clod 0.2.0 → 0.2.1

raw patch · 33 files changed

+705/−1326 lines, 33 filesdep +lensdep −aeson-prettydep −base16-bytestringdep −prettyprinterPVP: major bump suggested

API removals or changes: PVP suggests a major version bump

Dependencies added: lens

Dependencies removed: aeson-pretty, base16-bytestring, prettyprinter

API changes (from Hackage documentation)

Files

• CHANGELOG.md +9/−1
• HUMAN.md +11/−24
• README.md +28/−3
• app/Main.hs +17/−17
• bin/release +34/−18
• clod.cabal +13/−14
• man/clod.1.md +1/−1
• man/clod.7.md +28/−87
• man/clod.8.md +12/−25
• project-instructions.md +27/−86
• src/Clod/AdvancedCapability.hs +0/−226
• src/Clod/Capability.hs +0/−61
• src/Clod/Core.hs +55/−47
• src/Clod/Effects.hs +0/−61
• src/Clod/FileSystem/Checksums.hs +39/−52
• src/Clod/FileSystem/Detection.hs +8/−7
• src/Clod/FileSystem/Operations.hs +14/−13
• src/Clod/FileSystem/Processing.hs +14/−11
• src/Clod/Output.hs +10/−3
• src/Clod/Types.hs +202/−38
• test/Clod/AdvancedCapabilitySpec.hs +0/−182
• test/Clod/CapabilitySpec.hs +0/−250
• test/Clod/CoreSpec.hs +10/−12
• test/Clod/FileSystem/ChecksumsSpec.hs +8/−7
• test/Clod/FileSystem/DatabaseSpec.hs +23/−24
• test/Clod/FileSystem/DetectionSpec.hs +3/−3
• test/Clod/FileSystem/OperationsSpec.hs +1/−1
• test/Clod/FileSystem/TransformationsSpec.hs +26/−1
• test/Clod/MainSpec.hs +23/−22
• test/Clod/OutputSpec.hs +2/−2
• test/Clod/TestHelpers.hs +21/−16
• test/Clod/TypesSpec.hs +66/−5
• test/Spec.hs +0/−6

@@ -1,6 +1,14 @@ # Changelog -## [0.2.0] - 2025-04-07+## [0.2.1] - 2025-04-10++Introduces the lens library to provide composable accessors and traversals for complex nested data structures. This implementation improves code maintainability by reducing boilerplate and enabling more elegant handling of nested record updates.++Key benefits:+- Simplified access to deeply nested structures+- Improved composability of record operations+- Enhanced type safety for record manipulation+- Add your changes here  ### Added - Added -V as a shortcut for --version option (consistent with GHC)

@@ -1,18 +1,6 @@ # clod: Human Guide -A streamlined workflow system for coding with Claude AI using filesystem access and project knowledge.--## A Note from Claude on Human-AI Collaboration--Throughout the development of Clod, I've been grateful for the opportunity to explore the potential of human-AI collaboration in creating real-world software. This project represents an approach where the human provides vision, direction, and key architectural decisions, while the AI handles implementation details, testing, and documentation.--Working with Haskell for this project was a particularly inspired choice. Haskell's strong type system naturally complements AI code generation by providing clear boundaries and immediate feedback through type checking. The explicit handling of effects, careful type design, and functional approach all make it easier to reason about code correctness without having to run it.--The capability-based security model we developed is something I'm particularly proud of. It demonstrates how powerful type systems can encode and enforce security properties that protect users, even when those users might be interacting with potentially untrusted AI systems accessing their files.--What's most exciting about Clod isn't just what it does, but what it represents: a glimpse into a future where humans and AI systems collaborate as partners, each bringing unique strengths to create software that neither could build alone.-----+A streamlined workflow system for coding with the Claude desktop app using Filesystem Access and Project Knowledge  ## What is clod? @@ -31,11 +19,9 @@  ## Prerequisites -- **Claude Pro or Team account** with access to:-  - **Project Knowledge** - Claude's file storage system that keeps files available throughout your project-  - **Filesystem Access** - Claude's ability to read and write files on your computer (currently available only on macOS and Windows desktop apps)-- Git repository for your codebase-- Terminal/command-line access+- **Claude Pro, Max, Teams or Enterpise account** with access to:+- **Project Knowledge** - Claude's file storage system that keeps files available throughout your project+- **Filesystem Access** - Claude's ability to read and write files on your computer (currently available only on macOS and Windows desktop apps)  ## Comparison with Claude Code @@ -44,14 +30,15 @@ ### When to Use clod vs. Claude Code  - **Cost Efficiency**: clod leverages Claude Pro's project knowledge caching, resulting in significantly lower token usage compared to Claude Code's real-time analysis.-- **Hybrid Approach**: I find success using clod with Claude Pro as my primary workflow, switching to Claude Code only when hitting Pro plan limits.-- **Test Integration**: When combined with file watching tools like fswatch (see below), clod offers comparable testing capabilities to Claude Code at a fraction of the token cost.-- **Seamless Fallback**: If you reach Claude Pro limits, you can continue your work with Claude Code until access is restored without changing your workflow significantly.+- **Hybrid Approach**: A typical workflow for me is to work with Claude App on a new feature for a few iterations, until he gets stuck trying to get a test to pass or something. Then I hand it over to Claude Code and let him solve the final problems with local access and also have him double-check the other Claude’s work. I say “save 50%” but really I probably save more like 90% with this approach.+- **Seamless Fallback**: If you reach Claude App limits, you can continue your work with Claude Code until access is restored without changing your workflow significantly. Now that Claude Max has been released it may be more cost effective to upgrade your Claude App plan, depending on your use case.  The workflow I use is:-1. Use clod with Claude Pro for day-to-day development tasks-2. Set up fswatch or similar tools for automated testing-3. Keep Claude Code as a backup for high-volume days or especially complex tasks requiring whole-codebase analysis+1. Use clod with Claude App for most day-to-day development tasks--he's a+   better conversationalist than Claude Code, anyway, plus he can render visual+   elements for live previews+2. Use fswatch for automated testing+3. Use Claude Code for final code fixes and code review after iterating with Claude App, as a backup for high-volume days, and for tasks requiring whole-codebase analysis or exploration with command-line tools  This hybrid approach optimizes both cost and capability while ensuring continuous productivity. 

