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@jmikedupont2 jmikedupont2 commented Sep 12, 2025

PR Type

Enhancement


Description

Major CRQ Analysis Framework: Comprehensive implementation of CRQ (Change Request) parsing, analysis, and reporting tools with state classification and communication analysis
Wikipedia/Wikidata Integration: Full-featured Wikipedia data extraction system with caching, entity fetching, and article parsing capabilities
Template Processing System: WikiProject template introspection, parsing, and Rust code generation with procedural macros
Analysis Tools Suite: Multiple specialized tools including n-gram analysis, word classification, web spider corpus builder, and hash extraction utilities
Development Environment: Enhanced Nix-based development setup with Emacs configuration integration and tmux automation scripts
Agent Communication Analysis: Tools for analyzing CodeRabbitAI responses and PR communication patterns with automated review request capabilities
Lattice Framework Extensions: Updates to lattice model with improved error messages and test coverage
Comprehensive Testing: Integration tests for Wikipedia extractor, web spider, and CRQ state recognition functionality


Diagram Walkthrough

flowchart LR
  CRQ["CRQ Parser & Analyzer"] --> STATE["State Classification"]
  CRQ --> COMM["Communication Analysis"]
  WIKI["Wikipedia Extractor"] --> CACHE["Caching System"]
  WIKI --> WIKIDATA["Wikidata Client"]
  TEMPLATE["Template Processor"] --> CODEGEN["Code Generation"]
  TEMPLATE --> MACRO["Proc Macros"]
  TOOLS["Analysis Tools"] --> NGRAM["N-gram Analysis"]
  TOOLS --> SPIDER["Web Spider"]
  TOOLS --> HASH["Hash Extractor"]
  DEV["Dev Environment"] --> EMACS["Emacs Config"]
  DEV --> NIX["Nix Setup"]
  SCRIPTS["Automation Scripts"] --> PR["PR Processing"]
  SCRIPTS --> AGENT["Agent Analysis"]
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File Walkthrough

Relevant files
Enhancement
49 files
crq_parser.rs
CRQ Parser with State Classification and Communication Analysis

tools/crq_table_generator/src/crq_parser.rs

• Added comprehensive CRQ parsing and analysis functionality with
state classification
• Implemented NextStep enum with various states
including review status and action types
• Added communication
analysis to check CoderabbitAI responses and determine next steps

Included n-gram analysis and token extraction for content
classification

+265/-0 
main.rs
CRQ Word Analyzer Tool with Multiple Analysis Modes           

tools/crq_word_analyzer/src/main.rs

• Created word analysis tool for CRQ documents with multiple analysis
modes
• Added sequential response analysis and individual response
classification
• Implemented categorized word counting by NextStep
classification
• Integrated with CRQ parser for comprehensive document
analysis

+287/-0 
crq_parser.rs
Extended CRQ Parser with Enhanced N-gram Analysis               

tools/crq_word_analyzer/src/crq_parser.rs

• Duplicated CRQ parser functionality with extended n-gram lengths

Added communication analysis and state classification logic
• Removed
ReviewSkippedDueToSizeLimit state from phase classification
• Updated
n-gram lengths to include larger values (11, 13, 17, 19)

+253/-0 
main.rs
CRQ Table Generator with Command Generation                           

tools/crq_table_generator/src/main.rs

• Built CRQ table generator with command generation capabilities

Added PR number mapping from task.md file parsing
• Implemented
detailed reporting and script generation for review commands

Integrated with CRQ parser for comprehensive analysis reporting

+189/-0 
main.rs
Agent Communication Response Analyzer Tool                             

tools/agent_comms_analysis/response_analyzer/src/main.rs

• Created response analyzer for agent communication analysis
• Added
file organization by author and CRQ ID
• Implemented comment
classification and repeated phrase analysis
• Added metadata parsing
for communication tracking

+195/-0 
lib.rs
Wikimedia Template Introspector Core Library                         

wikimedia-template-introspector-core/src/lib.rs

• Added WikiProject template parsing and code generation functionality

• Implemented template invocation parsing with parameter handling

Added WikiProject crate content generation with template functions

Included comprehensive test coverage for template parsing

+167/-0 
wikidata_client.rs
Wikidata Client with Caching and Entity Fetching                 

wikipedia_extractor/src/wikidata_client.rs

• Implemented Wikidata entity fetching with caching support
• Added
comprehensive data type handling for Wikidata claims
• Implemented
entity caching and retrieval functionality
• Added support for
multiple query methods (title or ID)

+130/-0 
parser_codegen.rs
Template Parser and Code Generator                                             

wikimedia-template-introspector/src/parser_codegen.rs

• Added template parsing and Rust code generation functionality

Implemented parameter handling for both named and positional
parameters
• Added comprehensive test coverage with regex-based
assertions
• Fixed format string generation for template parameters

+126/-0 
main.rs
Web Spider Corpus Builder Tool                                                     

tools/web_spider_corpus_builder/src/main.rs

• Created web spider tool for corpus building from URLs
• Added URL
extraction from markdown files and plain text files
• Implemented
content type handling for HTML and PDF files
• Added sanitized
filename generation and polite crawling delays

+108/-0 
ngram_reporter.rs
N-gram Analysis Reporter Binary                                                   

src/bin/ngram_reporter.rs

• Created n-gram analysis reporter with hierarchical decomposition

Implemented categorized output generation based on count thresholds

Added file writing functionality for categorized reports
• Integrated
with hierarchical n-gram analysis module

+89/-0   
state-word-reporter.rs
State-based Word Reporter Binary                                                 

src/bin/state-word-reporter.rs

• Built state-based word reporter for CRQ and SOP documents
• Added
predicate-based word classification functionality
• Implemented
document processing for multiple file types
• Added comprehensive word
matching and reporting

+86/-0   
crq_parser.rs
Core CRQ Parser Implementation                                                     

src/crq_parser.rs

• Implemented CRQ structure definition and parsing functionality

Added markdown section parsing with regex-based heading detection

Implemented comprehensive field extraction and validation
• Added
error handling for missing required sections

+97/-0   
ngram_analyzer.rs
N-gram Analysis Module with Hierarchical Decomposition     

src/ngram_analyzer.rs

• Added hierarchical n-gram analysis with decomposition functionality

• Implemented n-gram generation and classification capabilities

Added tokenization and text processing utilities
• Created n-gram
presence detection for classification

+94/-0   
main.rs
Wikipedia Data Extractor Tool                                                       

tools/wiki_data_extractor/src/main.rs

• Created Wikipedia data extraction tool with Wikidata integration

Added link processing and entity fetching for Wikipedia articles

Implemented comprehensive URL filtering and validation
• Added caching
support for extracted data

+66/-0   
cache.rs
Wikipedia and Wikidata Caching System                                       

wikipedia_extractor/src/cache.rs

• Implemented caching functionality for Wikipedia articles and
Wikidata entities
• Added file-based cache with sanitized filename
generation
• Implemented cache loading and saving with JSON
serialization
• Added proper error handling for cache operations

+73/-0   
crq_parser.rs
Basic CRQ Parser Implementation                                                   

tools/crq-parser/src/crq_parser.rs

• Implemented basic CRQ parsing with simple state determination

Added NextStep enum with basic action classification
• Implemented
content-based next step determination logic
• Added basic CRQ
structure parsing functionality

+84/-0   
main.rs
Hash Extractor with URL Analysis Pipeline                               

hash_extractor_rust/src/main.rs

• Created hash extraction tool with URL deduplication functionality

Added integration with GitHub counter, domain reporter, and file type
reporter
• Implemented regex-based hash replacement and unique URL
tracking
• Added comprehensive reporting and analysis pipeline

+78/-0   
github_counter.rs
GitHub Repository Counter with JSON-LD Output                       

hash_extractor_rust/src/github_counter.rs

• Implemented GitHub repository counting with JSON-LD output
• Added
repository URL parsing and owner/repo extraction
• Created structured
data output with schema.org context
• Added comprehensive repository
statistics generation

+71/-0   
wikipedia_parser.rs
Wikipedia Article Parser with Caching                                       

wikipedia_extractor/src/wikipedia_parser.rs

• Implemented Wikipedia article parsing with caching support
• Added
HTML content extraction and link processing
• Integrated with
Wikipedia crate for article fetching
• Added comprehensive article
data structure population

+63/-0   
main.rs
MediaWiki Template Function Generator                                       

template_function_generator/src/main.rs

• Created template function generator for MediaWiki templates
• Added
command-line interface for template string processing
• Implemented
parameter handling and Rust code generation
• Added template name
sanitization and function generation

+58/-0   
main.rs
Command-line CRQ Parser Tool                                                         

tools/crq-parser/src/main.rs

• Created command-line CRQ parser tool with file input support
• Added
CRQ content parsing and next step determination
• Implemented
formatted output for parsed CRQ components
• Added error handling for
file operations and parsing

+60/-0   
template_code_generator.rs
WikiProject Template Code Generator                                           

wikimedia-template-introspector-core/src/template_code_generator.rs

• Implemented WikiProject-specific template function generation

Added parameter handling for template invocations
• Created formatted
function names with WikiProject prefixes
• Added debug output
generation for template execution

+55/-0   
data_structures.rs
Wikipedia Extractor Data Structures                                           

wikipedia_extractor/src/data_structures.rs

• Defined core data structures for Wikipedia and Wikidata entities

Added serialization support with serde for caching
• Implemented
comprehensive structure definitions for articles and facts
• Added
proper field definitions for all entity types

+29/-0   
build.rs
Build script for wiki template code generation                     

generated_wiki_templates/build.rs

• New build script that generates Rust code from wiki template strings

• Uses external template_function_generator to process template
invocations
• Creates module files for each generated template
function
• Handles template name normalization and file organization

+52/-0   
file_type_reporter.rs
File type analysis and reporting from URLs                             

hash_extractor_rust/src/file_type_reporter.rs

• New module for generating file type reports from URL lists

Extracts file extensions from URL path segments
• Validates extensions
and counts occurrences
• Outputs JSON report with file type statistics

+48/-0   
crq-parser-cli.rs
Command-line CRQ markdown parser tool                                       

src/bin/crq-parser-cli.rs

• New CLI tool for parsing CRQ markdown files
• Extracts CRQ ID from
filename and parses structured content
• Displays parsed CRQ
information including title, objective, and dependencies
• Uses clap
for command-line argument parsing

+44/-0   
domain_reporter.rs
Domain extraction and reporting from URLs                               

hash_extractor_rust/src/domain_reporter.rs

• New module for domain analysis from URL lists
• Extracts and counts
domain occurrences from parsed URLs
• Implements simple heuristic for
base domain extraction
• Generates JSON report with domain statistics

+46/-0   
word_classifier.rs
Word predicate classification framework                                   

src/word_classifier.rs

• New predicate-based word classification system
• Implements
WordPredicate type and PredicateClassifier struct
• Extracts word
predicates from text based on target predicates
• Provides
case-insensitive text matching functionality

+29/-0   
main.rs
WikiProject crate generator binary                                             

template_generator_bin/src/main.rs

• New binary for generating WikiProject crate content
• Creates
directory structure and lib.rs files for generated crates
• Uses
wikimedia_template_introspector_core for content generation
• Handles
file system operations for crate creation

+21/-0   
main.rs
Git hash extraction from URL files                                             

url_hash_extractor/src/main.rs

• New tool for extracting 40-character hexadecimal hashes from URLs

Reads from file and applies regex pattern matching
• Specifically
targets Git commit hash patterns
• Outputs found hashes to stdout

+24/-0   
main.rs
Recursive URL extraction from file contents                           

url_extractor/src/main.rs

• New utility for extracting URLs from files recursively
• Walks
directory tree and searches file contents
• Uses regex to match
HTTP/HTTPS URL patterns
• Outputs all found URLs to stdout

+20/-0   
crq_state_recognizer.rs
CodeRabbitAI review state recognition                                       

src/crq_state_recognizer.rs

• New module for recognizing CodeRabbitAI review states
• Detects when
reviews are skipped due to size limits
• Uses keyword matching to
identify review status
• Provides boolean function for state detection

+15/-0   
lib.rs
Library expansion with new modules and functionality         

src/lib.rs

• Added multiple new module exports and imports
• Integrated
word_classifier module into lattice building
• Enhanced ZOS lattice
construction with predicate classification
• Made several modules
public for external use

+8/-2     
lib.rs
Wikipedia data processing library interface                           

wikipedia_extractor/src/lib.rs

• New library module exports for Wikipedia data processing
• Exposes
data structures, parser, client, and cache modules
• Provides unified
interface for Wikipedia and Wikidata operations
• Re-exports key types
and functions for external use

+9/-0     
lib.rs
Wikimedia template introspection proc macro setup               

wikimedia-template-introspector/src/lib.rs

• New procedural macro library for template introspection
• Imports
core template parsing functionality
• Sets up proc_macro
infrastructure with quote and syn
• Duplicate import indicates work in
progress

+7/-0     
lib.rs
Generated wiki templates library interface                             

generated_wiki_templates/src/lib.rs

• New library that includes generated template modules
• Uses
build-time generated code from OUT_DIR
• Provides entry point for
generated template functionality
• Allows for additional public
functions and modules

