current orphans, not new ones.
🤖 Prompt for AI Agents
In @cortex/uninstall_impact.py around lines 759 - 772, _get_orphaned_packages
currently only runs apt-get -s autoremove which reports the current autoremove
candidates, not what would become orphaned after removing package_name; to fix
it, first simulate removing the target by running
self.graph._run_command(["apt-get","-s","remove", package_name]) and if that
succeeds run the autoremove simulation next (e.g.
self.graph._run_command(["apt-get","-s","autoremove","--purge"])) and parse
"Remv " lines from the second command’s stdout (or, if simulation of cascading
changes is insufficient for your environment, update the docstring to state it
only returns current orphans); reference _get_orphaned_packages and the two
_run_command calls.
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Seems like the humans are having a chat. I'll hop back into my burrow for now. If you need me again, just tag @coderabbitai in a new comment, and I'll come hopping out!
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Actionable comments posted: 2
🤖 Fix all issues with AI agents
In @cortex/uninstall_impact.py:
- Around line 584-591: The recommendation logic is inverted: when
impact.safe_to_remove is False you should suggest the safer, non-destructive
removal, and when True suggest the normal or purge option as appropriate; update
the branch in the block that checks impact.safe_to_remove so that
impact.safe_to_remove == True appends the more aggressive or normal remove
message (e.g., "Use 'cortex remove <package>'" or include mention of --purge if
desired) and impact.safe_to_remove == False appends the conservative
recommendation (e.g., suggest reviewing backups/configs or using the non-purge
remove), by swapping the two strings passed to recommendations.append or by
flipping the condition so the messages align with impact.safe_to_remove.
- Around line 821-830: The uninstall commands currently use silent sudo with the
-y flag (in the block that assigns plan.commands when purge is True/False),
which violates the guideline; update the two command lists built for
plan.commands (both the purge branch and the remove branch) to remove the -y
flag from the sudo apt-get calls (and from sudo apt-get autoremove if present)
so the system will prompt for confirmation when executing operations on
package_name; keep the rest of the strings and use the same variables (purge,
plan.commands, package_name) so only the -y tokens are removed.
🧹 Nitpick comments (3)
cortex/uninstall_impact.py (3)
27-28: Avoid module-levellogging.basicConfig()to prevent logging conflicts.Calling
basicConfig()at module import time can override the application's logging configuration. The CLI (cortex/cli.py) or main entry point should own logging setup.Suggested fix
-logging.basicConfig(level=logging.INFO) logger = logging.getLogger(__name__)
198-211: Cache write lacks atomicity—concurrent processes may corrupt the file.Multiple
cortexinvocations writing simultaneously could produce invalid JSON. Consider writing to a temp file and atomically renaming.Atomic write pattern
def _save_cache(self) -> None: """Save dependency graph to cache file""" try: self.CACHE_FILE.parent.mkdir(parents=True, exist_ok=True) data = { "installed": list(self._installed_packages), "essential": list(self._essential_packages), "manual": list(self._manual_packages), "timestamp": time.time(), } - with open(self.CACHE_FILE, "w") as f: - json.dump(data, f) + import tempfile + fd, tmp_path = tempfile.mkstemp(dir=self.CACHE_FILE.parent) + try: + with os.fdopen(fd, "w") as f: + json.dump(data, f) + os.replace(tmp_path, self.CACHE_FILE) + except Exception: + os.unlink(tmp_path) + raise except OSError as e: logger.debug(f"Cache save failed: {e}")
740-743: Avoid accessing private method_run_commandfrom another class.Calling
self.graph._run_command()breaks encapsulation. Consider making a shared utility or adding a public method toDependencyGraphBuilder.
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**/*.py: Follow PEP 8 style guide for Python code
Include type hints in Python code
Add docstrings for all public APIs in Python code
Use dry-run mode by default for all installation operations
Do not use silent sudo - require explicit user confirmation for privilege escalation
Implement Firejail sandboxing for execution of untrusted code
Log all operations to ~/.cortex/history.db for audit purposes
Files:
cortex/uninstall_impact.py
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🔇 Additional comments (7)
cortex/uninstall_impact.py (7)
31-48: LGTM!Enum definitions are clean with appropriate docstrings and string values for easy serialization.