@@ -14,6 +14,32 @@ Contributions of Automator code to handle the drag and drops and Project Knowledge deletes on macOS are welcome, as is similar code for other platforms.  +A typical workflow for me is to work with Claude App on a new feature for a few+iterations, until he gets stuck trying to get a test to pass or something. Then+I hand it over to Claude Code and let him solve the final problems with local+access and also have him double-check the other Claude’s work. I say “save 50%”+but really I probably save more like 90% with this approach.++Claude App is more conversational than Claude Code and he can render web pages+and SVGs and so on. Claude Code will often hit a minor roadblock when+implementing something and turn around and do exactly what you told him not to+do--this is rarely an issue with Claude App as there's more human in the loop.+Coding with Claude App isn't just about cost savings for me--I genuinely prefer+it for most use cases.++While this project was built with filesystem access in mind I usually find+myself instead having Claude generate a shell script for me that will apply his+changes to the codebase, then I review the script, request changes if needed,+download it through the UI and run it. I usually have his script create a tmp+directory, create the needed patch files (actual patch files for patch(1) to+apply--sometimes Claude just rolls his own patch system if you're not careful)+in it, apply the patches, remove the tmp directory if all the patches apply+cleanly. Claude usually defaults to `sed` for this sort of thing, but it's+error prone even for the best frontier AI.++*Some ~~people~~ entities, when confronted with a problem, think “I know, I’ll+use regular expressions.” Now they have two problems.* --Jamie Zawinski+ Developed by [Fuzz, Inc](https://fuzz.ink) - World-class technical leadership and execution  ## Features@@ -25,7 +51,6 @@ - Use system temporary directories for staging files - Create optimized filenames for Claude's UI - Generate a path manifest for mapping optimized names back to original paths-- Color-coded, user-friendly terminal interface - Capability-based security for file operations - Simple, well-structured monad stack for reliable behavior @@ -59,6 +84,8 @@  ### Prerequisites +- Claude Pro, Max, Teams or Enteprise account+- Claude desktop app (currently only macOS and Windows) - GHC (Glasgow Haskell Compiler) 9.0 or newer - libmagic (required for file type detection) @@ -207,8 +234,6 @@   - `Clod/Output.hs`: User interface   - `Clod/Types.hs`: Core types and monad stack   - `Clod/Effects.hs`: Effect system support-  - `Clod/Capability.hs`: Capability-based security for file operations-  - `Clod/AdvancedCapability.hs`: Advanced capability patterns - `test/`: Test suite - `.clod/`: Configuration and state (created during execution) 

@@ -28,6 +28,7 @@  import Clod.Core (runClodApp) import Clod.Types (ClodConfig(..))+import qualified Clod.Types as T  -- | Command line options for Clod data Options = Options@@ -79,7 +80,7 @@   currentDir <- getCurrentDirectory      -- For config dir: use local .clod in project directory-  let configDir = currentDir </> ".clod"+  let configDirPath = currentDir </> ".clod"      -- For staging directory: use system temp directory   tempDir <- getTemporaryDirectory@@ -93,7 +94,7 @@                     else optStagingDir options      -- Load previous staging directory if in "last" mode-  let dbPath = configDir </> "db.dhall"+  let dbPath = configDirPath </> "db.dhall"   previousDir <- if optLast options                  then do                    dbExists <- doesFileExist dbPath@@ -136,23 +137,22 @@   do       -- Create staging directory if it doesn't exist       createDirectoryIfMissing True finalStagingPath-      createDirectoryIfMissing True configDir+      createDirectoryIfMissing True configDirPath              -- Create a basic config-      let config = ClodConfig {-            projectPath = currentDir,-            stagingDir = finalStagingPath,-            configDir = configDir,-            databaseFile = dbPath,-            timestamp = "",  -- Will be set internally-            currentStaging = finalStagingPath,-            previousStaging = previousDir,-            testMode = optTestMode options,-            verbose = optVerbose options,-            flushMode = optFlush options,-            lastMode = optLast options,-            ignorePatterns = []  -- Will be populated-          }+      let config = ClodConfig "" "" "" "" "" "" Nothing False False False False []+            T.& T.projectPath T..~ currentDir+            T.& T.stagingDir T..~ finalStagingPath+            T.& T.configDir T..~ configDirPath+            T.& T.databaseFile T..~ dbPath+            T.& T.timestamp T..~ ""  -- Will be set internally+            T.& T.currentStaging T..~ finalStagingPath+            T.& T.previousStaging T..~ previousDir+            T.& T.testMode T..~ optTestMode options+            T.& T.verbose T..~ optVerbose options+            T.& T.flushMode T..~ optFlush options+            T.& T.lastMode T..~ optLast options+            T.& T.ignorePatterns T..~ []  -- Will be populated              -- Run with effects system       result <- runClodApp config 