+4/-0     
main.rs
Template generation CLI trigger                                                   

template_generator_cli/src/main.rs

• Minimal CLI binary that triggers build script execution
• Serves as
entry point for template generation process
• Prints confirmation
message when build script runs
• Acts as build system integration
point

+4/-0     
lib.rs
Generated WikiProject crate placeholder                                   

generated_wikiproject_crates/solfunmeme/src/lib.rs

• Placeholder library file for generated WikiProject crate
• Contains
comment indicating future generated functions
• Part of the solfunmeme
WikiProject crate structure
• Represents generated crate template

+1/-0     
mirror_pr_to_fs.sh
PR data mirroring script for analysis                                       

tools/agent_comms_analysis/mirror_pr_to_fs.sh

• New shell script for mirroring PR data to filesystem
• Extracts PR
details and comments using GitHub CLI
• Creates structured directory
layout for CRQ analysis
• Processes CodeRabbitAI comments with
metadata headers

+77/-0   
process_all_crq_branches.sh
Batch PR processing for CRQ analysis                                         

tools/agent_comms_analysis/process_all_crq_branches.sh

• Script to process all open PRs and collect data
• Iterates through
PR list and extracts CRQ information
• Calls mirror_pr_to_fs.sh for
each PR
• Creates centralized analysis data directory

+44/-0   
new_crq.sh
New CRQ file creation script                                                         

tools/new_crq.sh

• Script for creating new CRQ files with standard template

Automatically determines next CRQ number
• Sanitizes title for
filename generation
• Creates structured CRQ document with template
sections

+45/-0   
ping_coderabbitai.sh
Automated CodeRabbitAI review request script                         

tools/agent_comms_analysis/ping_coderabbitai.sh

• Script to ping CodeRabbitAI on PRs without responses
• Checks for
existing CodeRabbitAI comments
• Automatically posts review requests
where needed
• Processes all open pull requests

+39/-0   
nextstep.sh
Batch CodeRabbitAI review request script                                 

nextstep.sh

• Script containing multiple GitHub CLI commands
• Posts CodeRabbitAI
review requests to specific PRs
• Hardcoded PR numbers for batch
processing
• Simple automation for review requests

+21/-0   
classify_crq.sh
CRQ classification script using parser                                     

tools/classify_crq.sh

• Script for classifying CRQ files using crq-parser
• Validates file
existence and parser availability
• Executes crq-parser with file
argument
• Provides error handling for missing dependencies

+28/-0   
launch_emacs_pane.sh
Tmux Emacs pane launcher script                                                   

launch_emacs_pane.sh

• Script for launching Emacs in tmux split pane
• Sets up EMACS_HOME
environment variable
• Creates vertical split in existing tmux session

• Provides tmux-based development environment setup

+20/-0   
update_pr_bases.sh
PR base branch update automation script                                   

tools/agent_comms_analysis/update_pr_bases.sh

• Script to update all open PR base branches to main
• Uses GitHub CLI
to modify PR base branches
• Processes all open PRs systematically

Provides error handling and status reporting

+23/-0   
generate_crq_summary.sh
CRQ summary report generation script                                         

tools/generate_crq_summary.sh

• Script for generating CRQ summary reports
• Uses crq_table_generator
executable
• Validates executable availability
• Provides build
instructions for missing dependencies

+16/-0   
launch_nix_emacs.sh
Nix-based Emacs launcher for tmux                                               

launch_nix_emacs.sh

• Script for launching Emacs in Nix development environment
• Creates
new tmux window with Nix develop command
• Checks for existing tmux
session
• Integrates Emacs with terlar-emacs-config

+14/-0   
Q107451751.json
Add Wikidata cache entry for monomorphization concept       

wikipedia_extractor/cache/wikidata/Q107451751.json

• Created new Wikidata cache entry for "Monomorphization" concept

Added JSON structure with ID Q107451751 and empty facts array

+5/-0     
Tests
5 files
integration_test.rs
Wikipedia Extractor Integration Tests                                       

wikipedia_extractor/tests/integration_test.rs

• Added comprehensive integration tests for Wikipedia and Wikidata
functionality
• Implemented tests for article extraction and entity
fetching
• Added caching functionality testing
• Included proper error
handling and assertions

+68/-0   
test_crq_state_recognizer.rs
CRQ State Recognizer Test Suite                                                   

tests/test_crq_state_recognizer.rs

• Added comprehensive tests for CRQ state recognition functionality

Implemented tests for review skip detection due to size limits
• Added
positive and negative test cases for various scenarios
• Included rate
limit and normal review detection tests

+85/-0   
integration_test.rs
Web Spider Corpus Builder Integration Test                             

tools/web_spider_corpus_builder/tests/integration_test.rs

• Added integration test for web spider corpus builder functionality

Implemented test for markdown URL extraction and HTML fetching
• Added
build verification and executable testing
• Included cleanup and
assertion logic for test validation

+59/-0   
lib.rs
Lattice Code Generator Test Updates                                           

lattice_code_generator/src/lib.rs

• Updated test assertions to match generated code format changes

Fixed spacing and formatting expectations in test cases
• Updated enum
variant and method call formatting assertions
• Adjusted prime value
type test expectations

+12/-12 
run_emacs_batch_test.sh
Emacs configuration batch testing script                                 

run_emacs_batch_test.sh

• Script for running headless Emacs configuration tests
• Uses Nix
development environment for Emacs testing
• Loads test file in batch
mode
• Provides exit code handling for test results

+30/-0   
Bug fix
1 files
lattice_model.rs
Lattice Model Error Message Fix                                                   

src/lattice_model.rs

• Fixed assertion error message for value count validation
• Updated
error message to be more descriptive and accurate
• Changed from
"layer's value type" to "layer's value count"

+1/-25   
Configuration changes
3 files
flake.nix
Nix flake structure simplification and dependency update 

flake.nix

• Simplified flake structure by removing nested function
• Added
pinentry to development shell dependencies
• Removed shellHook as per
user instruction
• Maintained all existing functionality with cleaner
structure

+130/-137
shell.nix
Development shell enhancement with Emacs support                 

shell.nix

• Added Emacs and Magit packages to development shell
• Included
shellHook for EMACSLOADPATH configuration
• Enhanced development
environment with editor support
• Maintained existing valgrind and
other dependencies

+6/-1     
.gitmodules
Add Emacs configuration submodule integration                       

.gitmodules

• Added new Git submodule entry for Emacs configuration
• Configured
.emacs.d/terlar-emacs-config submodule pointing to
https://github.com/terlar/emacs-config

+3/-0     
Documentation
2 files
pr_description_jmikedupont2.md
CRQ-45 PR description with lattice framework details         

analysis_data/comms/git/jmikedupont2/CRQ-45/pr_description_jmikedupont2.md

• Large PR description document with CRQ-45 details
• Contains
comprehensive lattice framework implementation description
• Includes
detailed file walkthrough and change summaries
• Documents major
enhancement with multiple new tools and analysis capabilities

+1207/-0
pr_description_jmikedupont2.md
Add comprehensive CRQ-42 PR description with lattice framework
documentation

analysis_data/comms/git/jmikedupont2/CRQ-42/pr_description_jmikedupont2.md

• Added comprehensive PR description document for CRQ-42 with 1986
lines of content
• Includes detailed analysis of grand unified
framework implementation with lattice-based code analysis
• Documents
major framework components including code generation, repository
analysis, and development tools
• Contains extensive file walkthrough
with categorized changes across 57 enhancement files

+1986/-0
Dependencies
1 files
terlar-emacs-config
Emacs configuration submodule addition                                     

.emacs.d/terlar-emacs-config

• Added new Git submodule for Emacs configuration
• Points to specific
commit of terlar-emacs-config repository
• Provides external Emacs
configuration integration
• Enables Nix-based Emacs development
environment

+1/-0     
Additional files
101 files
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Summary by CodeRabbit

  • New Features
    • Added a comprehensive Emacs configuration with faster startup, streamlined UI, leader-key bindings, and utilities (screenshots, SSH send, REPL buffers).
    • Expanded Rust workspace with numerous analysis and generation tools, plus new CLI binaries for parsing, reporting, and lattice-based code modeling.
  • Documentation
    • Introduced extensive CRQ/SOP docs, reviewer guides, and PR descriptions to explain workflows and automation.
  • Tests
    • Added integration and unit tests for new tools and analyzers.
  • Chores
    • Added a new Git submodule and updated workspace configuration.

mike added 30 commits September 12, 2025 20:15
## Change Request: Standardize Pre-commit Hooks for All Submodules

### Objective
To implement a standardized and automated system for managing Git pre-commit hooks across all project submodules, with an initial focus on integrating `shellcheck` for shell script quality assurance.

### Description
Currently, Git pre-commit hooks are managed on a per-repository basis, leading to potential inconsistencies in code quality enforcement, especially within submodules. This CRQ proposes a solution to centralize the management of pre-commit hooks, ensuring that all submodules automatically inherit and enforce project-wide code quality standards.

The initial implementation will focus on:
1.  **Centralized Template:** Creating a single, authoritative template for the pre-commit hook in the main repository.
2.  **Automated Deployment:** Developing a mechanism (e.g., a script) to automatically deploy and update this pre-commit hook to all existing and newly added submodules.
3.  **`shellcheck` Integration:** The initial standardized hook will include `shellcheck` to enforce best practices and identify common errors in shell scripts before they are committed.
4.  **Documentation:** Providing clear Standard Operating Procedures (SOPs) for the setup, maintenance, and usage of these standardized hooks.

### Expected Outcome
*   Consistent application of code quality checks (starting with `shellcheck`) across all submodules.
*   Reduced manual effort in setting up and maintaining pre-commit hooks in individual submodules.
*   Improved overall code quality and fewer shell scripting errors in the codebase.
*   Clear documentation for developers on how pre-commit hooks are managed.

### Justification/Benefit
*   **Enhanced Code Quality:** Proactive identification and prevention of shell scripting issues at the commit stage.
*   **Increased Efficiency:** Automates a previously manual and error-prone process, saving developer time.
*   **Improved Consistency:** Ensures all parts of the codebase adhere to the same quality standards.
*   **Easier Onboarding:** New contributors will automatically benefit from established quality checks without manual setup.

### Dependencies
*   Availability of `shellcheck` in the development environment (to be addressed in related Nix configurations).
*   Git submodule functionality.
*   Agreement on the content of the centralized pre-commit hook template.
*   The `SOP_Standardize_Submodule_Precommit_Hooks.md` document.
Restructured the `agent_comms_analysis` tools for improved organization and efficiency.

- Updated `Cargo.toml` to reflect the new path of `response_analyzer`.
- Enhanced `mirror_pr_to_fs.sh` for flexible output directories and robust CRQ ID extraction.
- Simplified `process_all_crq_branches.sh` by delegating branch handling and centralizing data collection into `analysis_data/`.
This commit introduces a suite of tools and documentation to streamline CRQ management and enhance the CRQ classification process.

Key changes include:
- **CRQ Parser (`crq-parser`):** Developed a Rust-based CLI tool for classifying individual CRQs.
- **CRQ Table Generator (`crq_table_generator`):** Developed a Rust-based CLI tool to generate a summary table of all CRQs, grouped by suggested next steps. This tool was added to the workspace.
- **Enhanced CRQ Classification:** The `crq_table_generator`'s parser was improved to handle various CRQ formats and includes new classification logic:
    - `CoderabbitAI Review`: For smaller CRQs (under 2500 bytes).
    - `Respond To / Our Turn`: For CRQs requiring human attention, strategic input, or clarification (based on keywords).
- **Shell Scripts:** Created `classify_crq.sh`, `generate_crq_summary.sh`, and `new_crq.sh` to automate CRQ-related workflows.
- **Standard Operating Procedures (SOPs):** Documented the usage of new tools with `SOP_Using_CRQ_Classifier.md`, `SOP_Generating_CRQ_Report.md`, and `SOP_Creating_New_CRQ.md`.
- **New CRQ:** Created `CRQ-055-enhance-crq-parser-for-coderabbitai-skipped-reviews.md` to track future enhancements for handling CoderabbitAI skipped reviews.
- **Updated `task.md`:** Added CRQ-54 (Deterministic CRQ Parser) to the task list.
**Problem/Goal:**
To enhance the `crq_parser` within the `crq_table_generator` project to automatically identify CRQs where CoderabbitAI has skipped an automated review, and classify them as requiring a manual review request to CoderabbitAI.

**Proposed Solution:**

1.  **New `NextStep` Variant:**
    *   Add `RequestCoderabbitAIReview` to the `NextStep` enum in `crq_parser.rs`.

2.  **`crq_parser.rs` Modifications:**

    *   **New Function: `check_coderabbitai_comms(crq_id: &str) -> bool`**
        *   This function will check communication logs for a given `crq_id`.
        *   It will construct the path to CoderabbitAI responses (e.g., `analysis_data/comms/git/coderabbitai/{crq_id}/responses/`).
        *   It will read file content and search for keywords/patterns indicating a skipped review (e.g., "Review skipped", "Auto reviews are disabled").
        *   It will return `true` if a skipped review message is found, `false` otherwise.