307-332: LGTM!Clean BFS implementation for transitive dependency traversal with appropriate depth limiting to prevent runaway on complex graphs.
347-403: LGTM!Comprehensive service mapping with reasonable critical services classification. The predefined mappings cover common server packages well.
886-965: LGTM!The
format_impact_reportmethod provides comprehensive, well-formatted output with severity icons, structured sections, and clear visual hierarchy.
875-884: Missing audit logging and return type hints on public methods.Per coding guidelines, operations should be logged to
~/.cortex/history.dbfor audit purposes. Also, public methods should include return type hints.Suggested additions
+ def _log_operation(self, operation: str, package: str, details: dict) -> None: + """Log operation to audit history database""" + import sqlite3 + db_path = Path.home() / ".cortex" / "history.db" + db_path.parent.mkdir(parents=True, exist_ok=True) + with sqlite3.connect(db_path) as conn: + conn.execute( + "CREATE TABLE IF NOT EXISTS audit_log " + "(timestamp TEXT, operation TEXT, package TEXT, details TEXT)" + ) + conn.execute( + "INSERT INTO audit_log VALUES (datetime('now'), ?, ?, ?)", + (operation, package, json.dumps(details)) + ) + - def analyze(self, package_name: str) -> ImpactResult: + def analyze(self, package_name: str) -> ImpactResult: """Analyze the impact of removing a package""" - return self._analyzer.analyze(package_name) + result = self._analyzer.analyze(package_name) + self._log_operation("analyze", package_name, {"severity": result.severity.value}) + return resultBased on coding guidelines requiring audit logging to
~/.cortex/history.db.Likely an incorrect or invalid review comment.
50-110: Code looks good. Dataclasses are well-structured with proper docstrings, type hints, and appropriate use of modern Python 3.10+ union syntax. All requirements met: PEP 8 compliant, type hints present on all fields, docstrings on all public APIs. Thestr | Nonesyntax is appropriate given the project'srequires-python = ">=3.10"constraint.
968-1028: CLI entry point correctly uses dry-run/analysis mode.The uninstall_impact.py file contains only analysis and formatting logic—no command execution. Per the coding guidelines, Firejail sandboxing applies to untrusted code execution, which this file does not perform. The subprocess calls here query package metadata only.
The execution path in
cli.py's_execute_removal()method (lines 1093-1126) runs trusted system package management commands (apt-get), which do not require Firejail sandboxing as they are not untrusted code.
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Actionable comments posted: 4
🤖 Fix all issues with AI agents
In @cortex/cli.py:
- Around line 1106-1149: The removal flow in _execute_removal currently never
writes an audit record; add a history entry to ~/.cortex/history.db using the
same InstallationHistory (or equivalent) API used by the install command: after
a successful removal (i.e., when result.returncode == 0) create and persist a
removal record containing the package name, purge boolean, timestamp and success
status (and include autoremove outcome as a subsequent update or separate
record), and on failures/timeouts record a failed removal entry including error/
stderr information; locate _execute_removal and add these InstallationHistory
calls in the success and exception/else branches so every removal attempt is
recorded.
In @cortex/uninstall_impact.py:
- Around line 833-842: The generated removal plan in generate_removal_plan
currently embeds the `-y` flag into plan.commands (e.g., `sudo apt-get purge -y
{package_name}` and `sudo apt-get autoremove -y`); update generate_removal_plan
so plan.commands present interactive commands without `-y` (use `sudo apt-get
purge {package_name}`, `sudo apt-get remove {package_name}` and `sudo apt-get
autoremove`) and ensure that any code that actually executes these commands adds
`-y` only after explicit user confirmation; reference the plan.commands
assignment, package_name and the purge boolean when making the change.