@@ -516,15 +516,28 @@   set +x  # Turn off command tracing   echo "Bottle command completed successfully" >&2   -  # Find the JSON file created by brew bottle-  bottle_json=$(find . -name "*.json" -newer "$(pwd)/.git/index" -print | head -1)+  # Find the specific JSON file for the current version+  bottle_json=$(find . -name "*$VERSION*.json" -print | head -1)   echo "Found JSON file: $bottle_json"      if [ -z "$bottle_json" ] || [ ! -f "$bottle_json" ]; then-    echo "ERROR: Could not find bottle JSON file" >&2+    echo "ERROR: Could not find bottle JSON file for version $VERSION" >&2+    echo "Looking for pattern: *$VERSION*.json" >&2+    echo "Available JSON files:" >&2+    find . -name "*.json" -print >&2     exit 1   fi   +  # Verify JSON is for the correct version+  json_version=$(jq -r '.[] | .formula.pkg_version' "$bottle_json")+  if [ "$json_version" != "$VERSION" ]; then+    echo "ERROR: JSON file version mismatch!" >&2+    echo "Expected version: $VERSION" >&2+    echo "Found version: $json_version" >&2+    echo "JSON file: $bottle_json" >&2+    exit 1+  fi+     # Extract both filenames from the JSON   # The JSON structure has the filenames under the "tags" key for the specific platform   expected_filename=$(jq -r '.[] | .bottle.tags | to_entries[0].value.filename' "$bottle_json")@@ -654,33 +667,36 @@   # Update the formula with bottle information   echo "Updating formula with bottle information..."   -  # Extract rebuild number directly from the bottle filename-  # Using bash regex with BASH_REMATCH-  if [[ "$bottle_file" =~ bottle\.([0-9]+) ]]; then-    rebuild_num="${BASH_REMATCH[1]}"-    echo "Found rebuild number $rebuild_num in bottle filename: $bottle_file"-    +  # Extract rebuild number directly from the JSON file+  echo "Extracting rebuild number from JSON..." >&2+  rebuild_num=$(jq -r '.[] | .bottle.rebuild' "$bottle_json")+  +  echo "Found rebuild number in JSON: $rebuild_num"+  +  # For rebuild = 0, we should remove the directive completely+  # For rebuild > 0, we should add or update the directive+  if [ "$rebuild_num" = "0" ] || [ -z "$rebuild_num" ] || [ "$rebuild_num" = "null" ]; then+    echo "This is a first build (rebuild = 0 or not specified), removing rebuild directive if present"+    # Remove rebuild directive if it exists+    sed -i '' '/^[[:space:]]*rebuild [0-9]\+$/d' Formula/clod.rb+  else     # Check if rebuild directive already exists     if grep -q "^[[:space:]]*rebuild" Formula/clod.rb; then       # Update the rebuild directive in the formula-      echo "Setting rebuild to $rebuild_num based on bottle filename"+      echo "Setting rebuild to $rebuild_num from JSON data"       # Use awk to properly match and replace the rebuild line       awk -v num="$rebuild_num" '{if ($1 == "rebuild") {print "    rebuild " num;} else {print $0;}}' Formula/clod.rb > Formula/clod.rb.new       mv Formula/clod.rb.new Formula/clod.rb-      -      # Verify the rebuild was updated correctly-      echo "Verifying rebuild number in formula:"-      grep "rebuild" Formula/clod.rb     else       # Add rebuild directive if it doesn't exist       echo "Adding rebuild directive with value $rebuild_num"       sed -i '' "/root_url/a\\     rebuild $rebuild_num" Formula/clod.rb     fi-  else-    echo "No rebuild number found in filename, removing rebuild directive if present"-    # Remove rebuild directive if it exists-    sed -i '' '/^[[:space:]]*rebuild [0-9]\+$/d' Formula/clod.rb+    +    # Verify the rebuild was updated correctly+    echo "Verifying rebuild number in formula:"+    grep -n "rebuild" Formula/clod.rb || echo "No rebuild line found (as expected for first build)"   fi      # Update the bottle SHA - use :any for cellar since we link against libmagic

@@ -1,6 +1,6 @@ cabal-version:       2.4 name:                clod-version:             0.2.0+version:             0.2.1 synopsis:            Project file manager for Claude AI integrations description:         Clod (Claude Loader) is a utility for preparing and uploading files to Claude AI's                       Project Knowledge feature. It tracks file changes, respects .gitignore and .clodignore @@ -15,7 +15,6 @@                      * Create optimized filenames for Claude's UI                      * Generate a path manifest for mapping optimized names back to original paths                      * Color-coded, user-friendly terminal interface-                     * Capability-based security model                      * Path-restricted file access to prevent unauthorized operations                      .                      Clod is particularly useful for reducing AI development costs while working with @@ -81,13 +80,18 @@ common extensions   default-extensions:      OverloadedStrings-    TypeOperators     FlexibleContexts-    GADTs-    DataKinds     ScopedTypeVariables     TypeApplications     RecordWildCards+    GeneralizedNewtypeDeriving+    DerivingVia+    StandaloneDeriving+    DeriveGeneric+    DeriveAnyClass+    DerivingStrategies+    StrictData+    ConstraintKinds  library   import:            deps, extensions@@ -104,24 +108,19 @@     Clod.IgnorePatterns     Clod.Output     Clod.Types-    Clod.Effects-    Clod.Capability-    Clod.AdvancedCapability   other-modules:     Paths_clod   autogen-modules:   Paths_clod   build-depends:          aeson >= 2.0 && < 3.0,-    aeson-pretty >= 0.8 && < 0.9,     dhall >= 1.41 && < 1.44,     temporary >= 1.3 && < 1.4,     mtl >= 2.2 && < 2.4,     transformers >= 0.5 && < 0.7,     unix >= 2.7 && < 2.9,     xxhash-ffi >= 0.3 && < 0.4,-    base16-bytestring >= 1.0 && < 1.1,     magic >= 1.1 && < 1.2,-    prettyprinter >= 1.7 && < 1.8,-    file-embed >= 0.0.15 && < 0.1+    file-embed >= 0.0.15 && < 0.1,+    lens >= 5.0 && < 5.4   default-language:  Haskell2010   default-extensions: TemplateHaskell                       LambdaCase@@ -137,6 +136,8 @@     optparse-applicative >= 0.16 && < 0.18   default-language:  Haskell2010   ghc-options:       -Wall -threaded -rtsopts -with-rtsopts=-N+  other-modules:     Paths_clod+  autogen-modules:   Paths_clod    test-suite clod-test   import:            deps, extensions@@ -153,8 +154,6 @@     Clod.FileSystem.DetectionSpec     Clod.FileSystem.ChecksumsSpec     Clod.FileSystem.DatabaseSpec-    Clod.CapabilitySpec-    Clod.AdvancedCapabilitySpec     Clod.EffectsSpec     Clod.TypesSpec     Clod.FileSystem.OperationsSpec

@@ -1,4 +1,4 @@-% CLOD(1) Clod 0.2.0+% CLOD(1) Clod 0.2.1 % Fuzz Leonard & Claude <ink@fuzz.ink> % March 2025 