    *   **Modify `determine_next_step(crq_content: &str, crq_id: &str) -> NextStep`**
        *   The function will accept `crq_id` as an additional argument.
        *   The classification logic will be updated:
            1.  **CoderabbitAI Review (Size-based):** (Existing rule) If content size < 2500 bytes, classify as `CoderabbitAIReview`.
            2.  **Request CoderabbitAI Review (Comms-based):** (NEW RULE) If `check_coderabbitai_comms(crq_id)` returns `true`, classify as `RequestCoderabbitAIReview`. This rule takes precedence over general "Respond To / Our Turn".
            3.  **Respond To / Our Turn:** (Existing rule) If neither of above, and CRQ contains relevant keywords, classify as `RespondTo`.
            4.  **Develop/Refactor/Document/Unknown:** (Existing rules) Fallback if no other specific classification applies.

3.  **`main.rs` Modifications:**

    *   **Extract `crq_id`:** Extract CRQ ID from filename and pass to `determine_next_step`.
    *   **Update `match` statement:** Add a new case for `NextStep::RequestCoderabbitAIReview` for display.

**Justification/Impact:**
This enhancement will make the `crq_parser` more intelligent and context-aware by incorporating external communication context into its classification decisions. It will automate the identification of CRQs that require manual intervention to trigger a CoderabbitAI review, improving workflow efficiency and ensuring that skipped reviews are addressed proactively.

**Progress Update (2025-09-11):**

The core implementation of the proposed solution has been completed and integrated into the `crq_table_generator`. This includes:

*   Refined `NextStep` enum with new states: `ReviewProvided`, `ReviewSkipped (No Meaningful Response)`, `ReviewNeeded from CoderabbitAI`, and `Respond To / Our Turn`.
*   Implementation of `check_coderabbitai_comms` to analyze communication logs for skipped reviews and meaningful responses.
*   Updated `determine_next_step` with a prioritized state machine logic, incorporating n-gram analysis and communication log data.
*   The `crq_table_generator` now produces a detailed report reflecting these new classifications.

This phase of the CRQ is considered complete. Further work will be tracked under new CRQs, such as `CRQ-046-crq-classification-via-comms-analysis-and-state-machine.md` for more advanced comms analysis.
…e machine logic

This commit integrates the `crq_table_generator` Rust project into the main workspace and implements the new state machine logic for CRQ classification.

Key changes include:
- Added `crq_table_generator` to the workspace members in `Cargo.toml`.
- Implemented `ReviewProvided`, `ReviewSkipped (No Meaningful Response)`, and `ReviewNeeded from CoderabbitAI` states in `crq_table_generator/src/crq_parser.rs`.
- Refined `determine_next_step` to use n-gram analysis and communication log data for classification.
- Updated `crq_table_generator/src/main.rs` to display the new classification states.
- Created `CRQ-046-crq-classification-via-comms-analysis-and-state-machine.md` to outline future work on advanced comms analysis.
This commit updates the Standard Operating Procedures (SOPs) to reflect the new CRQ classification states and the enhanced capabilities of the `crq_table_generator`.

Key updates include:
- **`SOP_Generating_CRQ_Report.md`:** Updated to describe the detailed CRQ report format, new classification states (Review Provided, Review Skipped, Review Needed from CoderabbitAI, Respond To / Our Turn), and the command generation options.
- **`SOP_Using_CRQ_Classifier.md`:** Updated to clarify its purpose as a basic classifier and to point to `SOP_Generating_CRQ_Report.md` for comprehensive analysis.
- **`SOP_CRQ_State_Classification.md`:** (Already created in a previous step) Explains the new CRQ classification states in detail.
This commit introduces a new CRQ (Code Review Quality) parser and a state word reporter.

- Added `regex` dependency.
- Defined new binary targets for `crq-parser-cli` and `state-word-reporter`.
- Expanded `ontology.json` with new emoji mappings for better semantic representation.
- Implemented `crq_parser` module for parsing CRQ data.
- Added CLI tools for CRQ parsing and state word reporting.
- Updated `lattice_model.rs` and `lib.rs` to support the new modules and functionalities.
- Added initial UML sketch documentation.
mike added 21 commits September 12, 2025 20:16
Updated the "CRQ Documents" section in task.md to include all
currently available CRQ markdown files, ensuring the document
reflects the latest state of CRQs in the project.
This commit introduces the initial implementation of a web spider and corpus builder
for project analysis. This includes:
- New Rust crates for URL extraction, hashing, and web crawling.
- Updates to Cargo.toml and Cargo.lock to reflect new dependencies.
- Generation of various reports (domain, extracted URLs, file types, etc.).
- Creation of CRQ-056 to document this feature.

This work lays the foundation for expanding project analysis to external web resources.
This commit introduces two new CRQ documents:
- CRQ-057: Addresses the removal of the stabilized `edition2024` feature from Cargo.toml files.
- CRQ-058: Focuses on removing unused imports in the `hash_extractor_rust` crate.

Additionally, `task.md` has been updated to reflect these new CRQs in the list of open pull requests.
**Problem/Goal:**
The `cargo test` command was emitting warnings related to the `edition2024` feature being stabilized and unused imports in several Rust crates. These warnings clutter the test output and indicate unnecessary code/configuration. The goal is to eliminate these warnings to maintain a clean build and test environment.

**Proposed Solution:**
1. Remove the `cargo-features = ["edition2024"]` line from `Cargo.toml` files where it was present, as the feature is now stable.
2. Ensure `edition = "2024"` is correctly set in the `[package]` section of these `Cargo.toml` files.
3. Remove unused `use` statements from Rust source files as identified by `cargo test`. Specifically, `crq_parser::CRQ` and `WordPredicate` from `submodules/src/lib.rs`, and `NGramDecomposition` from `src/bin/ngram_reporter.rs`.

**Justification/Impact:**
Removing these warnings improves code quality and developer experience by reducing noise in the build and test output. It ensures that the project adheres to best practices for Rust development and avoids deprecated or unnecessary configurations. This also makes it easier to spot genuine warnings or errors in the future.
This commit refactors the management of Nix-provided Emacs packages.
Instead of attempting to set EMACS_NIX_PACKAGES via flake.nix's shellHook,
package paths are now hardcoded directly into ~/.emacs.d/init.el.

This change simplifies the Nix configuration and provides direct control
over Emacs package loading within Emacs Lisp, aligning with user preference.

A Change Request (CRQ) and Standard Operating Procedure (SOP) have been
created to document this change and provide guidance on updating the
hardcoded paths when Nix store paths change due to package updates.

Files modified:
- flake.nix: Reverted shellHook changes related to EMACS_NIX_PACKAGES.
- .emacs.d/init.el: Updated to hardcode Nix store paths for Emacs packages
  and require them.
- docs/crq_standardized/hardcoded_emacs_paths.md: New CRQ document.
- docs/sops/update_emacs_hardcoded_paths.md: New SOP document.
This commit introduces the `terlar/emacs-config` repository as a git submodule.
Initial steps include:
- Adding the submodule entry to `.gitmodules`.
- Initializing the submodule.
- Making preliminary modifications to `.emacs.d/init.el` to integrate the new configuration.
- Updating `flake.nix` to reflect potential new dependencies or configurations related to Emacs.
- Adding `launch_emacs_pane.sh` for easier access to the Emacs environment.

Further work is required to fully study and adapt this configuration.
Introduces `launch_nix_emacs.sh` to provide a dedicated Emacs environment
within a new tmux pane. This script leverages `nix develop` for proper
Nix environment integration and launches Emacs without the `-nw` flag.

`shell.nix` has been updated to include `pkgs.emacs` and
`pkgs.emacsPackages.magit` in the `buildInputs` to ensure Emacs and
Magit are available from the Nix environment.
Refines the Emacs launch process to leverage the `terlar-emacs-config`'s
Nix environment, ensuring proper package loading.

- `launch_nix_emacs.sh`: Modified to `cd` into `terlar-emacs-config`
  before running `nix develop`, and removed the unused `EMACS_WINDOW_NAME`
  variable.
- `shell.nix`: Updated with a `shellHook` to dynamically set `EMACSLOADPATH`
  for Nix-provided Emacs packages.
- `.emacs.d/init.el`: Cleaned up by removing outdated hardcoded Nix store paths.

Introduces a headless batch test to verify the Emacs configuration:
- `run_emacs_batch_test.sh`: Shell script to execute the headless test.
- `docs/qa/emacs_batch_test.el`: Emacs Lisp script containing tests for
  Magit, use-package, and Corfu loading.

Documents the Emacs launch and testing procedures:
- `docs/qa/emacs_nix_launch_test_procedure.md`: Details steps for manual
  verification of the Emacs setup.
- `docs/sops/SOP_Launch_Emacs_Nix.md`: Standard Operating Procedure for
  launching Emacs with the Nix-managed configuration.
Updates the `run_emacs_batch_test.sh` script to use `nix run .#` for
launching Emacs, and updates the `terlar-emacs-config` submodule
reference to reflect the change in its `flake.nix` (adding `aarch64-linux`
to supported systems).

Note: The submodule commit for `terlar-emacs-config` was not GPG signed
due to limitations of this environment.
- Updates `docs/sops/SOP_Launch_Emacs_Nix.md` to include instructions for
  automated verification using the headless batch test.
- Adds `docs/crq_standardized/CRQ-060-emacs-nix-integration.md`, documenting
  the problem, solution, impact, and verification of the enhanced Emacs Nix
  integration.
- Creates `docs/tutorials/emacs-nix-noob.md`, a blog post detailing the
  journey of setting up Emacs with Nix for beginners.
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coderabbitai bot commented Sep 12, 2025

Walkthrough

Adds a comprehensive Emacs init file, registers an Emacs config submodule in .gitmodules, expands Cargo workspace members and binaries with a new regex dependency, and introduces numerous CRQ-related documentation artifacts under analysis_data, including PR descriptions and reviewer guides.

Changes

Cohort / File(s) Summary
Emacs configuration
.emacs.d/init.el
New full Emacs initialization configuring startup/GC tuning, UI/perf tweaks, helper utilities/macros, leader-key maps, and language/dev tooling. Adds functions/macros and minor modes as listed.
Emacs submodule setup
.gitmodules, .emacs.d/terlar-emacs-config
Adds submodule entry for terlar-emacs-config in .gitmodules and updates submodule reference.
Rust workspace config
Cargo.toml
Expands [workspace].members with multiple tools/crates; adds regex = "1.0"; declares three binaries: crq-parser-cli, state-word-reporter, ngram-reporter.
CRQ-021 docs
analysis_data/comms/git/CRQ-021/...
Adds auto-generated responses and PR description docs; no code changes.
CRQ-023 docs
analysis_data/comms/git/CRQ-023/...
Adds reviewer guides, code suggestions, PR description; documentation only.
CRQ-024 docs
analysis_data/comms/git/CRQ-024/...
Adds rate-limit notices, reviewer guides, code suggestions, and PR description summarizing large lattice framework (docs only in this diff).
CRQ-34 docs
analysis_data/comms/git/CRQ-34/...
Adds review-skip notices, planning reports, reviewer guides, code suggestions, and PR description; no code changes.
CRQ-35 docs
analysis_data/comms/git/CRQ-35/...
Adds rate-limit notices, reviewer guides, trigger acknowledgments, and code suggestions; documentation.
CRQ-36 docs
analysis_data/comms/git/CRQ-36/...
Adds reviewer guides, trigger acknowledgments, code suggestions, and PR description; documentation only.
CRQ-37 docs
analysis_data/comms/git/CRQ-37/...
Adds rate-limit notices, reviewer guides, code suggestions, and PR description; no code changes.
CRQ-38 docs
analysis_data/comms/git/CRQ-38/...
Adds reviewer guides, rate-limit notices, code suggestions, trigger acknowledgments, and PR description; documentation only.
CRQ-39 docs
analysis_data/comms/git/CRQ-39/...
Adds reviewer guides, rate-limit notices, code suggestions, and trigger acknowledgments; documentation only.