- Around line 596-603: The recommendation for when impact.safe_to_remove is
False is misleading because suggesting "--purge" implies it makes the package
safe to remove; update the else branch where recommendations.append is called to
instead provide a cautionary message explaining the package is unsafe to remove
and instruct the user to inspect impact details or run a safety check (e.g.,
refer to impact.safe_to_remove and any impact.details or impact.risks) before
removing, and optionally offer a command to list affected components or to force
removal only with explicit confirmation rather than implying purge makes it
safe.
- Around line 984-1044: Add audit logging calls to the CLI entry path and
analysis methods so every analyze/plan operation is recorded in
~/.cortex/history.db using InstallationHistory and the appropriate
InstallationType (e.g., InstallationType.ANALYZE or InstallationType.PLAN);
specifically, in the __main__ CLI block wrap calls to
UninstallImpactAnalyzer.analyze and UninstallImpactAnalyzer.get_removal_plan
with InstallationHistory().record(...) (or the project’s record API), include
operation type, target package, flags (json/plan/purge), timestamp, and outcome
(success/failure and any summary fields like total_affected or
packages_to_remove), and ensure exceptions are logged as failures to the same
history DB; update imports to include InstallationHistory and InstallationType
and call them in the analyze/get_removal_plan call sites.
🧹 Nitpick comments (3)
tests/test_uninstall_impact.py (1)
117-126: The severity ordering test doesn't actually verify ordering.The test creates a list and only checks its length. If the intent is to verify that severities can be compared/ordered, consider actually testing the comparison behavior.
💡 Suggested improvement for ordering verification
def test_severity_ordering(self): """Test that severity levels can be compared conceptually""" severities = [ ImpactSeverity.SAFE, ImpactSeverity.LOW, ImpactSeverity.MEDIUM, ImpactSeverity.HIGH, ImpactSeverity.CRITICAL, ] self.assertEqual(len(severities), 5) + # Verify enum values are distinct + self.assertEqual(len(set(s.value for s in severities)), 5)cortex/uninstall_impact.py (1)
190-196: Consider securing cache file permissions.The cache file at
~/.cortex/dep_graph_cache.jsonis created with default permissions. On multi-user systems, this could expose package information. Consider using restrictive permissions.🔒 Suggested fix for cache file permissions
def _save_cache(self) -> None: """Save dependency graph to cache file""" try: self.CACHE_FILE.parent.mkdir(parents=True, exist_ok=True) + # Set restrictive permissions on cache directory + self.CACHE_FILE.parent.chmod(0o700) data = { "installed": list(self._installed_packages), "essential": list(self._essential_packages), "manual": list(self._manual_packages), "timestamp": time.time(), } - with open(self.CACHE_FILE, "w") as f: + # Use os.open with restrictive permissions + import os as os_module + fd = os_module.open(str(self.CACHE_FILE), os_module.O_WRONLY | os_module.O_CREAT | os_module.O_TRUNC, 0o600) + with os_module.fdopen(fd, "w") as f: json.dump(data, f) except OSError as e: logger.debug(f"Cache save failed: {e}")cortex/cli.py (1)
949-978: JSON output implementation is correct but duplicates logic.The JSON serialization logic here duplicates similar code in
cortex/uninstall_impact.py(lines 1018-1039). Consider refactoring to share this serialization logic.The
UninstallImpactAnalyzerclass could expose ato_dict(result: ImpactResult)method that both the CLI and the standalone script could use:# In UninstallImpactAnalyzer class def result_to_dict(self, result: ImpactResult) -> dict: """Convert ImpactResult to JSON-serializable dict.""" return { "target_package": result.target_package, # ... rest of fields }
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**/*.py: Follow PEP 8 style guide for Python code
Include type hints in Python code
Add docstrings for all public APIs in Python code
Use dry-run mode by default for all installation operations
Do not use silent sudo - require explicit user confirmation for privilege escalation
Implement Firejail sandboxing for execution of untrusted code