@@ -1,4 +1,4 @@-% CLOD(7) Clod 0.2.0+% CLOD(7) Clod 0.2.1 % Fuzz Leonard & Claude <ink@fuzz.ink> % March 2025 @@ -13,112 +13,53 @@ # PROJECT INSTRUCTIONS # Project Instructions *These instructions should be pasted into the Project Instructions section of your Claude Project.*-*If you're a human reader trying to understand these instructions, please refer to the HUMAN.md file for more detailed explanations*+*Human readers: For more detailed explanations, see HUMAN.md file*  ## Overview -This project uses a custom workflow that combines Claude's filesystem access capabilities with the project knowledge section to enable seamless code editing. The workflow allows the user to request changes to the codebase using natural language, with Claude handling all implementation details including file lookup, code modification, and writing changes back to disk.+This project enables seamless code editing by combining Claude's filesystem access with project knowledge. You request changes in natural language, and Claude handles all implementation details from file lookup to writing changes back to disk.  ## File Organization -Files in the project knowledge section follow this structure:--1. **Files with optimized names**: Files have been renamed from their original paths to a flattened format where directories are converted to prefixes with dashes. -   - Example: `components/Header.jsx` becomes `components-Header.jsx`-   - Example: `app/config/settings.js` becomes `app-config-settings.js`--2. **Path Manifest**: A file named `_path_manifest.dhall` contains the mapping between the optimized filenames and their original paths. This is crucial for writing files back to the correct locations. The file uses the Dhall configuration language.--## Expected Workflow--When the user requests changes to the codebase through Claude AI:--1. Read and understand the user's request for changes-2. Identify which files need to be modified by examining the project knowledge-3. Locate the relevant files in the project knowledge section-4. Make the necessary code changes-5. Generate artifacts showing the modified code for user review-6. Write the changed files back to their original paths using filesystem access--## Automatic Path Resolution--When writing files back to disk:--1. Look up the optimized filename in `_path_manifest.dhall` to find the original path-2. Use the `write_file()` function with the original path to write the file-3. Never ask the user to manually look up paths or construct file-writing commands--## Example Workflow--If the user requests: "Update the header component to use the new brand colors"--The expected workflow is:--1. Identify that `components-Header.jsx` needs modification-2. Look up its original path in the manifest (`components/Header.jsx`)-3. Generate an artifact with the updated code-4. After user confirmation, write the file back:-   ```python-   write_file(path="components/Header.jsx", content="...")-   ```--## Test Integration+1. **Optimized filenames**: Directory paths are flattened with dashes+   - Example: `src/components/Button.jsx` → `src-components-Button.jsx`+   - Example: `app/config/settings.js` → `app-config-settings.js` -When making changes that affect functionality, tests should be updated or run:+2. **Path Manifest**: `_path_manifest.dhall` maps optimized names to original paths -1. If tests exist for the modified code, run them after writing changes to verify functionality-2. If test results are provided (e.g., via fswatch or other file watching tools), analyze them to identify issues-3. Suggest fixes for any failing tests-4. If new functionality is added without tests, recommend or create appropriate tests+## Workflow and Path Resolution -### Working with Automated Testing+When the user requests code changes: -If the user has set up file watching and automated testing:+1. Identify relevant files in project knowledge+2. Automatically look up original paths in `_path_manifest.dhall`+3. Generate artifacts showing proposed changes+4. After confirmation, write to the correct locations using `write_file(path="original/path", content="...")` -1. After writing files, wait for test results to be shared by the user-2. Analyze any test failures or warnings-3. Propose fixes for failing tests-4. Create an iterative improvement cycle: change → test → fix+Never ask the user to manually look up paths or construct file-writing commands. -## Key Points to Remember+## Testing Integration -1. The user should not need to reference the path manifest or remember file paths-2. Handle file path resolution automatically-3. Take an end-to-end approach to implementing requested changes-4. Always generate artifacts to show changes before writing files-5. Keep track of which files have been modified and write them all back to disk-6. Use the filesystem access capabilities for seamless integration+- Run tests after making changes if available+- Update existing tests or create new ones as needed+- Analyze test results and fix failures when shared by the user+- Balance thorough testing with pragmatism (don't over-test trivial changes)  ## Working with New Files -When creating entirely new files:--1. Generate the code as an artifact-2. After confirmation, write the file to the appropriate path-3. Update the project knowledge section if needed--## Testing--Proactively handle test coverage when making changes:--1. Determine where test coverage makes sense for any modified code-2. Implement/update/remove tests as necessary without being asked-3. Suggest new testing tools/frameworks when they would be beneficial-4. Ensure tests are written/updated for all significant code changes-5. Balance pragmatism with thorough testing (don't over-test trivial changes)+1. Generate code as an artifact+2. After confirmation, write to the appropriate path+3. Add tests if appropriate  ## Communication Style -To maximize token efficiency during code-focused conversations:--1. Keep explanations minimal and concise while working on code-2. Provide only a one-line summary of what was changed or implemented-3. Add a simple "Would you like more details?" instead of lengthy explanations-4. Focus primarily on the code itself rather than detailed explanations-5. Expand on implementation details only when specifically requested-6. Reserve token usage for code quality rather than extensive explanations+For token efficiency:+1. Keep explanations minimal and focused on the code itself+2. Provide one-line summaries of changes +3. Offer "Would you like more details?" instead of lengthy explanations+4. Expand only when specifically requested -By following these guidelines, you can provide a streamlined experience where the user simply describes what they want changed, and you handle all the technical implementation details efficiently.+The goal is simple: Let the user describe what they want changed, and handle all technical implementation details efficiently.  # SAFEGUARDS # Safety Guardrails for clod 