Sequence Diagram(s)

sequenceDiagram
  autonumber
  participant Dev as Developer
  participant FS as Repo (docs/crq/*)
  participant Script as gh_create_crq_branches_prs.sh
  participant Git as Git Remote
  participant GH as GitHub

  Dev->>FS: Add CRQ file (CRQ-XXX-Description.md)
  Dev->>Script: Run script
  Script->>Git: Create branch feature/crq-XXX-description
  Script->>Git: Commit CRQ (if needed) and push
  Script->>GH: Create PR to main with CRQ content
  GH-->>Dev: PR link/status
  note over Script,GH: Idempotent checks for existing branch/PR
Loading
sequenceDiagram
  autonumber
  participant Emacs as Emacs
  participant Init as init.el
  participant GC as Garbage Collector
  participant UI as UI/Frames

  Emacs->>Init: Early init
  Init->>GC: Raise thresholds during startup
  Init->>UI: Disable splash, tool/menu bars, set frame opts
  Init->>Init: Configure packages (use-package, no-littering, gcmh)
  Init->>GC: Restore thresholds post-init
Loading

Estimated code review effort

🎯 3 (Moderate) | ⏱️ ~25 minutes

Poem

A rabbit taps keys in lunar light,
Emacs awake, its fringes slight.
Crates align, new bins take flight,
Regex joins the Cargo night.
CRQs whisper, plans in sight—
Hop, commit, and merge it right. 🐇✨

Pre-merge checks and finishing touches

✅ Passed checks (3 passed)
Check name Status Explanation
Description Check ✅ Passed Check skipped - CodeRabbit’s high-level summary is enabled.
Title Check ✅ Passed The title "Feature/crq 060 emacs config study" accurately references a real part of the changeset (the added Emacs init and submodule), so it is related to the PR, but it is narrower than the PR’s broad multi-crate, tooling, and documentation changes and therefore does not summarize the overall scope.
Docstring Coverage ✅ Passed No functions found in the changes. Docstring coverage check skipped.
✨ Finishing touches
🧪 Generate unit tests
  • Create PR with unit tests
  • Post copyable unit tests in a comment
  • Commit unit tests in branch feature/CRQ-060-emacs-config-study

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PR Reviewer Guide 🔍

Here are some key observations to aid the review process:

⏱️ Estimated effort to review: 4 🔵🔵🔵🔵⚪
🧪 PR contains tests
🔒 No security concerns identified
⚡ Recommended focus areas for review

Parsing/Codegen Bug

The template parser regex appears malformed for literal braces, likely causing a runtime panic, and the code generator uses incorrect placeholders (e.g., "param{{}}" and a fixed "format!" string with mismatched argument count), which would produce non-compiling generated code.

    let re = Regex::new(r"{{\{{(?P<name>[^|]+)(?:\|(?P<params>.*))?}}\}}").unwrap();
    if let Some(caps) = re.captures(input) {
        let name = caps["name"].to_string();
        let params_str = caps.name("params").map_or("", |m| m.as_str());
        let params = if params_str.is_empty() {
            Vec::new()
        } else {
            params_str.split('|').map(|s| s.to_string()).collect()
        };
        Some(TemplateInvocation { name, params })
    } else {
        None
    }
}

pub fn generate_rust_function(invocation: &TemplateInvocation) -> String {
    let fn_name_str = format!("render_{}", invocation.name.to_lowercase().replace(" ", "_"));
    let fn_name = Ident::new(&fn_name_str, proc_macro2::Span::call_site());

    let mut param_declarations = Vec::new();
    let mut param_assignments = Vec::new();
    let mut format_args = Vec::new();

    for (i, param) in invocation.params.iter().enumerate() {
        if param.contains('=') {
            let parts: Vec<&str> = param.splitn(2, '=').collect();
            let param_name_str = parts[0].trim().to_lowercase().replace(" ", "_");
            let param_value_str = parts[1].trim();
            let param_ident = Ident::new(&param_name_str, proc_macro2::Span::call_site());
            param_declarations.push(quote! { #param_ident: &str });
            param_assignments.push(quote! { let #param_ident = #param_value_str; });
            format_args.push(quote! { #param_ident = #param_ident });
        } else {
            // Positional parameter
            let param_name_str = format!("param{{}}", i + 1);
            let param_ident = Ident::new(&param_name_str, proc_macro2::Span::call_site());
            param_declarations.push(quote! { #param_ident: &str });
            param_assignments.push(quote! { let #param_ident = #param_ident; });
            format_args.push(quote! { #param_ident });
        }
    }

    let expanded = quote! {
        pub fn #fn_name(#(#param_declarations),*) -> String {
            format!("Template: {{}} Parameters: {{}}", #(#format_args),*)
        }
    };
Command Output Bug

In generate-commands mode, commands are printed to stdout but never appended to the script buffer; when an output script is requested, only the shebang is written, resulting in an empty script besides the header.

for crq_id in crq_reports.keys().cloned().collect::<Vec<String>>() {
    if let Some(entry) = crq_reports.get(&crq_id) {
        if let NextStep::ReviewSkipped = entry.next_step {
            if let Some(pr_number) = crq_to_pr_map.get(&crq_id) {
                println!("gh pr comment {} -b \"@coderabbitai review\"", pr_number);
            } else {
                eprintln!("Warning: PR number not found for CRQ: {}", crq_id);
            }
        }
    }
}

if let Some(output_path) = args.output_script {
    match fs::File::create(&output_path) {
        Ok(mut file) => {
            for cmd in commands_to_write {
                writeln!(file, "{}", cmd).expect("Could not write command to file");
            }
            // Make the script executable
            let output = Command::new("chmod")
                .arg("+x")
                .arg(&output_path)
                .output()
                .expect("Failed to execute chmod");

            if output.status.success() {
                println!("Commands written to {} and made executable.", output_path.display());
            } else {
                eprintln!("Error making script executable: {}", String::from_utf8_lossy(&output.stderr));
            }
        }
Failing Tests

Tests reference undefined constants (e.g., regex constants for assertions), which will fail to compile; ensure these constants are defined or inline the patterns.

        assert!(Regex::new(RENDER_GREETING_FN_REGEX).unwrap().is_match(&generated_code));
        assert!(Regex::new(GREETING_FORMAT_REGEX).unwrap().is_match(&generated_code));
    }
}

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coderabbitai bot commented Sep 12, 2025

Skipped: Cannot respond to another bot.

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qodo-merge-pro bot commented Sep 12, 2025

PR Code Suggestions ✨

Explore these optional code suggestions:

CategorySuggestion                                                                                                                                    Impact
Possible issue
Fix template parsing regex

The regex incorrectly escapes braces, so valid templates like "{{Name}}" won't
match, breaking parsing and tests. Use a regex that correctly matches
MediaWiki-style double braces. This will ensure both simple and parameterized
templates are recognized.

wikimedia-template-introspector-core/src/lib.rs [10-24]

 pub fn parse_template_invocation(input: &str) -> Option<TemplateInvocation> {
-    let re = Regex::new(r"{{\{{(?P<name>[^|]+)(?:\|(?P<params>.*))?}}\}}").unwrap();
+    // Match {{Name}} or {{Name|param1|key=value}}
+    let re = Regex::new(r"\{\{(?P<name>[^|}]+)(?:\|(?P<params>.*?))?\}\}").unwrap();
     if let Some(caps) = re.captures(input) {
-        let name = caps["name"].to_string();
+        let name = caps["name"].trim().to_string();
         let params_str = caps.name("params").map_or("", |m| m.as_str());
         let params = if params_str.is_empty() {
             Vec::new()
         } else {
-            params_str.split('|').map(|s| s.to_string()).collect()
+            params_str.split('|').map(|s| s.trim().to_string()).collect()
         };
         Some(TemplateInvocation { name, params })
     } else {
         None
     }
 }

[To ensure code accuracy, apply this suggestion manually]

Suggestion importance[1-10]: 8

__

Why: The suggestion correctly identifies a critical bug in the regex for parsing templates, which would fail for all inputs, and provides a corrected regex along with improved trimming of parsed values.

Medium
Fix parameter naming and formatting

The positional parameter name uses "param{}" literally due to escaped braces,
producing invalid identifiers, and the format! string has only two placeholders
regardless of parameter count, causing compile-time errors. Generate correct
param names and a matching format string for all parameters.

wikimedia-template-introspector-core/src/lib.rs [34-58]

 for (i, param) in invocation.params.iter().enumerate() {
     if param.contains('=') {
         let parts: Vec<&str> = param.splitn(2, '=').collect();
-        let param_name_str = parts[0].trim().to_lowercase().replace(" ", "_");
-        let param_value_str = parts[1].trim();
+        let param_name_str = parts[0].trim().to_lowercase().replace(' ', "_");
         let param_ident = Ident::new(&param_name_str, proc_macro2::Span::call_site());
         param_declarations.push(quote! { #param_ident: &str });
-        param_assignments.push(quote! { let #param_ident = #param_value_str; });
-        format_args.push(quote! { #param_ident = #param_ident });
+        format_args.push(quote! { #param_ident });
     } else {
         // Positional parameter
-        let param_name_str = format!("param{{}}", i + 1);
+        let param_name_str = format!("param{}", i + 1);
         let param_ident = Ident::new(&param_name_str, proc_macro2::Span::call_site());
         param_declarations.push(quote! { #param_ident: &str });
-        param_assignments.push(quote! { let #param_ident = #param_ident; });
         format_args.push(quote! { #param_ident });
     }
 }
 
+let format_str_parts: Vec<String> = invocation.params.iter().enumerate().map(|(i, p)| {
+    if p.contains('=') {
+        let key = p.splitn(2, '=').next().unwrap().trim();
+        format!("{} = {{}}", key)
+    } else {
+        format!("param{} = {{}}", i + 1)
+    }
+}).collect();
+
+let format_str = if format_str_parts.is_empty() {
+    format!("Template: {}", invocation.name)
+} else {
+    format!("Template: {} Parameters: {}", invocation.name, format_str_parts.join(", "))
+};
+
 let expanded = quote! {
     pub fn #fn_name(#(#param_declarations),*) -> String {
-        format!("Template: {{}} Parameters: {{}}", #(#format_args),*)
+        format!(#format_str, #(#format_args),*)
     }
 };

[To ensure code accuracy, apply this suggestion manually]

Suggestion importance[1-10]: 8

__

Why: The suggestion correctly identifies that positional parameter names were being generated with literal braces, causing invalid code, and that the format! macro string was incorrect, which would lead to compilation errors.

Medium
Remove extra brace and dedupe checks

There is an extra closing brace at the end of the file which will not compile,
and the nested Wikipedia link checks are duplicated. Merge the conditions into a
single filter and remove the stray brace to restore compilation.

tools/wiki_data_extractor/src/main.rs [28-67]

 for link in article.links {
     println!("  Processing link: {}", link.href);
     if let Ok(url) = base_url.join(&link.href) {
-        if url.domain() == Some("en.wikipedia.org") && url.path().starts_with("/wiki/") && !url.path().contains(":") && !url.path().contains("#") {
-            if url.domain() == Some("en.wikipedia.org") && url.path().starts_with("/wiki/") && !url.path().contains(":") && !url.path().contains("#") &&
-           !url.path().starts_with("/wiki/Special:") &&
-           !url.path().starts_with("/wiki/Wikipedia:") &&
-           !url.path().starts_with("/wiki/File:") &&
-           !url.path().starts_with("/wiki/Category:") &&
-           !url.path().starts_with("/wiki/Template:") &&
-           !url.path().starts_with("/wiki/Help:") &&
-           !url.path().starts_with("/wiki/Portal:") &&
-           !url.path().starts_with("/wiki/Talk:") {
-            let title = url.path().trim_start_matches("/wiki/").replace(" ", "_");
+        if url.domain() == Some("en.wikipedia.org")
+            && url.path().starts_with("/wiki/")
+            && !url.path().contains(':')
+            && !url.path().contains('#')
+            && !url.path().starts_with("/wiki/Special:")
+            && !url.path().starts_with("/wiki/Wikipedia:")
+            && !url.path().starts_with("/wiki/File:")
+            && !url.path().starts_with("/wiki/Category:")
+            && !url.path().starts_with("/wiki/Template:")
+            && !url.path().starts_with("/wiki/Help:")
+            && !url.path().starts_with("/wiki/Portal:")
+            && !url.path().starts_with("/wiki/Talk:")
+        {
+            let title = url.path().trim_start_matches("/wiki/").replace(' ', "_");
             println!("\n  --- Attempting to fetch Wikidata for Wikipedia Link: {} ---", title);
-            let entity_result = fetch_and_cache_wikidata_entity(&client, Some(&title), None).await;
-            match entity_result {
+            match fetch_and_cache_wikidata_entity(&client, Some(&title), None).await {
                 Ok(Some(entity)) => {
                     println!("    Wikidata Entity ID: {}", entity.id);
                     println!("    Wikidata Entity Label: {}", entity.label);
                     println!("    Wikidata Facts (Property: Value):");
                     for fact in entity.facts {
                         println!("      - {}: {}", fact.property, fact.value);
                     }
-                },
+                }
                 Ok(None) => {
                     println!("    No Wikidata entity found for {}", title);
-                },
+                }
                 Err(e) => {
                     eprintln!("    Error fetching Wikidata for {}: {}", title, e);
                 }
             }
         }
     }
 }
 
 Ok(())
 }
-}

[To ensure code accuracy, apply this suggestion manually]

Suggestion importance[1-10]: 8

__

Why: The suggestion correctly identifies a syntax error (an extra closing brace) that would prevent compilation and also points out redundant conditional checks, improving both correctness and code clarity.

Medium
Correct CRQ ID parsing

splitn(2, '-') returns at most two segments, so joining them recreates the
original string and fails to isolate the first two parts. Use split('-').take(2)
to correctly capture "CRQ-XXX".

src/bin/crq-parser-cli.rs [26]

 // Extract CRQ ID from filename (e.g., CRQ-003-...) -> CRQ-003
-let crq_id = file_name.splitn(2, '-').take(2).collect::<Vec<&str>>().join("-");
+let crq_id = file_name.split('-').take(2).collect::<Vec<&str>>().join("-");

[To ensure code accuracy, apply this suggestion manually]

Suggestion importance[1-10]: 8

__

Why: The suggestion correctly identifies a bug where splitn(2, ...) would not correctly parse the CRQ-ID from filenames with more than two parts, and the proposed fix using split is correct and robust.