Log all operations to ~/.cortex/history.db for audit purposes
Files:
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🧠 Learnings (2)
📚 Learning: 2026-01-12T20:51:13.817Z
Learnt from: CR
Repo: cortexlinux/cortex PR: 0
File: AGENTS.md:0-0
Timestamp: 2026-01-12T20:51:13.817Z
Learning: Applies to **/*.py : Log all operations to ~/.cortex/history.db for audit purposes
Applied to files:
cortex/cli.py
📚 Learning: 2026-01-12T20:51:13.817Z
Learnt from: CR
Repo: cortexlinux/cortex PR: 0
File: AGENTS.md:0-0
Timestamp: 2026-01-12T20:51:13.817Z
Learning: Applies to **/*.py : Do not use silent sudo - require explicit user confirmation for privilege escalation
Applied to files:
cortex/uninstall_impact.py
🧬 Code graph analysis (1)
cortex/cli.py (1)
cortex/uninstall_impact.py (5)
ImpactSeverity(34-41)ServiceStatus(44-50)UninstallImpactAnalyzer(881-981)analyze(677-750)analyze(890-892)
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🔇 Additional comments (12)
tests/test_uninstall_impact.py (2)
1-30: LGTM! Comprehensive test suite with appropriate imports and structure.The test file provides good coverage of the Uninstall Impact Analysis Engine components. The imports are organized, and the module docstring clearly documents what's being tested.
647-692: Integration test provides good end-to-end coverage.The mocked integration test validates the complete analysis flow. The
_mock_graph_commandshelper is well-designed to handle various subprocess command patterns.cortex/uninstall_impact.py (4)
1-31: Well-structured module with clear documentation.The module docstring clearly explains the components and their responsibilities. Imports are organized and the logging setup is appropriate.
53-113: Dataclasses are well-designed with proper defaults.Good use of
field(default_factory=list)to avoid mutable default argument issues. Type hints are comprehensive.
359-414: Comprehensive service mapping with appropriate critical service identification.The PACKAGE_SERVICE_MAP and CRITICAL_SERVICES definitions provide good coverage for common packages. The critical services list appropriately includes ssh, docker, and database services.
881-935: Clean facade pattern with comprehensive report formatting.The
UninstallImpactAnalyzerprovides a simple interface for CLI integration. The emoji-based severity indicators and structured report format are user-friendly.cortex/cli.py (6)
27-31: Clean imports and helpful constant for consistent help text.The imports from
cortex.uninstall_impactare appropriate, andHELP_SKIP_CONFIRMprovides consistency across commands.
887-918: Well-structured remove command with dry-run by default.The implementation correctly defaults to dry-run mode (line 890) and requires explicit
--executeto proceed. The flow follows a safe pattern: analyze → display → confirm → execute.
993-1005: Confirmation logic correctly requires explicit consent.The confirmation defaults to "No" (requires explicit 'y' or 'yes'), and gracefully handles non-interactive scenarios (EOFError, KeyboardInterrupt).
1019-1104: Clean display methods with consistent Rich formatting.The display helpers are well-organized with appropriate use of Rich library components (Panel, Table). The color coding for severity levels provides clear visual feedback.
2417-2456: Well-defined command parser with safe defaults.The remove command parser correctly defaults
--dry-runto True and provides clear options. The help text is descriptive.
2822-2826: Correct dispatch logic for remove command.The
--executeflag properly overrides the default dry-run behavior before calling the remove method.
| if purge: | ||
| plan.commands = [ | ||
| f"sudo apt-get purge -y {package_name}", | ||
| "sudo apt-get autoremove -y", | ||
| ] | ||
| else: | ||
| plan.commands = [ | ||
| f"sudo apt-get remove -y {package_name}", | ||
| "sudo apt-get autoremove -y", | ||
| ] |
There was a problem hiding this comment.
Generated removal commands use silent sudo with -y flag.
The generate_removal_plan method generates commands with sudo apt-get ... -y which bypasses user confirmation. Based on learnings, the coding guidelines require explicit user confirmation for privilege escalation rather than silent sudo.