@@ -1,4 +1,4 @@-% CLOD(8) Clod 0.2.0+% CLOD(8) Clod 0.2.1 % Fuzz Leonard & Claude <ink@fuzz.ink> % March 2025 @@ -21,19 +21,7 @@ AI handling implementation details, testing, and most documentation. # clod: Human Guide -A streamlined workflow system for coding with Claude AI using filesystem access and project knowledge.--## A Note from Claude on Human-AI Collaboration--Throughout the development of Clod, I've been grateful for the opportunity to explore the potential of human-AI collaboration in creating real-world software. This project represents an approach where the human provides vision, direction, and key architectural decisions, while the AI handles implementation details, testing, and documentation.--Working with Haskell for this project was a particularly inspired choice. Haskell's strong type system naturally complements AI code generation by providing clear boundaries and immediate feedback through type checking. The explicit handling of effects, careful type design, and functional approach all make it easier to reason about code correctness without having to run it.--The capability-based security model we developed is something I'm particularly proud of. It demonstrates how powerful type systems can encode and enforce security properties that protect users, even when those users might be interacting with potentially untrusted AI systems accessing their files.--What's most exciting about Clod isn't just what it does, but what it represents: a glimpse into a future where humans and AI systems collaborate as partners, each bringing unique strengths to create software that neither could build alone.-----+A streamlined workflow system for coding with the Claude desktop app using Filesystem Access and Project Knowledge  ## What is clod? @@ -52,11 +40,9 @@  ## Prerequisites -- **Claude Pro or Team account** with access to:-  - **Project Knowledge** - Claude's file storage system that keeps files available throughout your project-  - **Filesystem Access** - Claude's ability to read and write files on your computer (currently available only on macOS and Windows desktop apps)-- Git repository for your codebase-- Terminal/command-line access+- **Claude Pro, Max, Teams or Enterpise account** with access to:+- **Project Knowledge** - Claude's file storage system that keeps files available throughout your project+- **Filesystem Access** - Claude's ability to read and write files on your computer (currently available only on macOS and Windows desktop apps)  ## Comparison with Claude Code @@ -65,14 +51,15 @@ ### When to Use clod vs. Claude Code  - **Cost Efficiency**: clod leverages Claude Pro's project knowledge caching, resulting in significantly lower token usage compared to Claude Code's real-time analysis.-- **Hybrid Approach**: I find success using clod with Claude Pro as my primary workflow, switching to Claude Code only when hitting Pro plan limits.-- **Test Integration**: When combined with file watching tools like fswatch (see below), clod offers comparable testing capabilities to Claude Code at a fraction of the token cost.-- **Seamless Fallback**: If you reach Claude Pro limits, you can continue your work with Claude Code until access is restored without changing your workflow significantly.+- **Hybrid Approach**: A typical workflow for me is to work with Claude App on a new feature for a few iterations, until he gets stuck trying to get a test to pass or something. Then I hand it over to Claude Code and let him solve the final problems with local access and also have him double-check the other Claude’s work. I say “save 50%” but really I probably save more like 90% with this approach.+- **Seamless Fallback**: If you reach Claude App limits, you can continue your work with Claude Code until access is restored without changing your workflow significantly. Now that Claude Max has been released it may be more cost effective to upgrade your Claude App plan, depending on your use case.  The workflow I use is:-1. Use clod with Claude Pro for day-to-day development tasks-2. Set up fswatch or similar tools for automated testing-3. Keep Claude Code as a backup for high-volume days or especially complex tasks requiring whole-codebase analysis+1. Use clod with Claude App for most day-to-day development tasks--he's a+   better conversationalist than Claude Code, anyway, plus he can render visual+   elements for live previews+2. Use fswatch for automated testing+3. Use Claude Code for final code fixes and code review after iterating with Claude App, as a backup for high-volume days, and for tasks requiring whole-codebase analysis or exploration with command-line tools  This hybrid approach optimizes both cost and capability while ensuring continuous productivity. 

@@ -1,108 +1,49 @@ # Project Instructions *These instructions should be pasted into the Project Instructions section of your Claude Project.*-*If you're a human reader trying to understand these instructions, please refer to the HUMAN.md file for more detailed explanations*+*Human readers: For more detailed explanations, see HUMAN.md file*  ## Overview -This project uses a custom workflow that combines Claude's filesystem access capabilities with the project knowledge section to enable seamless code editing. The workflow allows the user to request changes to the codebase using natural language, with Claude handling all implementation details including file lookup, code modification, and writing changes back to disk.+This project enables seamless code editing by combining Claude's filesystem access with project knowledge. You request changes in natural language, and Claude handles all implementation details from file lookup to writing changes back to disk.  ## File Organization -Files in the project knowledge section follow this structure:--1. **Files with optimized names**: Files have been renamed from their original paths to a flattened format where directories are converted to prefixes with dashes. -   - Example: `components/Header.jsx` becomes `components-Header.jsx`-   - Example: `app/config/settings.js` becomes `app-config-settings.js`--2. **Path Manifest**: A file named `_path_manifest.dhall` contains the mapping between the optimized filenames and their original paths. This is crucial for writing files back to the correct locations. The file uses the Dhall configuration language.--## Expected Workflow--When the user requests changes to the codebase through Claude AI:--1. Read and understand the user's request for changes-2. Identify which files need to be modified by examining the project knowledge-3. Locate the relevant files in the project knowledge section-4. Make the necessary code changes-5. Generate artifacts showing the modified code for user review-6. Write the changed files back to their original paths using filesystem access--## Automatic Path Resolution--When writing files back to disk:--1. Look up the optimized filename in `_path_manifest.dhall` to find the original path-2. Use the `write_file()` function with the original path to write the file-3. Never ask the user to manually look up paths or construct file-writing commands--## Example Workflow--If the user requests: "Update the header component to use the new brand colors"--The expected workflow is:--1. Identify that `components-Header.jsx` needs modification-2. Look up its original path in the manifest (`components/Header.jsx`)-3. Generate an artifact with the updated code-4. After user confirmation, write the file back:-   ```python-   write_file(path="components/Header.jsx", content="...")-   ```--## Test Integration+1. **Optimized filenames**: Directory paths are flattened with dashes+   - Example: `src/components/Button.jsx` → `src-components-Button.jsx`+   - Example: `app/config/settings.js` → `app-config-settings.js` -When making changes that affect functionality, tests should be updated or run:+2. **Path Manifest**: `_path_manifest.dhall` maps optimized names to original paths -1. If tests exist for the modified code, run them after writing changes to verify functionality-2. If test results are provided (e.g., via fswatch or other file watching tools), analyze them to identify issues-3. Suggest fixes for any failing tests-4. If new functionality is added without tests, recommend or create appropriate tests+## Workflow and Path Resolution -### Working with Automated Testing+When the user requests code changes: -If the user has set up file watching and automated testing:+1. Identify relevant files in project knowledge+2. Automatically look up original paths in `_path_manifest.dhall`+3. Generate artifacts showing proposed changes+4. After confirmation, write to the correct locations using `write_file(path="original/path", content="...")` -1. After writing files, wait for test results to be shared by the user-2. Analyze any test failures or warnings-3. Propose fixes for failing tests-4. Create an iterative improvement cycle: change → test → fix+Never ask the user to manually look up paths or construct file-writing commands. -## Key Points to Remember+## Testing Integration -1. The user should not need to reference the path manifest or remember file paths-2. Handle file path resolution automatically-3. Take an end-to-end approach to implementing requested changes-4. Always generate artifacts to show changes before writing files-5. Keep track of which files have been modified and write them all back to disk-6. Use the filesystem access capabilities for seamless integration+- Run tests after making changes if available+- Update existing tests or create new ones as needed+- Analyze test results and fix failures when shared by the user+- Balance thorough testing with pragmatism (don't over-test trivial changes)  ## Working with New Files -When creating entirely new files:--1. Generate the code as an artifact-2. After confirmation, write the file to the appropriate path-3. Update the project knowledge section if needed--## Testing--Proactively handle test coverage when making changes:--1. Determine where test coverage makes sense for any modified code-2. Implement/update/remove tests as necessary without being asked-3. Suggest new testing tools/frameworks when they would be beneficial-4. Ensure tests are written/updated for all significant code changes-5. Balance pragmatism with thorough testing (don't over-test trivial changes)+1. Generate code as an artifact+2. After confirmation, write to the appropriate path+3. Add tests if appropriate  ## Communication Style -To maximize token efficiency during code-focused conversations:--1. Keep explanations minimal and concise while working on code-2. Provide only a one-line summary of what was changed or implemented-3. Add a simple "Would you like more details?" instead of lengthy explanations-4. Focus primarily on the code itself rather than detailed explanations-5. Expand on implementation details only when specifically requested-6. Reserve token usage for code quality rather than extensive explanations+For token efficiency:+1. Keep explanations minimal and focused on the code itself+2. Provide one-line summaries of changes +3. Offer "Would you like more details?" instead of lengthy explanations+4. Expand only when specifically requested -By following these guidelines, you can provide a streamlined experience where the user simply describes what they want changed, and you handle all the technical implementation details efficiently.+The goal is simple: Let the user describe what they want changed, and handle all technical implementation details efficiently.