Medium
Avoid cargo in build script

Invoking cargo from a build script can cause re-entrant builds and break CI.
Call a library function from a build-dependency instead and handle errors
directly to keep the build deterministic.

generated_wiki_templates/build.rs [20-35]

-let output = Command::new("cargo")
-    .arg("run")
-    .arg("-p")
-    .arg("template_function_generator")
-    .arg("--")
-    .arg(template_string)
-    .output()
-    .expect("Failed to execute template_function_generator");
+// Prefer calling into a library exposed by `template_function_generator` as a build-dependency.
+// e.g., in Cargo.toml [build-dependencies]: template_function_generator = { path = "../template_function_generator" }
+let generated_code = template_function_generator::generate_function_from_template(template_string)
+    .unwrap_or_else(|e| {
+        panic!("Failed to generate function for template {}: {}", template_string, e);
+    });
 
-if !output.status.success() {
-    eprintln!("Error generating function for template: {}", template_string);
-    eprintln!("Stderr: {}", String::from_utf8_lossy(&output.stderr));
-    panic!("template_function_generator failed");
-}
-
-let generated_code = String::from_utf8_lossy(&output.stdout);
-

[To ensure code accuracy, apply this suggestion manually]

Suggestion importance[1-10]: 7

__

Why: The suggestion correctly points out that running cargo from a build script is a bad practice that can lead to deadlocks and non-deterministic builds, and proposes a much better architectural approach using a build-dependency.

Medium
Strip trailing punctuation from URLs

Several lines end with punctuation or quotes, producing invalid URLs. Trim
trailing ')', '.', ',', '"', and Markdown suffixes like '
' from URL lines.
This ensures downstream URL consumers won't fail on malformed links.**

extracted_urls.txt [1-122]

-https://facebook.github.io/watchman/)
-https://keepachangelog.com/en/1.0.0/),
-https://semver.org/spec/v2.0.0.html).
-https://www.conventionalcommits.org).
-https://github.com/GitoxideLabs/gitoxide/issues/1703)**
-https://raw.githubusercontent.com/the-lean-crate/cargo-diet/refs/tags/$CARGO_DIET_TAG/ci/install.sh"
-https://youtu.be/JYH5ILv5g1g?si=bHLBPFJiZyRUTl6u&t=211.
+https://facebook.github.io/watchman/
+https://keepachangelog.com/en/1.0.0/
+https://semver.org/spec/v2.0.0.html
+https://www.conventionalcommits.org
+https://github.com/GitoxideLabs/gitoxide/issues/1703
+https://raw.githubusercontent.com/the-lean-crate/cargo-diet/refs/tags/$CARGO_DIET_TAG/ci/install.sh
+https://youtu.be/JYH5ILv5g1g?si=bHLBPFJiZyRUTl6u&t=211
  • Apply / Chat
Suggestion importance[1-10]: 7

__

Why: The suggestion correctly identifies that many URLs in the file have trailing punctuation, making them invalid. Removing these artifacts improves the quality and usability of the data.

Medium
Remove non-URL artifact lines

Remove non-URL artifacts like regex patterns and malformed domains that aren’t
valid absolute URLs. Keeping only valid URLs prevents parsers from erroring and
breaking processing pipelines.

extracted_urls.txt [46-421]

-https://github\.com/([^/:@]+)/([^/:@]+)/discussions/([0-9]+)$
-https://googlesource.com`.
 
+
  • Apply / Chat
Suggestion importance[1-10]: 7

__

Why: The suggestion correctly points out that the file contains lines that are not valid URLs, such as a regex pattern. Removing these lines improves the data quality of the file.

Medium
General
Remove duplicate URL entries

Deduplicate repeated URLs to reduce file size and speed up any processing that
iterates entries. Keep a single instance of each unique, normalized URL while
preserving order where possible.

extracted_urls.txt [2-23]

-https://github.com/GitoxideLabs/gitoxide
 https://github.com/GitoxideLabs/gitoxide
 https://github.com/meta-introspector/submod.git
-https://github.com/meta-introspector/submod.git
-https://facebook.github.io/watchman/)
-https://facebook.github.io/watchman/)
+https://facebook.github.io/watchman/
  • Apply / Chat
Suggestion importance[1-10]: 5

__

Why: The suggestion correctly identifies numerous duplicate URLs in the file. Deduplicating them would improve the file's conciseness and efficiency for any downstream processing.

Low
  • Update

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Actionable comments posted: 16

♻️ Duplicate comments (1)
analysis_data/comms/git/CRQ-34/coderabbitai/responses/001_coderabbitai.md (1)

1-6: Mirror of 001.md — avoid duplicate artifacts.

Prefer a single source (keep this one and remove 001.md, or vice versa) to prevent divergence.

If both must remain, change one messageId (e.g., to "001a") and add a distinct type (e.g., “system-status” vs “skip-banner”).

Comment on lines +146 to +147
(aset buffer-display-table ?^M [?
]))
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⚠️ Potential issue

Broken Lisp vector literal causes init failure.

display-ctrl-M-as-newline builds an invalid display-table entry; the vector is malformed.

Apply:

-  (aset buffer-display-table ?^M [?
-]))
+  (aset buffer-display-table ?^M [?\n]))
📝 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.

Suggested change
(aset buffer-display-table ?^M [?
]))
(aset buffer-display-table ?^M [?\n]))
🤖 Prompt for AI Agents
In .emacs.d/init.el around lines 146-147, the display-table vector literal is
malformed causing init failure; replace the broken vector with a well-formed
vector that maps ^M to a newline character (use a vector containing the newline
character as its single element) and ensure parentheses are balanced so the aset
call is syntactically valid.

Comment on lines +185 to +191
(define-minor-mode hide-fringes-mode
"Toggle hiding of fringes."
:group 'fringe
(if hide-fringes-mode
(set-window-fringes nil 0 0 nil)
(set-window-fringes nil left-fringe-width right-fringe-width t)))

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⚠️ Potential issue

Avoid void variables in hide-fringes-mode.

left-fringe-width/right-fringe-width are undefined. Reset to defaults instead.

 (define-minor-mode hide-fringes-mode
   "Toggle hiding of fringes."
   :group 'fringe
   (if hide-fringes-mode
       (set-window-fringes nil 0 0 nil)
-    (set-window-fringes nil left-fringe-width right-fringe-width t)))
+    (set-window-fringes nil nil nil t)))
📝 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.

Suggested change
(define-minor-mode hide-fringes-mode
"Toggle hiding of fringes."
:group 'fringe
(if hide-fringes-mode
(set-window-fringes nil 0 0 nil)
(set-window-fringes nil left-fringe-width right-fringe-width t)))
(define-minor-mode hide-fringes-mode
"Toggle hiding of fringes."
:group 'fringe
(if hide-fringes-mode
(set-window-fringes nil 0 0 nil)
(set-window-fringes nil nil nil t)))
🤖 Prompt for AI Agents
In .emacs.d/init.el around lines 185-191, hide-fringes-mode references undefined
variables left-fringe-width/right-fringe-width when turning the mode off; change
the off-branch to reset fringes to defaults by passing nil for the left and
right fringe widths (i.e., call set-window-fringes with nil for left and right
so Emacs restores default fringe widths) and keep the outer arg true as before.

"P" 'list-processes
"s" 'screenshot-svg
"S" 'screenshot-png
"x" 'regexp-builder
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⚠️ Potential issue

Use the correct regexp UI: re-builder not regexp-builder.

The current binding points to a non-existent command.

-  "x" 'regexp-builder
+  "x" 're-builder
📝 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.

Suggested change
"x" 'regexp-builder
"x" 're-builder
🤖 Prompt for AI Agents
.emacs.d/init.el around line 302: the keybinding currently references a
non-existent command 'regexp-builder'; replace it with the correct Emacs regexp
UI command 're-builder' by updating the binding target to 're-builder' so the
keybind invokes the proper function.

@@ -0,0 +1 @@
Subproject commit 3c166088ea16e2a39db49830282558a4bee105f7
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💡 Verification agent

🧩 Analysis chain

Verify submodule wiring and CI initialization.

Ensure .gitmodules matches this path/URL and CI clones with submodules initialized.

Run:


🏁 Script executed:

#!/bin/bash
set -euo pipefail

echo "Show .gitmodules:"
cat .gitmodules || true

echo -e "\nValidate submodule path and gitlink file:"
test -f ".emacs.d/terlar-emacs-config" && sed -n '1p' .emacs.d/terlar-emacs-config || echo "gitlink file missing"

echo -e "\nCheck commit exists on remote:"
git ls-remote https://github.com/terlar/emacs-config 3c166088ea16e2a39db49830282558a4bee105f7

echo -e "\nSearch CI for submodule init steps:"
fd -a .github | xargs -I{} bash -lc 'echo "--- {} ---"; rg -n "submodule|--recurse-submodules|gitmodules" -n {} || true'

Length of output: 1082


Add submodule gitlink and ensure CI initializes submodules.

  • .gitmodules already contains: .emacs.d/terlar-emacs-config -> https://github.com/terlar/emacs-config (OK).
  • The repo is missing the gitlink at .emacs.d/terlar-emacs-config — commit the submodule reference (add/commit the gitlink or populated submodule).
  • No CI steps found to initialize submodules; update CI configs (e.g. .github/workflows/*) to run git submodule update --init --recursive or clone with --recurse-submodules.
🤖 Prompt for AI Agents
In .emacs.d/terlar-emacs-config around lines 1-1, the repository is missing the
gitlink for the submodule referenced in .gitmodules and CI does not initialize
submodules; add and commit the submodule pointer by running git submodule add
https://github.com/terlar/emacs-config .emacs.d/terlar-emacs-config (or if
already populated, run git add .emacs.d/terlar-emacs-config && git commit to
record the gitlink), and update CI workflow files (e.g. .github/workflows/*) to
ensure submodules are initialized by adding a step that runs git submodule
update --init --recursive or clone with --recurse-submodules before build/test
steps.

Comment on lines +35 to +53
<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/1/files#diff-fb696df3b164dbf27d0675f9ebdc9ca92581470d9196df21253e038c20ee71e0R64-R75'><strong>Commit Detection Bug</strong></a>

Using 'git diff --quiet "$CRQ_PATH"' misses untracked files, so the CRQ file may not be committed on the new branch. Prefer checking status (e.g., 'git status --porcelain -- "$CRQ_PATH"') or explicitly staging and committing when needed.
</summary>

```shell
# Ensure the CRQ file is committed on this branch
if ! git diff --quiet "$CRQ_PATH"; then
echo "Staging and committing CRQ file '$CRQ_PATH'…"
git add "$CRQ_PATH"
git commit -F "$CRQ_PATH"
if [ $? -ne 0 ]; then
echo "Error: Failed to commit CRQ file '$CRQ_PATH'. Aborting."
exit 1
fi
else
echo "CRQ file '$CRQ_PATH' is already committed on this branch."
fi
```
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⚠️ Potential issue

Snippet still misses untracked files; fix commit detection.

Using only ‘git diff --quiet’ won’t catch untracked CRQ docs. Switch to porcelain status (or ls-files) and commit when needed.

-# Ensure the CRQ file is committed on this branch
-if ! git diff --quiet "$CRQ_PATH"; then
-    echo "Staging and committing CRQ file '$CRQ_PATH'…"
-    git add "$CRQ_PATH"
-    git commit -F "$CRQ_PATH"
+ # Ensure the CRQ file is committed on this branch (handles untracked/modified)
+ if git status --porcelain -- "$CRQ_PATH" | grep -qE '^\?\?|^ M|^M '; then
+     echo "Staging and committing CRQ file '$CRQ_PATH'…"
+     git add -- "$CRQ_PATH"
+     git commit -F "$CRQ_PATH"
     if [ $? -ne 0 ]; then
         echo "Error: Failed to commit CRQ file '$CRQ_PATH'. Aborting."
         exit 1
     fi
 else
     echo "CRQ file '$CRQ_PATH' is already committed on this branch."
 fi
📝 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.

Suggested change
<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/1/files#diff-fb696df3b164dbf27d0675f9ebdc9ca92581470d9196df21253e038c20ee71e0R64-R75'><strong>Commit Detection Bug</strong></a>
Using 'git diff --quiet "$CRQ_PATH"' misses untracked files, so the CRQ file may not be committed on the new branch. Prefer checking status (e.g., 'git status --porcelain -- "$CRQ_PATH"') or explicitly staging and committing when needed.
</summary>
```shell
# Ensure the CRQ file is committed on this branch
if ! git diff --quiet "$CRQ_PATH"; then
echo "Staging and committing CRQ file '$CRQ_PATH'…"
git add "$CRQ_PATH"
git commit -F "$CRQ_PATH"
if [ $? -ne 0 ]; then
echo "Error: Failed to commit CRQ file '$CRQ_PATH'. Aborting."
exit 1
fi
else
echo "CRQ file '$CRQ_PATH' is already committed on this branch."
fi
```
# Ensure the CRQ file is committed on this branch (handles untracked/modified)
if git status --porcelain -- "$CRQ_PATH" | grep -qE '^\?\?|^ M|^M '; then
echo "Staging and committing CRQ file '$CRQ_PATH'…"
git add -- "$CRQ_PATH"
git commit -F "$CRQ_PATH"
if [ $? -ne 0 ]; then
echo "Error: Failed to commit CRQ file '$CRQ_PATH'. Aborting."
exit 1
fi
else
echo "CRQ file '$CRQ_PATH' is already committed on this branch."
fi
🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-021/coderabbitai/responses/002.md around lines 35
to 53, the commit-detection snippet relies on "git diff --quiet" which misses
untracked CRQ files; replace that check with a porcelain status or ls-files
check (for example, use "git status --porcelain -- <path>" or "git ls-files
--others --exclude-standard -- <path>") to detect untracked/modified state, and
when the file is untracked or changed, explicitly git add the CRQ file and git
commit it (handling non-zero exit codes) so the CRQ is guaranteed committed on
the branch.