🔒 Suggested fix to remove silent sudo
# Generate commands
if purge:
plan.commands = [
- f"sudo apt-get purge -y {package_name}",
- "sudo apt-get autoremove -y",
+ f"sudo apt-get purge {package_name}",
+ "sudo apt-get autoremove",
]
else:
plan.commands = [
- f"sudo apt-get remove -y {package_name}",
- "sudo apt-get autoremove -y",
+ f"sudo apt-get remove {package_name}",
+ "sudo apt-get autoremove",
]The -y flag should only be added during actual execution after explicit user confirmation, not embedded in the plan commands displayed to users. Based on learnings, explicit user confirmation is required for privilege escalation.
📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| if purge: | |
| plan.commands = [ | |
| f"sudo apt-get purge -y {package_name}", | |
| "sudo apt-get autoremove -y", | |
| ] | |
| else: | |
| plan.commands = [ | |
| f"sudo apt-get remove -y {package_name}", | |
| "sudo apt-get autoremove -y", | |
| ] | |
| if purge: | |
| plan.commands = [ | |
| f"sudo apt-get purge {package_name}", | |
| "sudo apt-get autoremove", | |
| ] | |
| else: | |
| plan.commands = [ | |
| f"sudo apt-get remove {package_name}", | |
| "sudo apt-get autoremove", | |
| ] |
🤖 Prompt for AI Agents
In @cortex/uninstall_impact.py around lines 833 - 842, The generated removal
plan in generate_removal_plan currently embeds the `-y` flag into plan.commands
(e.g., `sudo apt-get purge -y {package_name}` and `sudo apt-get autoremove -y`);
update generate_removal_plan so plan.commands present interactive commands
without `-y` (use `sudo apt-get purge {package_name}`, `sudo apt-get remove
{package_name}` and `sudo apt-get autoremove`) and ensure that any code that
actually executes these commands adds `-y` only after explicit user
confirmation; reference the plan.commands assignment, package_name and the purge
boolean when making the change.
There was a problem hiding this comment.
@Anshgrover23, thanks for confirming! I've noted that the -y flag should be removed from the generated commands in generate_removal_plan to ensure explicit user confirmation before privilege escalation. Let me know if you'd like any assistance with the update.
🧠 Learnings used
Learnt from: CR
Repo: cortexlinux/cortex PR: 0
File: AGENTS.md:0-0
Timestamp: 2026-01-12T20:51:13.817Z
Learning: Applies to **/*.py : Do not use silent sudo - require explicit user confirmation for privilege escalation
cortex/uninstall_impact.py
Outdated
| # CLI Interface for standalone usage | ||
| if __name__ == "__main__": | ||
| import argparse | ||
| import sys | ||
|
|
||
| parser = argparse.ArgumentParser(description="Analyze impact of package removal") | ||
| parser.add_argument("package", help="Package name to analyze") | ||
| parser.add_argument("--json", action="store_true", help="Output as JSON") | ||
| parser.add_argument("--plan", action="store_true", help="Generate removal plan") | ||
| parser.add_argument("--purge", action="store_true", help="Include purge in removal plan") | ||
|
|
||
| args = parser.parse_args() | ||
|
|
||
| analyzer = UninstallImpactAnalyzer() | ||
|
|
||
| if args.plan: | ||
| plan = analyzer.get_removal_plan(args.package, args.purge) | ||
| print(f"\nRemoval Plan for: {plan.target_package}") | ||
| print("=" * 60) | ||
| print(f"Packages to remove: {', '.join(plan.packages_to_remove)}") | ||
| print(f"Autoremove candidates: {len(plan.autoremove_candidates)}") | ||
| print(f"Config files affected: {len(plan.config_files_affected)}") | ||
| print(f"Estimated freed space: {plan.estimated_freed_space}") | ||
| print("\nCommands:") | ||
| for cmd in plan.commands: | ||
| print(f" {cmd}") | ||
| else: | ||
| result = analyzer.analyze(args.package) | ||
|
|
||
| if args.json: | ||
| import json | ||
| from dataclasses import asdict | ||
|
|
||
| # Convert to dict (handle enums) | ||
| data = { | ||
| "target_package": result.target_package, | ||
| "direct_dependents": result.direct_dependents, | ||
| "transitive_dependents": result.transitive_dependents, | ||
| "affected_services": [ | ||
| { | ||
| "name": s.name, | ||
| "status": s.status.value, | ||
| "package": s.package, | ||
| "is_critical": s.is_critical, | ||
| } | ||
| for s in result.affected_services | ||
| ], | ||
| "orphaned_packages": result.orphaned_packages, | ||
| "cascade_packages": result.cascade_packages, | ||
| "severity": result.severity.value, | ||
| "total_affected": result.total_affected, | ||
| "cascade_depth": result.cascade_depth, | ||
| "recommendations": result.recommendations, | ||
| "warnings": result.warnings, | ||
| "safe_to_remove": result.safe_to_remove, | ||
| } | ||
| print(json.dumps(data, indent=2)) | ||
| else: | ||
| print(analyzer.format_impact_report(result)) | ||
|
|
||
| sys.exit(0) |
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Add audit logging to history.db for package analysis operations.