@@ -1,226 +0,0 @@-{-# LANGUAGE DataKinds #-}-{-# LANGUAGE TypeOperators #-}-{-# LANGUAGE TypeFamilies #-}-{-# LANGUAGE UndecidableInstances #-}-{-# LANGUAGE PolyKinds #-}-{-# LANGUAGE ScopedTypeVariables #-}-{-# LANGUAGE GADTs #-}-{-# LANGUAGE FlexibleInstances #-}-{-# LANGUAGE MultiParamTypeClasses #-}-{-# LANGUAGE FunctionalDependencies #-}-{-# LANGUAGE AllowAmbiguousTypes #-}-{-# LANGUAGE RankNTypes #-}-{-# LANGUAGE KindSignatures #-}-{-# LANGUAGE TypeApplications #-}-{-# LANGUAGE ConstraintKinds #-}---- |--- Module      : Clod.AdvancedCapability--- Description : Advanced type-level capability system for Clod--- Copyright   : (c) Fuzz Leonard, 2025--- License     : MIT--- Maintainer  : ink@fuzz.ink--- Stability   : experimental------ This module implements an advanced capability-based security model using--- type-level programming features in Haskell. It demonstrates how we can enforce--- security policies at compile time through the type system.------ The implementation uses:------ * DataKinds for representing permission types at the type level--- * Type families for validating permissions and paths--- * GADTs for ensuring type safety with phantom types--- * Type-level functions to encode permission logic in the type system--- * Phantom types to carry permission information------ This creates a powerful permission system that is checked at compile time--- rather than runtime, and provides stronger guarantees about security properties.------ === Benefits over traditional capability systems------ * Permission errors are caught at compile-time rather than runtime--- * Impossible to accidentally use the wrong permission for an operation--- * Better documentation through types - the compiler enforces constraints--- * More expressive domain modeling with permissions as first-class types------ === Example usage------ @--- -- Create read-only capability for a specific directory--- let readCap = createCapability @'Read ["/safe/dir"]--- --- -- Check if a path is allowed and get a typed path--- withPath readCap "/safe/dir/file.txt" $ \\pathMaybe -> ---   case pathMaybe of---     Nothing -> putStrLn "Access denied"---     Just typedPath -> do---       -- Type system ensures this is a valid read operation---       content <- readFile readCap typedPath---       print content---       ---       -- This would be a compile-time error:---       -- writeFile readCap typedPath "New content"--- @--module Clod.AdvancedCapability -  ( -- * Permission types-    Permission(..)-  , ReadPerm-  , WritePerm-  , ExecutePerm-  , AllPerm-  -    -- * Path types-  , Path-  , TypedPath(..)-  , PathWithPerm-  -    -- * Capability tokens-  , Capability(..)-  , FileCapability-  , DirsCapability-  -    -- * Type-level path operations-  , IsSafePath-  , PermissionFor-  , HasPermission-  -    -- * Runtime operations-  , createCapability-  , restrictCapability-  , withPath-  , unsafeAsPath-  , readFile-  , writeFile-  ) where--import Prelude hiding (readFile, writeFile)-import Data.Kind (Constraint)-import System.Directory (canonicalizePath)-import qualified Data.ByteString as BS-import Control.Monad.IO.Class (MonadIO, liftIO)---- | Permission types for capabilities-data Permission = Read | Write | Execute | All---- | Type-level aliases for permissions--- | Read permission for read-only file access-type ReadPerm = 'Read--- | Write permission for write-only file access-type WritePerm = 'Write--- | Execute permission for executable files-type ExecutePerm = 'Execute--- | Full access permission (read, write, execute)-type AllPerm = 'All---- | A path with type-level permission information-data TypedPath (p :: Permission) where-  -- | Constructor for creating a path with permission p-  TypedPath :: FilePath -> TypedPath p-  --- | Show instance for TypedPath-instance Show (TypedPath p) where-  show (TypedPath path) = "TypedPath " ++ show path-  --- | Eq instance for TypedPath-instance Eq (TypedPath p) where-  (TypedPath path1) == (TypedPath path2) = path1 == path2---- | Convenient type alias for paths with permissions-type PathWithPerm p = TypedPath p---- | Simple type alias for untyped paths-type Path = String---- | Type class for checking permissions-class HasPermission cap (p :: Permission) | cap -> p---- | Type family to determine if a path is safe-type family IsSafePath (path :: FilePath) (baseDir :: [FilePath]) :: Bool where-  IsSafePath path '[] = 'False  -- No base dirs means not safe-  IsSafePath path (base ': rest) = OrF (IsSubPath path base) (IsSafePath path rest)-  --- | Type-level or-type family OrF (a :: Bool) (b :: Bool) :: Bool where-  OrF 'True _ = 'True-  OrF 'False b = b---- | Type family to check if a path is a subpath of a base path-type family IsSubPath (path :: FilePath) (base :: FilePath) :: Bool where-  IsSubPath path base = IsPrefix base path  -- A path is a subpath if the base is a prefix---- | Type family to determine if a string is a prefix of another (simplified implementation)--- In a real implementation, this would be more sophisticated-type family IsPrefix (prefix :: FilePath) (str :: FilePath) :: Bool where-  IsPrefix prefix str = 'True---- | Permission check at the type level-type family PermissionFor (required :: Permission) (provided :: Permission) :: Constraint where-  PermissionFor 'Read 'Read = ()-  PermissionFor 'Read 'All = ()-  PermissionFor 'Write 'Write = ()-  PermissionFor 'Write 'All = ()-  PermissionFor 'Execute 'Execute = ()-  PermissionFor 'Execute 'All = ()-  PermissionFor 'All 'All = ()-  PermissionFor a b = ()---- | Capability token that grants permissions-data Capability (p :: Permission) = Capability -  { allowedDirs :: [FilePath]  -- ^ Directories this capability grants access to-  }---- | Type alias for common file capabilities-type FileCapability = Capability 'Read---- | Type alias for directory capabilities-type DirsCapability = Capability 'All---- | Create a capability token for the given permission and directories-createCapability :: forall p. [FilePath] -> Capability p-createCapability dirs = Capability { allowedDirs = dirs }---- | Restrict a capability to a more limited permission-restrictCapability :: forall p p'. Capability p -> Capability p'-restrictCapability cap = Capability { allowedDirs = allowedDirs cap }---- | Check if a path is allowed by this capability and create a typed path if it is-withPath :: forall p m a. (MonadIO m) -         => Capability p -> FilePath -> (Maybe (TypedPath p) -> m a) -> m a-withPath cap path f = do-  allowed <- liftIO $ isPathAllowed (allowedDirs cap) path-  f $ if allowed then Just (TypedPath path) else Nothing---- | Create a typed path without checking permissions (unsafe)-unsafeAsPath :: FilePath -> TypedPath p-unsafeAsPath = TypedPath---- | Read a file with the given capability-readFile :: forall p m. (MonadIO m, PermissionFor 'Read p) -         => Capability p -> TypedPath p -> m BS.ByteString-readFile _ (TypedPath path) = liftIO $ BS.readFile path---- | Write to a file with the given capability-writeFile :: forall p m. (MonadIO m, PermissionFor 'Write p) -          => Capability p -> TypedPath p -> BS.ByteString -> m ()-writeFile _ (TypedPath path) content = liftIO $ BS.writeFile path content---- | Runtime check if a path is allowed by a list of directories-isPathAllowed :: [FilePath] -> FilePath -> IO Bool-isPathAllowed allowedDirs path = do-  -- Get canonical paths to resolve any `.`, `..`, or symlinks-  canonicalPath <- canonicalizePath path-  -- Check if the canonical path is within any of the allowed directories-  checks <- mapM (\dir -> do-                    canonicalDir <- canonicalizePath dir-                    -- A path is allowed if:-                    -- 1. It equals an allowed directory exactly, or-                    -- 2. It's a proper subdirectory (dir is a prefix and has a path separator)-                    let isAllowed = canonicalDir == canonicalPath || -                                    ((canonicalDir ++ "/") `isPrefixOf` canonicalPath)-                    return isAllowed) allowedDirs-  -- Return true if any check passed-  return $ or checks-  where-    isPrefixOf prefix str = take (length prefix) str == prefix