Comment on lines +18 to +27
<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/20/files#diff-d4b10dc90da2ebd2e54c216c08faf398915f797cc4bf2e94185cd40832762c62R208-R209'><strong>Compile Error</strong></a>

The `main` function returns `Ok(())` but is declared to return `()`. Change the signature to return `Result<(), Box<dyn std::error::Error>>` or remove the `Ok(())` to avoid a type mismatch at compile time.
</summary>

```rust
Ok(())
}

```
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💡 Verification agent

🧩 Analysis chain

Links point to PR #20; verify/update for PR #24 or make them repository-relative

These anchors reference a different PR and will confuse reviewers of PR #24. Replace with stable permalinks for the relevant commit in this repo or adjust to this PR’s file paths.

-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/20/files#diff-d4b10d...R208-R209'><strong>Compile Error</strong></a>
+<details><summary><a href='../../../../../../pull/24/files#diff-d4b10d...R208-R209'><strong>Compile Error</strong></a>
@@
-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/20/files#diff-d4b10d...R182-R187'><strong>Possible Panic</strong></a>
+<details><summary><a href='../../../../../../pull/24/files#diff-d4b10d...R182-R187'><strong>Possible Panic</strong></a>
@@
-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/20/files#diff-243854...R119-R124'><strong>API Misuse</strong></a>
+<details><summary><a href='../../../../../../pull/24/files#diff-243854...R119-R124'><strong>API Misuse</strong></a>

Scan for hardcoded “pull/20” links:

Also applies to: 31-46, 48-66


🏁 Script executed:

#!/bin/bash
rg -n "pull/20" analysis_data/comms/git/CRQ-37

Length of output: 32839


Update hardcoded "pull/20" links to point at PR #24 or use repository-relative/commit permalinks

rg found multiple "pull/20" occurrences in analysis_data/comms/git/CRQ-37/pr_description.md and analysis_data/comms/git/CRQ-37/coderabbitai/responses/*.md — replace those links so reviewers of PR #24 aren’t misdirected.

🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-37/coderabbitai/responses/002.md around lines 18
to 27, the review text contains hardcoded "pull/20" links that misdirect
reviewers of PR #24; search the repo for all occurrences of "pull/20" (notably
in analysis_data/comms/git/CRQ-37/pr_description.md and
analysis_data/comms/git/CRQ-37/coderabbitai/responses/*.md) and update them to
the correct PR number (pull/24) or, better, replace with repository-relative or
commit-permalink URLs that won't break for future PR renumbers; verify each
modified link resolves correctly and run a quick grep to ensure no remaining
"pull/20" instances.

Comment on lines +20 to +25
<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148'><strong>Build Break</strong></a>

File content is wrapped in triple quotes, making it an invalid Rust source file and preventing compilation. Remove the quotes and convert it to valid Rust code.
</summary>

```rust
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⚠️ Potential issue

Update links to point to this PR (#24), not PR #19.
Current anchors lead reviewers to a different PR, causing confusion.

-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148'><strong>Build Break</strong></a>
+<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148'><strong>Build Break</strong></a>
@@
-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR108-R133'><strong>Possible Issue</strong></a>
+<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR108-R133'><strong>Possible Issue</strong></a>
@@
-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-d4b10dc90da2ebd2e54c216c08faf398915f797cc4bf2e94185cd40832762c62R136-R209'><strong>Build Break</strong></a>
+<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-d4b10dc90da2ebd2e54c216c08faf398915f797cc4bf2e94185cd40832762c62R136-R209'><strong>Build Break</strong></a>

Also applies to: 179-184, 216-220

🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-38/coderabbitai/responses/001.md around lines
20-25 (and also update occurrences at 179-184 and 216-220), the anchor URLs and
PR references incorrectly point to PR #19; edit the markdown so those links
reference PR #24 instead (replace “#19” with “#24” in the hrefs and visible
anchors), and ensure the referenced anchor paths match the intended PR number
consistently across the file.

Comment on lines +121 to +124
[lattice_code_generator/src/lib.rs [110-133]](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR110-R133)

```diff
pub struct LatticeLayer<T: HasValueCount + std::fmt::Debug> {
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⚠️ Potential issue

Point links at this PR (#24) instead of PR #19.
Multiple anchors reference a different PR, breaking reviewer navigation.

-[lattice_code_generator/src/lib.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR110-R133)
+[lattice_code_generator/src/lib.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR110-R133)
@@
-[src/lib.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-b1a35a68f14e696205874893c07fd24fdb88882b47c23cc0e0c80a30c7d53759R27-R29)
+[src/lib.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-b1a35a68f14e696205874893c07fd24fdb88882b47c23cc0e0c80a30c7d53759R27-R29)
@@
-[src/grand_unified_search.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148)
+[src/grand_unified_search.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148)
@@
-[generated_lattice_code/value_type.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-4534ce506bbc5e0a512da2a9f61948dc44575940029777e3be9fa6f1ce706735R1-R1)
+[generated_lattice_code/value_type.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-4534ce506bbc5e0a512da2a9f61948dc44575940029777e3be9fa6f1ce706735R1-R1)
@@
-[generated_lattice_code/lattice_layer_struct.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-0aacd04a7a621f806b54ffa94092f874682700841e03474720504945ec824126R1-R1)
+[generated_lattice_code/lattice_layer_struct.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-0aacd04a7a621f806b54ffa94092f874682700841e03474720504945ec824126R1-R1)
@@
-[submodule-collector/tests/main_execution_test.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-f0ca198a718b31ebcb98cfb1b258adf263175cf536d8c8883def9223df093fdbR6-R6)
+[submodule-collector/tests/main_execution_test.rs ...](https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-f0ca198a718b31ebcb98cfb1b258adf263175cf536d8c8883def9223df093fdbR6-R6)

Also applies to: 175-184, 210-218, 244-289, 314-322, 379-384

Comment on lines +3 to +5
messageId: "001"
timestamp: "2025-09-11T19:02:01Z"
author: "coderabbitai"
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💡 Verification agent

🧩 Analysis chain

Consolidate with analysis_data/.../responses/001.md

Two near-identical “001” documents exist. Keep a single canonical record or differentiate purpose via messageId and title.


🏁 Script executed:

#!/bin/bash
set -euo pipefail

echo "Searching for response files named '*001*' under analysis_data..."
find analysis_data -type f -path '*/responses/*' -iname '*001*' -print || true

echo
echo "Searching for any 'responses/001.md' files..."
find analysis_data -type f -path '*/responses/001.md' -print || true

echo
echo "Searching for files containing messageId: \"001\" ..."
rg -n --hidden --no-ignore 'messageId:\s*"001"' || true

A="analysis_data/comms/git/CRQ-39/coderabbitai/responses/001_coderabbitai.md"
B="analysis_data/comms/git/CRQ-39/coderabbitai/responses/001.md"

echo
for f in "$A" "$B"; do
  if [ -f "$f" ]; then
    echo "----- SHOW: $f -----"
    sed -n '1,80p' "$f" || true
    echo "MD5:" $(md5sum "$f" | awk '{print $1}') || true
    echo
  else
    echo "MISSING: $f"
    echo
  fi
done

if [ -f "$A" ] && [ -f "$B" ]; then
  echo "Comparing files..."
  if cmp -s "$A" "$B"; then
    echo "RESULT: files are IDENTICAL"
  else
    echo "RESULT: files differ — unified diff:"
    diff -u "$A" "$B" || true
  fi
fi

echo
echo "Count of '*001*' files under responses:"
find analysis_data -type f -path '*/responses/*' -iname '*001*' | wc -l || true

Length of output: 19791


Consolidate duplicate response files (responses/001.md vs responses/001_coderabbitai.md)

Multiple CRQ folders contain both responses/001.md and responses/001_coderabbitai.md (69 matches). Keep one canonical record per CRQ or differentiate purpose by assigning unique messageId/title (e.g. analysis_data/comms/git/CRQ-39/coderabbitai/responses/001.md ↔ .../001_coderabbitai.md).

🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-39/coderabbitai/responses/001_coderabbitai.md
around lines 3 to 5, there is a duplicate response file corresponding to
responses/001.md; remove the duplication by consolidating into a single
canonical file or rename to a clearly distinct messageId/title (e.g., move
contents into responses/001.md and delete this file, or update messageId and
filename to a unique value and update any references), then run a
repository-wide check to ensure there are no remaining conflicting duplicates
and update any links or indexes that referenced the old filename.

Comment on lines +3 to +5
messageId: "001"
timestamp: "2025-09-11T19:02:01Z"
author: "coderabbitai"
Copy link

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💡 Verification agent

🧩 Analysis chain

Duplicate messageId “001” across files

This file and 001_coderabbitai.md both use messageId "001". If tooling relies on uniqueness, collisions will occur. Rename one or adjust IDs.


🏁 Script executed:

#!/bin/bash
set -euo pipefail
echo "Searching for messageId occurrences under analysis_data..."
python - <<'PY'
import os,re,sys
pat = re.compile(r'messageId\s*:\s*["\']([^"\']+)["\']')
matches={}
for root,dirs,files in os.walk('.'):
    # skip common heavy dirs
    if '.git' in root or 'node_modules' in root:
        continue
    for f in files:
        path = os.path.join(root,f)
        if not path.startswith('./analysis_data') and not path.startswith('analysis_data'):
            continue
        try:
            with open(path,'r',encoding='utf-8') as fh:
                text = fh.read()
        except Exception:
            continue
        for m in pat.finditer(text):
            id = m.group(1)
            matches.setdefault(id,[]).append(path.lstrip('./'))
if not matches:
    print("No messageId occurrences found under analysis_data.")
    sys.exit(0)
for id, paths in sorted(matches.items()):
    print(f"messageId: {id} -> {len(paths)} file(s)")
    for p in paths:
        print("  -", p)
PY

Length of output: 23574


Duplicate messageId "001" across many response files — action required

messageId "001" is present in 69 files under analysis_data (e.g. analysis_data/comms/git/CRQ-39/coderabbitai/responses/001.md and analysis_data/comms/git/CRQ-39/coderabbitai/responses/001_coderabbitai.md). Tooling that requires unique IDs will collide — make IDs globally unique (include CRQ number/author or a UUID) or deduplicate/rename the files.

🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-39/coderabbitai/responses/001.md around lines 3
to 5, the messageId "001" is duplicated across many response files which will
cause collisions in tooling; update the ID to be globally unique (for example by
appending the CRQ number and author or replacing with a UUID) or rename the file
to a unique name, then update any references that consume this messageId
accordingly; apply the same deterministic renaming to all other duplicate files
(e.g., include CRQ-39_coderabbitai_001 or a generated UUID) and run a quick
validation script to ensure no duplicate IDs remain.

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Actionable comments posted: 9

♻️ Duplicate comments (20)
analysis_data/comms/git/CRQ-024/pr_description.md (2)

5-6: Scope mismatch—retitle or split (matches an earlier review).

Title says “New SOPs…”, yet the body enumerates a large lattice framework, tools, generated artifacts, and docs. Either (A) keep this CRQ strictly to the two SOPs and move the rest to dedicated PR(s), or (B) retitle to reflect the full enhancement scope and adjust PR type.

Apply if choosing (B):

-title: "CRQ-024: New SOPs for CRQ-Driven Development"
+title: "CRQ-024: Lattice framework, tools, and SOPs"

 ### **PR Type**
-Enhancement, Documentation
+Feature, Enhancement, Documentation

Also applies to: 55-67


1178-1194: Do not commit generated code, massive JSONs, or 34k‑line DOT graphs (matches an earlier review).

Move generated_lattice_/, submodule_report*.json, and devshell_graph.dot to CI artifacts or releases; add ignores. Keeps repo lean and avoids churn.

Add ignores:

+# .gitignore
+# Generated lattice artifacts
+generated_lattice_code/
+generated_lattice_structure/
+
+# Large reports/graphs
+submodule_report*.json
+devshell_graph.dot
+**/*.dot

Optional: publish via CI artifact

# .github/workflows/build.yml (excerpt)
- name: Upload reports
  uses: actions/upload-artifact@v4
  with:
    name: crq-024-artifacts
    path: |
      submodule_report*.json
      devshell_graph.dot
      generated_lattice_*/

Also applies to: 1815-1817, 1833-1835, 880-910

analysis_data/comms/git/CRQ-37/coderabbitai/responses/002.md (1)

18-66: Hardcoded PR #20 links — update to PR #24 or use repository-relative/commit permalinks.

This mirrors a prior comment; still applicable here. Replace “pull/20” in these anchors to avoid misdirecting reviewers.

Quick check to find remaining occurrences:

#!/bin/bash
rg -n "pull/20" analysis_data/comms/git/CRQ-37

Interim diff for this file:

-<a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/20/files#diff-d4b10d...'>
+<a href='../../../../../../pull/24/files#diff-d4b10d...'>
.emacs.d/terlar-emacs-config (1)

1-1: Ensure CI initializes submodules and verify remote commit presence

Add/verify CI steps to fetch submodules recursively and confirm the pinned commit exists on the remote. Includes a quick verification script.