Per coding guidelines, all operations in Python files must be logged to ~/.cortex/history.db for audit purposes. The CLI entry point and analysis methods perform package impact analysis and removal planning but do not record these operations to the audit database. Integrate InstallationHistory to log analysis operations with appropriate operation types (e.g., InstallationType.ANALYZE or similar).
🤖 Prompt for AI Agents
In @cortex/uninstall_impact.py around lines 984 - 1044, Add audit logging calls
to the CLI entry path and analysis methods so every analyze/plan operation is
recorded in ~/.cortex/history.db using InstallationHistory and the appropriate
InstallationType (e.g., InstallationType.ANALYZE or InstallationType.PLAN);
specifically, in the __main__ CLI block wrap calls to
UninstallImpactAnalyzer.analyze and UninstallImpactAnalyzer.get_removal_plan
with InstallationHistory().record(...) (or the project’s record API), include
operation type, target package, flags (json/plan/purge), timestamp, and outcome
(success/failure and any summary fields like total_affected or
packages_to_remove), and ensure exceptions are logged as failures to the same
history DB; update imports to include InstallationHistory and InstallationType
and call them in the analyze/get_removal_plan call sites.
There was a problem hiding this comment.
Actionable comments posted: 1
🤖 Fix all issues with AI agents
In @cortex/uninstall_impact.py:
- Around line 26-30: Remove the module-level call to
logging.basicConfig(level=logging.INFO) because it can override the
application's logging config; instead, move this initialization into a guarded
block for standalone execution (use if __name__ == "__main__":) so the module
exports logger = logging.getLogger(__name__) without altering global logging
when imported, and only configure basicConfig when running the script directly.
🧹 Nitpick comments (4)
cortex/cli.py (2)
944-952: Fragile string matching on warnings list.The check
"not found in repositories" in str(result.warnings)converts the list to its string representation (e.g.,"['Package ... not found in repositories']"). This works but is fragile—consider iterating through the list explicitly or adding a dedicated flag likepackage_not_foundtoImpactResult.♻️ Suggested improvement
def _check_package_not_found(self, result) -> bool: """Check if package doesn't exist in repos and print warnings.""" - if result.warnings and "not found in repositories" in str(result.warnings): + not_found = any("not found in repositories" in w for w in result.warnings) + if not_found: for warning in result.warnings: cx_print(warning, "warning") for rec in result.recommendations: cx_print(rec, "info") return True return False
1111-1155: Autoremove runs without explicit confirmation.The main removal properly requires user confirmation before execution. However,
apt-get autoremove -yat line 1150-1154 runs automatically afterward. While this is a common convenience pattern, it could remove more packages than the user expected.Consider either:
- Informing the user what autoremove will clean before running it, or
- Making autoremove opt-in via a flag
This is a minor UX concern since autoremove only removes unused dependencies.
cortex/uninstall_impact.py (2)
799-824: Orphaned package detection has limitations.The method simulates removal at line 809 but doesn't use the result—it only returns current
autoremovecandidates. As noted in the comment (lines 803-804), this doesn't accurately predict what would become orphaned after removing the specific target package.This is a known limitation. Consider documenting this more prominently in the method name or return value, or investigating if
apt-get -s remove PKG && apt-get -s autoremovecan be chained in a single shell to get accurate results.