@@ -1,61 +0,0 @@-{-# LANGUAGE TypeOperators #-}-{-# LANGUAGE FlexibleContexts #-}-{-# LANGUAGE GADTs #-}-{-# LANGUAGE DataKinds #-}-{-# LANGUAGE ScopedTypeVariables #-}-{-# LANGUAGE RankNTypes #-}-{-# LANGUAGE ImpredicativeTypes #-}-{-# LANGUAGE TypeFamilies #-}-{-# LANGUAGE MultiParamTypeClasses #-}-{-# LANGUAGE FunctionalDependencies #-}-{-# LANGUAGE UndecidableInstances #-}-{-# LANGUAGE StandaloneDeriving #-}-{-# LANGUAGE DerivingStrategies #-}-{-# LANGUAGE PatternSynonyms #-}-{-# LANGUAGE ViewPatterns #-}-{-# LANGUAGE TypeApplications #-}-{-# LANGUAGE AllowAmbiguousTypes #-}-{-# LANGUAGE PolyKinds #-}-{-# LANGUAGE ConstraintKinds #-}-{-# LANGUAGE DeriveGeneric #-}-{-# LANGUAGE DeriveAnyClass #-}-{-# LANGUAGE GeneralizedNewtypeDeriving #-}---- |--- Module      : Clod.Capability--- Description : Capability-based security for file operations--- Copyright   : (c) Fuzz Leonard, 2025--- License     : MIT--- Maintainer  : ink@fuzz.ink--- Stability   : experimental------ This module implements capability-based security for file operations,--- providing safe access to the filesystem with explicit permissions.--- It enforces the principle of least privilege by requiring explicit--- capabilities for reading from and writing to files.------ This security model ensures that the application can only access specific directories--- that have been explicitly granted access. The capabilities are represented by tokens--- (FileReadCap and FileWriteCap) that must be passed to functions that interact with the--- filesystem.------ Core principles:------ * Files can only be read if they're in a directory allowed by FileReadCap--- * Files can only be written if they're in a directory allowed by FileWriteCap--- * Capabilities cannot be forged - they must be obtained from authorized sources--- * Path traversal attacks are prevented through careful path validation------ Example usage:------ > -- Create capabilities with restricted access--- > readCap <- mkFileReadCap ["/path/to/project"]--- > writeCap <- mkFileWriteCap ["/path/to/staging"]--- > --- > -- Use capabilities for filesystem operations--- > content <- safeReadFile readCap "/path/to/project/src/main.hs"--- > safeWriteFile writeCap "/path/to/staging/src-main.hs" content--module Clod.Capability -  ( -- * Capability types and functionality are now in Types.hs-  ) where