#!/bin/bash
set -euo pipefail

echo "Show .gitmodules:"
cat .gitmodules || true

echo -e "\nVerify submodule entries:"
git config -f .gitmodules --get-regexp '^submodule\..*\.(path|url)' || true

echo -e "\nConfirm gitlink in tree (expects mode 160000):"
git ls-tree -d HEAD .emacs.d/terlar-emacs-config || true

echo -e "\nCheck commit exists on remote:"
git ls-remote https://github.com/terlar/emacs-config 397c1e795e4a84458609e4f42ef4b1f4e02f4afb || true

echo -e "\nSearch CI for submodule init:"
fd -a .github | xargs -I{} bash -lc 'echo "--- {} ---"; rg -n "submodule|--recurse-submodules|gitmodules" {} || true'

Example (GitHub Actions) step if missing:

- uses: actions/checkout@v4
  with:
    submodules: recursive
    fetch-depth: 0
# or, if not using checkout’s built-in:
- run: git submodule update --init --recursive
analysis_data/comms/git/CRQ-021/coderabbitai/responses/002.md (1)

41-53: Commit detection must handle untracked files.

Replace diff-only check with porcelain status so untracked CRQ docs are committed.

-# Ensure the CRQ file is committed on this branch
-if ! git diff --quiet "$CRQ_PATH"; then
-    echo "Staging and committing CRQ file '$CRQ_PATH'…"
-    git add "$CRQ_PATH"
-    git commit -F "$CRQ_PATH"
+# Ensure the CRQ file is committed on this branch (handles untracked/modified)
+if git status --porcelain -- "$CRQ_PATH" | grep -qE '^\?\?|^ M|^M '; then
+    echo "Staging and committing CRQ file '$CRQ_PATH'…"
+    git add -- "$CRQ_PATH"
+    git commit -F "$CRQ_PATH"
     if [ $? -ne 0 ]; then
         echo "Error: Failed to commit CRQ file '$CRQ_PATH'. Aborting."
         exit 1
     fi
 else
     echo "CRQ file '$CRQ_PATH' is already committed on this branch."
 fi
.emacs.d/init.el (3)

142-147: Fix malformed display-table vector for ^M.

Broken vector causes init failure; map to newline.

 (defun display-ctrl-M-as-newline ()
   "Display `^M' as newline."
   (interactive)
   (setq buffer-display-table (make-display-table))
-  (aset buffer-display-table ?^M [?
-]))
+  (aset buffer-display-table ?^M [?\n]))

185-191: Reset fringes to defaults when disabling.

Avoid void variables; let Emacs restore defaults.

 (define-minor-mode hide-fringes-mode
   "Toggle hiding of fringes."
   :group 'fringe
   (if hide-fringes-mode
       (set-window-fringes nil 0 0 nil)
-    (set-window-fringes nil left-fringe-width right-fringe-width t)))
+    (set-window-fringes nil nil nil t)))

294-304: Use the correct regexp UI command.

Bind to re-builder; current symbol doesn’t exist.

   "S" 'screenshot-png
-  "x" 'regexp-builder
+  "x" 're-builder
   "w" 'eww)
analysis_data/comms/git/CRQ-39/coderabbitai/responses/001_coderabbitai.md (1)

3-6: Consolidate duplicate “001” artifacts.

There’s already guidance to merge 001 vs 001_coderabbitai variants; keep one canonical record or differentiate via messageId/title.

analysis_data/comms/git/CRQ-36/coderabbitai/responses/002.md (1)

18-21: Fix hard-coded PR #21 anchors; use repo-relative links or PR #24.

Current links misdirect reviewers.

-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/21/files#diff-e53dfbfffe62ae3c0b411b3938ccffa9fb6a2ecc565f55785ef8daa756631a6bR1-R1'><strong>Formatting Issue</strong></a>
+<details><summary><a href='files#diff-e53dfbfffe62ae3c0b411b3938ccffa9fb6a2ecc565f55785ef8daa756631a6bR1-R1'><strong>Formatting Issue</strong></a>

-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/21/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R1'><strong>Syntax Error</strong></a>
+<details><summary><a href='files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R1'><strong>Syntax Error</strong></a>

-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/21/files#diff-206b9ce276ab5971a2489d75eb1b12999d4bf3843b7988cbe8d687cfde61dea0R115-R125'><strong>Missing Dependencies</strong></a>
+<details><summary><a href='files#diff-206b9ce276ab5971a2489d75eb1b12999d4bf3843b7988cbe8d687cfde61dea0R115-R125'><strong>Missing Dependencies</strong></a>

Also applies to: 30-33, 42-46

analysis_data/comms/git/CRQ-34/coderabbitai/responses/001.md (1)

3-3: De-duplicate messageId across CRQ-34 response files

This file and 001_coderabbitai.md both use “001”; make it unique.

-messageId: "001"
+messageId: "CRQ-34_coderabbitai_001"

Run to find any remaining duplicate messageIds under analysis_data:

#!/bin/bash
set -euo pipefail
python - <<'PY'
import os,re,collections
pat=re.compile(r'^\s*messageId\s*:\s*["\']([^"\']+)["\']\s*$',re.M)
hits=collections.defaultdict(list)
for root,_,files in os.walk('analysis_data'):
    for f in files:
        p=os.path.join(root,f)
        try:
            t=open(p,'r',encoding='utf-8',errors='ignore').read()
        except Exception:
            continue
        for m in pat.finditer(t):
            hits[m.group(1)].append(p)
dups={k:v for k,v in hits.items() if len(v)>1}
print("OK: no duplicates" if not dups else "\n".join([f"{k} -> {len(v)}\n  "+"\n  ".join(v) for k,v in sorted(dups.items())]))
PY
analysis_data/comms/git/CRQ-34/coderabbitai/responses/001_coderabbitai.md (1)

3-3: Ensure messageId uniqueness

Avoid collisions with 001.md by namespacing the ID.

-messageId: "001"
+messageId: "CRQ-34_coderabbitai_001_alt"
analysis_data/comms/git/CRQ-39/coderabbitai/responses/001.md (1)

3-3: Duplicate messageId with 001_coderabbitai.md

Standardize on a CRQ-scoped ID.

-messageId: "001"
+messageId: "CRQ-39_coderabbitai_001"
analysis_data/comms/git/CRQ-38/coderabbitai/responses/001.md (1)

20-25: Update PR links to point to this PR (#24)

Anchors currently reference PR #19; switch to #24.

-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148'><strong>Build Break</strong></a>
+<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-b8a48c02f53b75052bc23d20df7488207a5b86d7815d3fb29ef0b8b985553ab1R1-R148'><strong>Build Break</strong></a>
@@
-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR108-R133'><strong>Possible Issue</strong></a>
+<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-243854d89636db85a935fa955ee16fa44ea3ca7092902bc29701c3a825b0ba0aR108-R133'><strong>Possible Issue</strong></a>
@@
-<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/19/files#diff-d4b10dc90da2ebd2e54c216c08faf398915f797cc4bf2e94185cd40832762c62R136-R209'><strong>Build Break</strong></a>
+<details><summary><a href='https://github.com/meta-introspector/git-submodules-rs-nix/pull/24/files#diff-d4b10dc90da2ebd2e54c216c08faf398915f797cc4bf2e94185cd40832762c62R136-R209'><strong>Build Break</strong></a>

Also applies to: 179-184, 216-220

analysis_data/comms/git/CRQ-34/coderabbitai/responses/003.md (1)

31-41: Replace external PR #21 diff anchors with stable references.

Same issue as prior reviews; use repo-relative paths or textual file/line refs.

Apply:

-https://github.com/meta-introspector/git-submodules-rs-nix/pull/21/files#diff-...
+src/<path>/<file>.rs [start-end]

Also applies to: 121-136, 160-173, 198-228, 249-263

analysis_data/comms/git/CRQ-36/coderabbitai/responses/003.md (1)

31-41: Fix broken anchors to PR #21.

Update to repo-relative references or this PR’s context. Prior feedback already flagged this.

Also applies to: 121-136, 157-173, 193-228, 249-263

analysis_data/comms/git/CRQ-38/coderabbitai/responses/002.md (1)

31-41: Point links at PR #24 or make them repo-relative.

Current anchors target PR #19; navigation breaks.

Apply:

-/pull/19/files#diff-
+/pull/24/files#diff-

Or replace with repo-relative file/line text.

Also applies to: 38-41, 121-124, 175-184, 210-218, 244-289, 314-322, 379-384

analysis_data/comms/git/CRQ-36/pr_description.md (1)

1-9: Front matter points to PR #21; retarget to this PR (#24).

Mirror earlier suggestion; keeps metadata accurate.

 crq: "CRQ-36"
-messageId: "21"
+messageId: "24"
 timestamp: "2025-09-11T19:02:41Z"
-title: "CRQ-36: crq 005 strategic alignment"
+title: "CRQ-36: Strategic alignment (crq 005)"
 author: "jmikedupont2"
-url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/21"
+url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/24"
 baseBranch: "main"
analysis_data/comms/git/CRQ-34/pr_description.md (1)

1-9: Metadata references PR #23; update to PR #24 or add provenance.

Choose either retarget or explicit “imported from PR 23” fields.

Option A:

-messageId: "23"
-url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/23"
+messageId: "24"
+url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/24"

Option B:

+sourcePrNumber: 23
+importedInPrNumber: 24
+importedInPrUrl: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/24"
analysis_data/comms/git/CRQ-34/coderabbitai/responses/002.md (1)

1-58: Same as earlier for this file: replace PR-anchored links and verify generator/test alignment.

See prior comments for this path.

Comment on lines +14 to +16
;; Assuming init-file-debug is not set, so verbose is nil and expand-minimally is t
(setq use-package-verbose nil
use-package-expand-minimally t)
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⚠️ Potential issue

Define init-file-debug to avoid void-variable errors.

It’s referenced in quiet! and gcmh settings but never defined.

 ;; Assuming init-file-debug is not set, so verbose is nil and expand-minimally is t
+(defvar init-file-debug nil
+  "Enable verbose init logging and messages during startup.")
 (setq use-package-verbose nil
       use-package-expand-minimally t)

Also applies to: 117-123, 103-106

🤖 Prompt for AI Agents
.emacs.d/init.el around lines 14-16 (also apply same change at 103-106 and
117-123): define the variable init-file-debug before it is referenced to avoid
void-variable errors by adding a top-level declaration like (defvar
init-file-debug nil "Non-nil to enable init-file debug messages.") or wrap uses
with (boundp) checks; ensure the defvar appears early in the init file so quiet!
and gcmh settings can safely reference it.

Comment on lines +49 to +53
(push '(undecorated . t) default-frame-alist)
(push '(menu-bar-lines . 0) default-frame-alist)
(push '(tool-bar-lines . 0) default-frame-alist)
(push '(vertical-scroll-bars) default-frame-alist)

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🛠️ Refactor suggestion

Fix default-frame-alist entry for vertical scroll bars.

Alist entries must be cons cells.

-(push '(vertical-scroll-bars) default-frame-alist)
+(push '(vertical-scroll-bars . nil) default-frame-alist)
📝 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.

Suggested change
(push '(undecorated . t) default-frame-alist)
(push '(menu-bar-lines . 0) default-frame-alist)
(push '(tool-bar-lines . 0) default-frame-alist)
(push '(vertical-scroll-bars) default-frame-alist)
(push '(undecorated . t) default-frame-alist)
(push '(menu-bar-lines . 0) default-frame-alist)
(push '(tool-bar-lines . 0) default-frame-alist)
(push '(vertical-scroll-bars . nil) default-frame-alist)
🤖 Prompt for AI Agents
In .emacs.d/init.el around lines 49 to 53, the default-frame-alist entry for
vertical scroll bars is currently a list rather than a cons cell; replace that
push with one that adds a cons cell pairing vertical-scroll-bars with the
desired value (e.g. nil to disable) so it matches the alist format used by the
other entries.

Comment on lines +172 to +184
(defun send-buffer-to-ssh ()
"Send the whole buffer to the *ssh* process."
(interactive)
(process-send-region "*ssh*" (point-min) (point-max)))

(defun send-to-ssh ()
"Send selected region or current line to the *ssh* process."
(interactive)
(let ((procbuf "*ssh*"))
(if (use-region-p)
(process-send-region procbuf (region-beginning) (region-end))
(process-send-string procbuf (thing-at-point 'line t)))))

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🛠️ Refactor suggestion

Check ssh process exists before sending.

Avoid errors when ssh isn’t running.

 (defun send-buffer-to-ssh ()
   "Send the whole buffer to the *ssh* process."
   (interactive)
-  (process-send-region "*ssh*" (point-min) (point-max)))
+  (let ((proc (get-process "ssh")))
+    (unless (and proc (process-live-p proc))
+      (user-error "Process *ssh* not running"))
+    (process-send-region proc (point-min) (point-max))))
 
 (defun send-to-ssh ()
   "Send selected region or current line to the *ssh* process."
   (interactive)
-  (let ((procbuf "*ssh*"))
-    (if (use-region-p)
-        (process-send-region procbuf (region-beginning) (region-end))
-      (process-send-string procbuf (thing-at-point 'line t)))))
+  (let ((proc (get-process "ssh")))
+    (unless (and proc (process-live-p proc))
+      (user-error "Process *ssh* not running"))
+    (if (use-region-p)
+        (process-send-region proc (region-beginning) (region-end))
+      (process-send-string proc (thing-at-point 'line t)))))
📝 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.