1050-1080: Consider whether read-only analysis should be logged as REMOVE.Both
--planand regular analysis are logged withInstallationType.REMOVE, which may be misleading in audit history since no removal actually occurred. Consider either:
- Not logging read-only analysis operations, or
- Adding a separate
InstallationType.ANALYZEfor read-only operationsThis is a minor semantic concern for audit clarity.
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**/*.py
📄 CodeRabbit inference engine (AGENTS.md)
**/*.py: Follow PEP 8 style guide for Python code
Include type hints in Python code
Add docstrings for all public APIs in Python code
Use dry-run mode by default for all installation operations
Do not use silent sudo - require explicit user confirmation for privilege escalation
Implement Firejail sandboxing for execution of untrusted code
Log all operations to ~/.cortex/history.db for audit purposes
Files:
cortex/cli.pycortex/uninstall_impact.py
🧠 Learnings (2)
📚 Learning: 2026-01-12T20:51:13.817Z
Learnt from: CR
Repo: cortexlinux/cortex PR: 0
File: AGENTS.md:0-0
Timestamp: 2026-01-12T20:51:13.817Z
Learning: Applies to **/*.py : Log all operations to ~/.cortex/history.db for audit purposes
Applied to files:
cortex/cli.pycortex/uninstall_impact.py
📚 Learning: 2026-01-12T20:51:13.817Z
Learnt from: CR
Repo: cortexlinux/cortex PR: 0
File: AGENTS.md:0-0
Timestamp: 2026-01-12T20:51:13.817Z
Learning: Applies to **/*.py : Do not use silent sudo - require explicit user confirmation for privilege escalation
Applied to files:
cortex/uninstall_impact.py
🧬 Code graph analysis (1)
cortex/uninstall_impact.py (1)
cortex/installation_history.py (4)
InstallationStatus(37-43)InstallationType(27-34)record_installation(258-316)update_installation(318-367)
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🔇 Additional comments (17)
cortex/cli.py (8)
27-36: LGTM!The imports are correctly structured, and the
HELP_SKIP_CONFIRMconstant promotes consistency across confirmation prompts.
892-923: LGTM! Well-structured remove command with safety-first approach.The method correctly defaults to dry-run mode and follows a clear flow: analyze → validate → output → confirm → execute. This aligns with the coding guidelines requiring dry-run by default.
925-942: LGTM!Proper error handling with graceful failure and verbose traceback support.
954-983: LGTM!Clean JSON serialization with proper handling of enum values via
.value. The import alias avoids shadowing with thejsonargument.
985-1022: LGTM!Safety checks properly gate high-impact removals behind
--force, and the confirmation flow handles non-interactive terminals gracefully.
1024-1109: LGTM! Rich formatting is well-implemented.The display methods provide clear, styled output with appropriate truncation for long lists and consistent severity coloring.
2477-2516: LGTM!The argument structure correctly defaults to dry-run mode and provides clear options for execution, purging, and force override. Good use of the shared
HELP_SKIP_CONFIRMconstant.
2882-2886: LGTM!The
--executeflag correctly overrides the default dry-run behavior.cortex/uninstall_impact.py (9)
33-50: LGTM!Clean enum definitions with appropriate severity levels and service statuses.
114-176: LGTM! Well-designed caching and thread safety.The dependency graph builder has good performance optimizations with file-based caching and proper thread synchronization. The 1-hour cache TTL is reasonable for package metadata.
296-320: LGTM! Safe string parsing without regex.The character-by-character approach avoids ReDoS vulnerabilities while correctly handling nested version constraints and virtual package markers.
344-369: LGTM!The BFS algorithm correctly computes transitive dependents with depth limiting to prevent runaway in circular dependency scenarios.
384-440: LGTM! Comprehensive service mapping.The static
PACKAGE_SERVICE_MAPcovers common services well, and the dynamic detection viadpkg-query -Lprovides a good fallback for unmapped packages. TheCRITICAL_SERVICESset appropriately flags high-impact services.
563-678: LGTM! Helpful recommendation engine.The recommendations cover critical scenarios well, including service warnings, dependency guidance, and orphan cleanup. The safe removal order algorithm gracefully handles circular dependencies.
680-778: LGTM! Comprehensive impact analysis.The
ImpactAnalyzerorchestrates all components well. The severity thresholds are reasonable, and the use ofapt-get -sfor dry-run simulation is the correct approach. Good handling of both installed and available-but-not-installed packages.
922-976: LGTM!Clean facade pattern providing a simple interface for CLI usage. The plain-text
format_impact_reportcomplements the Rich-based display incli.pyfor different output contexts.
75-82: No action needed. TheDependencyEdgeclass is actively used and tested in the test suite (tests/test_uninstall_impact.py), with a dedicatedTestDependencyEdgetest class. The class is not unused.
cortex/uninstall_impact.py
Outdated
| logging.basicConfig(level=logging.INFO) | ||
| # Constants | ||
| SERVICE_SUFFIX = ".service" | ||
|
|
||
| logger = logging.getLogger(__name__) |
There was a problem hiding this comment.
🛠️ Refactor suggestion | 🟠 Major
Module-level logging.basicConfig may interfere with application logging.
Calling logging.basicConfig(level=logging.INFO) in a library module can override or conflict with the main application's logging configuration. This should be removed or moved to the if __name__ == "__main__": block.
♻️ Suggested fix
-logging.basicConfig(level=logging.INFO)
# Constants
SERVICE_SUFFIX = ".service"
logger = logging.getLogger(__name__)If needed for standalone CLI usage, add it to the if __name__ == "__main__": block at the bottom of the file.
📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| logging.basicConfig(level=logging.INFO) | |
| # Constants | |
| SERVICE_SUFFIX = ".service" | |
| logger = logging.getLogger(__name__) | |
| # Constants | |
| SERVICE_SUFFIX = ".service" | |
| logger = logging.getLogger(__name__) |
🤖 Prompt for AI Agents
In @cortex/uninstall_impact.py around lines 26 - 30, Remove the module-level
call to logging.basicConfig(level=logging.INFO) because it can override the
application's logging config; instead, move this initialization into a guarded
block for standalone execution (use if __name__ == "__main__":) so the module
exports logger = logging.getLogger(__name__) without altering global logging
when imported, and only configure basicConfig when running the script directly.
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@Anshgrover23 I have created a new PR for issue-113 |
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@RIVALHIDE Do not ask for review until you have addressed all coderabbit comments. Do Self Review first.
Missing Docs file, demonstrating video in PR description(screenshot aren't enough).
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@RIVALHIDE Kindly address all coderabbitai comments, also missing demonstration of video --execute commands as well.
CI checks are also failing.
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3 participants
Related Issue
Closes #113
Summary
Implements a comprehensive Uninstall Impact Analysis Engine for Cortex Linux that performs pre-uninstall impact analysis to evaluate dependencies, affected services, and cascading effects before package removal.
Features Added:
cortex remove <package> --dry-runcommand (dry-run by default for safety)--jsonflag for scriptingCLI Options:
cortex remove [OPTIONS]
--dry-run Show impact analysis without removing (default)
--execute Actually remove the package after analysis
--purge Also remove configuration files
--force Force removal even if impact is high
-y, --yes Skip confirmation prompt
--json Output impact analysis as JSON
AI Disclosure
Used Claude Opus 4.5 for:
##Example Usage
Demo Video :
Screencast.from.14-01-26.09.18.38.PM.IST.webm
Checklist
type(scope): descriptionor[scope] descriptionpytest tests/)Summary by CodeRabbit
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