Suggested change
(defun send-buffer-to-ssh ()
"Send the whole buffer to the *ssh* process."
(interactive)
(process-send-region "*ssh*" (point-min) (point-max)))
(defun send-to-ssh ()
"Send selected region or current line to the *ssh* process."
(interactive)
(let ((procbuf "*ssh*"))
(if (use-region-p)
(process-send-region procbuf (region-beginning) (region-end))
(process-send-string procbuf (thing-at-point 'line t)))))
(defun send-buffer-to-ssh ()
"Send the whole buffer to the *ssh* process."
(interactive)
(let ((proc (get-process "ssh")))
(unless (and proc (process-live-p proc))
(user-error "Process *ssh* not running"))
(process-send-region proc (point-min) (point-max))))
(defun send-to-ssh ()
"Send selected region or current line to the *ssh* process."
(interactive)
(let ((proc (get-process "ssh")))
(unless (and proc (process-live-p proc))
(user-error "Process *ssh* not running"))
(if (use-region-p)
(process-send-region proc (region-beginning) (region-end))
(process-send-string proc (thing-at-point 'line t)))))
🤖 Prompt for AI Agents
In .emacs.d/init.el around lines 172 to 184, the functions send-buffer-to-ssh
and send-to-ssh assume the *ssh* process exists and will error if it does not;
update both functions to check for the process first (use get-process with the
process name or get-buffer-process on (get-buffer "*ssh*")), and if the process
is nil call message (or display a user-facing warning) and return early; only
call process-send-region or process-send-string when the process is non-nil so
the functions fail gracefully when *ssh* isn’t running.

Comment on lines +276 to +293
(defvar-keymap toggle-map
:doc "Keymap for toggle key sequences."
:prefix 'toggle-map-prefix
"*" '("Light/Dark theme" . toggle-theme-mode)
"c" '("Changes" . highlight-changes-mode)
"d" '("Debug on error" . toggle-debug-on-error)
"f" '("Code folding" . hs-minor-mode)
"F" '("Follow" . follow-mode)
;; Group together as one mode?
"g" '("Sub-word" . subword-mode)
"G" '("Readable camelCase" . glasses-mode)
"h" '("Line highlight" . hl-line-mode)
"l" '("Line numbers" . global-display-line-numbers-mode)
"t" '("Truncate lines" . toggle-truncate-lines)
"V" '("Variable-pitch" . variable-pitch-mode)
"w" '("White-space" . whitespace-mode)
"x" '("Syntax checker" . flymake-mode))

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💡 Verification agent

🧩 Analysis chain

Verify toggle-theme-mode exists or bind to a known toggle.

Prevent dead keybinding.

Would you like me to wire this to modus-themes-toggle (if you use Modus) or provide a simple wrapper around load-theme?


🏁 Script executed:

#!/bin/bash
# Search for a definition or alias of toggle-theme-mode outside init.el
rg -nP '^\s*(def(un|alias)\s+toggle-theme-mode\b' -g '!**/.emacs.d/init.el'

Length of output: 72


🏁 Script executed:

#!/bin/bash
set -euo pipefail

echo "cwd: $(pwd)"
if ! command -v rg >/dev/null 2>&1; then
  echo "rg not found in environment; aborting search."
  exit 0
fi

echo
echo "=== occurrences of 'toggle-theme-mode' ==="
rg -n --hidden -S "toggle-theme-mode" || true

echo
echo "=== literal defun/defalias for toggle-theme-mode ==="
rg -n --hidden -F "(defun toggle-theme-mode" || true
rg -n --hidden -F "(defalias 'toggle-theme-mode" || true

echo
echo "=== occurrences of 'toggle-theme' (broader search) ==="
rg -n --hidden -S "toggle-theme" || true

echo
echo "=== occurrences of 'modus-themes-toggle' ==="
rg -n --hidden -S "modus-themes-toggle" || true

echo
echo "=== occurrences of 'load-theme' ==="
rg -n --hidden -S "load-theme" || true

echo
echo "=== Show .emacs.d/init.el around the keymap if present ==="
if [ -f ".emacs.d/init.el" ]; then
  echo "----- .emacs.d/init.el (lines 250-320) -----"
  sed -n '250,320p' .emacs.d/init.el || true
else
  echo ".emacs.d/init.el not found in repo root"
fi

Length of output: 2713


Define or replace toggle-theme-mode

toggle-theme-mode is referenced only at .emacs.d/init.el:279 (the "*" binding in toggle-map) and has no definition elsewhere — this creates a dead keybinding. Either define toggle-theme-mode (wrap load-theme to toggle your chosen light/dark themes) or rebind the key to a known command (e.g., modus-themes-toggle if you use Modus).

🤖 Prompt for AI Agents
.emacs.d/init.el around lines 276 to 293: the toggle-map binds "*" to
toggle-theme-mode but that function is not defined, leaving a dead keybinding;
either implement a small interactive toggle-theme-mode that remembers or detects
the current theme and switches between your chosen light and dark themes by
disabling the current theme(s) and loading the alternate theme, or change the
binding to an existing toggle command you already use (e.g.,
modus-themes-toggle); update the file to add the interactive function (with
clear names for your light/dark theme variables) or replace the "*" mapping to
the known command so the key actually toggles themes.

Comment on lines +25 to +31
CRQ_NUMBER=$(echo "$FILENAME" | sed -n 's/CRQ-\\([0-9]*\\)-.*\\.md/\\1/p')
CRQ_DESCRIPTION=$(echo "$FILENAME" | sed -n 's/CRQ-[0-9]*-(\\ా.*\\)\\.md/\\1/p' | tr '_' '-')

# Construct branch name
BRANCH_NAME="feature/crq-${CRQ_NUMBER}-${CRQ_DESCRIPTION}"

```
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⚠️ Potential issue

Fix CRQ filename parsing (over-escaped regex and stray char).

Current sed patterns will fail; use extended regex, remove stray non-ASCII, and normalize the description.

-CRQ_NUMBER=$(echo "$FILENAME" | sed -n 's/CRQ-\\([0-9]*\\)-.*\\.md/\\1/p')
-CRQ_DESCRIPTION=$(echo "$FILENAME" | sed -n 's/CRQ-[0-9]*-(\\ా.*\\)\\.md/\\1/p' | tr '_' '-')
+CRQ_NUMBER=$(sed -nE 's/^CRQ-([0-9]+)-.*\.md$/\1/p' <<<"$FILENAME")
+CRQ_DESCRIPTION=$(sed -nE 's/^CRQ-[0-9]+-(.*)\.md$/\1/p' <<<"$FILENAME" \
+  | tr '_' '-' | tr '[:upper:]' '[:lower:]')
+
+# Optional: sanitize to VCS-safe branch segment
+# CRQ_DESCRIPTION=${CRQ_DESCRIPTION//[^a-z0-9-]/-}
📝 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.

Suggested change
CRQ_NUMBER=$(echo "$FILENAME" | sed -n 's/CRQ-\\([0-9]*\\)-.*\\.md/\\1/p')
CRQ_DESCRIPTION=$(echo "$FILENAME" | sed -n 's/CRQ-[0-9]*-(\\ా.*\\)\\.md/\\1/p' | tr '_' '-')
# Construct branch name
BRANCH_NAME="feature/crq-${CRQ_NUMBER}-${CRQ_DESCRIPTION}"
```
CRQ_NUMBER=$(sed -nE 's/^CRQ-([0-9]+)-.*\.md$/\1/p' <<<"$FILENAME")
CRQ_DESCRIPTION=$(sed -nE 's/^CRQ-[0-9]+-(.*)\.md$/\1/p' <<<"$FILENAME" \
| tr '_' '-' | tr '[:upper:]' '[:lower:]')
# Optional: sanitize to VCS-safe branch segment
# CRQ_DESCRIPTION=${CRQ_DESCRIPTION//[^a-z0-9-]/-}
# Construct branch name
BRANCH_NAME="feature/crq-${CRQ_NUMBER}-${CRQ_DESCRIPTION}"
🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-021/coderabbitai/responses/002.md around lines
25-31, the sed regexes are over-escaped and contain a stray non-ASCII character,
causing CRQ number and description extraction to fail; update the CRQ_NUMBER and
CRQ_DESCRIPTION extraction to use a single, correct extended-regex pattern (or
sed -r / -E) that captures digits after "CRQ-" and the description part after
the second dash, remove the stray non-ASCII char from the pattern, and normalize
the description by replacing underscores with hyphens and lowercasing (and add a
fallback if description is empty) so BRANCH_NAME becomes
feature/crq-<number>-<normalized-description>.

timestamp: "2025-09-11T18:48:31Z"
title: "CRQ-024: New SOPs for CRQ-Driven Development"
author: "jmikedupont2"
url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/3"
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⚠️ Potential issue

Fix incorrect PR URL (points to PR #3).

This artifact should reference the current PR #24 to avoid reviewer confusion.

-url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/3"
+url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/24"
📝 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.

Suggested change
url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/3"
url: "https://github.com/meta-introspector/git-submodules-rs-nix/pull/24"
🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-024/pr_description.md around line 7, the PR URL
incorrectly points to pull request #3; update the URL to reference the current
PR #24 (https://github.com/meta-introspector/git-submodules-rs-nix/pull/24) so
the artifact correctly links to the intended review.

Comment on lines +1178 to +1194
<tr>
<td>
<details>
<summary><strong>submodule_report.json</strong><dd><code>Complete submodule ecosystem documentation and mapping</code>&nbsp; &nbsp; &nbsp; </dd></summary>
<hr>

submodule_report.json

• Added comprehensive JSON report containing 2021 lines documenting <br>all Git repositories and their submodules<br> • Includes repository URLs, <br>local paths, and nested submodule structures for the entire project <br>ecosystem<br> • Maps out complex dependency relationships across multiple <br>meta-introspector projects and external repositories


</details>


</td>
<td><a href="https://github.com/meta-introspector/git-submodules-rs-nix/pull/3/files#diff-cf55860203aefdb6b0dd57e87aa0929dd59f5d9ef2f3e88568b54dc25898e3a7">+2021/-0</a></td>

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💡 Verification agent

🧩 Analysis chain

Quick repo check for large/unignored artifacts.

Automates verifying presence and ignore status.

Also applies to: 1815-1817, 1833-1835


🏁 Script executed:

#!/bin/bash
set -euo pipefail
echo "Large files (>1MB):"
fd --hidden --no-ignore --type f -S +1M | sed 's/^/  /'

echo "Generated lattice dirs:"
fd --hidden --no-ignore -t d 'generated_lattice_(code|structure)'

echo ".gitignore coverage for known patterns:"
pat='generated_lattice_code|generated_lattice_structure|submodule_report.*\.json|\.dot$'
if [ -f .gitignore ]; then
  rg -n "$pat" .gitignore || echo "  Missing one or more ignore patterns."
else
  echo "  .gitignore not found."
fi

echo "DOT size/lines (if present):"
if [ -f devshell_graph.dot ]; then
  du -h devshell_graph.dot
  wc -l devshell_graph.dot
fi

Length of output: 343


Remove/untrack large or generated artifacts and add .gitignore entries

  • Tracked large files found: extracted_urls.txt and self/reflection/directory/devshell_graph.dot — untrack (git rm --cached) or remove from history.
  • Generated dirs present: generated_lattice_code/ and generated_lattice_structure/ — add to .gitignore and remove from commits if currently tracked.
  • .gitignore missing patterns: add generated_lattice_code, generated_lattice_structure, submodule_report.*.json and *.dot.
  • If submodule_report.json is intentionally tracked, document why; otherwise remove and ignore.

@@ -0,0 +1,87 @@
---
crq: "CRQ-36"
messageId: "001"
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🛠️ Refactor suggestion

Make messageId globally unique to avoid collisions

Use a deterministic, CRQ-scoped ID to prevent tooling clashes with other “001.md” files.

-messageId: "001"
+messageId: "CRQ-36_coderabbitai_001"
📝 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.

Suggested change
messageId: "001"
messageId: "CRQ-36_coderabbitai_001"
🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-36/coderabbitai/responses/001.md around line 3,
the messageId value "001" is not globally unique; replace it with a
deterministic CRQ-scoped identifier (for example prefixing with the CRQ number
and a stable suffix like "CRQ-36-001" or use a hash of the file path/CRQ) so the
ID is unique across the repo and repeatable; update the messageId to that new
deterministic value and ensure any tooling or references that read this file use
the new format.

@@ -0,0 +1,87 @@
---
crq: "CRQ-38"
messageId: "001"
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🛠️ Refactor suggestion

messageId also duplicates 001.md in this CRQ

Namespace it to avoid collisions.

-messageId: "001"
+messageId: "CRQ-38_coderabbitai_001"
📝 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.

Suggested change
messageId: "001"
messageId: "CRQ-38_coderabbitai_001"
🤖 Prompt for AI Agents
In analysis_data/comms/git/CRQ-38/coderabbitai/responses/001_coderabbitai.md
around line 3, the messageId "001" collides with 001.md in this CRQ; change it
to a namespaced value (e.g., "coderabbitai/001" or "CRQ-38/coderabbitai/001") to
ensure uniqueness, update any code or references that consume this messageId
accordingly, and keep the naming convention consistent across other response
files to avoid future collisions.

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