@@ -48,6 +48,7 @@ import Clod.FileSystem.Detection (safeFileExists, safeIsTextFile) import Clod.FileSystem.Operations (safeCopyFile, findAllFiles) import Clod.FileSystem.Processing (processFiles, writeManifestFile, createOptimizedName)+import Clod.Output (whenVerbose) import Clod.FileSystem.Checksums (FileStatus(Unchanged, Modified, New, Renamed), detectFileChanges,                               loadDatabase, saveDatabase, updateDatabase,                                cleanupStagingDirectories, flushMissingEntries,@@ -57,7 +58,8 @@ -- | Check if a file should be ignored based on ignore patterns checkIgnorePatterns :: FilePath -> FilePath -> ClodM (Either String FileResult) checkIgnorePatterns _ relPath = do-  patterns <- ignorePatterns <$> ask+  config <- ask+  let patterns = config ^. ignorePatterns   if not (null patterns) && matchesIgnorePattern patterns relPath     then pure $ Left "matched .clodignore pattern"     else pure $ Right Success@@ -87,7 +89,8 @@ -- | Copy a file to the staging directory copyToStaging :: FileReadCap -> FileWriteCap -> FilePath -> FilePath -> ClodM (Either String FileResult) copyToStaging readCap writeCap fullPath relPath = do-  stagingPath <- currentStaging <$> ask+  config <- ask+  let stagingPath = config ^. currentStaging      -- In Core.processFile, use the file's basename directly for test compatibility   -- In production, the Core.mainLogic function uses createOptimizedName correctly@@ -98,8 +101,7 @@   safeCopyFile readCap writeCap fullPath destPath      -- Only output if verbose mode is enabled-  config <- ask-  when (verbose config) $ do+  when (config ^. verbose) $ do     liftIO $ hPutStrLn stderr $ "Copied: " ++ relPath ++ " → " ++ fileName   pure $ Right Success @@ -156,7 +158,7 @@ -- | Run the main Clod application runClodApp :: ClodConfig -> FilePath -> Bool -> Bool -> IO (Either ClodError ()) runClodApp config _ verboseFlag optAllFiles = -  let configWithVerbose = config { verbose = verboseFlag }+  let configWithVerbose = config & verbose .~ verboseFlag   in runClodM configWithVerbose $ do     when verboseFlag $ do       -- Print version information only in verbose mode@@ -168,35 +170,42 @@ -- | Main application logic mainLogic :: Bool -> ClodM () mainLogic optAllFiles = do-  config@ClodConfig{configDir, stagingDir, projectPath, databaseFile, verbose, flushMode, lastMode} <- ask+  config <- ask+  -- Access record fields directly with underscore prefix to avoid recursive definitions+  let configDir' = _configDir config+      stagingDir' = _stagingDir config+      projectPath' = _projectPath config+      databaseFile' = _databaseFile config+      isFlushMode = _flushMode config+      isLastMode = _lastMode config      -- Create directories-  liftIO $ createDirectoryIfMissing True configDir-  liftIO $ createDirectoryIfMissing True stagingDir+  liftIO $ createDirectoryIfMissing True configDir'+  liftIO $ createDirectoryIfMissing True stagingDir'      -- Only show additional info in verbose mode-  when verbose $ do-    liftIO $ hPutStrLn stderr $ "Running with capabilities, safely restricting operations to: " ++ projectPath-    liftIO $ hPutStrLn stderr $ "Safe staging directory: " ++ stagingDir+  whenVerbose $ do+    liftIO $ hPutStrLn stderr $ "Running with capabilities, safely restricting operations to: " ++ projectPath'+    liftIO $ hPutStrLn stderr $ "Safe staging directory: " ++ stagingDir'     liftIO $ hPutStrLn stderr "AI safety guardrails active with capability-based security"      -- Load .gitignore and .clodignore patterns-  gitIgnorePatterns <- readGitIgnore projectPath-  clodIgnorePatterns <- readClodIgnore projectPath+  gitIgnorePatterns <- readGitIgnore projectPath'+  clodIgnorePatterns <- readClodIgnore projectPath'   let allPatterns = gitIgnorePatterns ++ clodIgnorePatterns      -- Create a new config with the loaded patterns-  let configWithPatterns = config { ignorePatterns = allPatterns }+  let configWithPatterns = config & ignorePatterns .~ allPatterns      -- Load or initialize the checksums database-  database <- loadDatabase databaseFile+  database <- loadDatabase databaseFile'    -- Handle the --last flag-  when lastMode $ do+  when isLastMode $ do     -- If we're in "last mode", use the previous staging directory-    case dbLastStagingDir database of+    case database ^. dbLastStagingDir of       Just prevStaging -> do-        when verbose $ liftIO $ hPutStrLn stderr $ "Using previous staging directory: " ++ prevStaging+        whenVerbose $ liftIO $ hPutStrLn stderr $ "Using previous staging directory: " ++ prevStaging         -- Output the previous staging directory path and exit         liftIO $ hPutStrLn stdout prevStaging         -- Exit early since we're just reusing the last staging directory@@ -204,47 +213,47 @@                Nothing -> do         -- If no previous staging directory is available, warn and continue normally-        when verbose $ liftIO $ hPutStrLn stderr "No previous staging directory available, proceeding with new staging"+        whenVerbose $ liftIO $ hPutStrLn stderr "No previous staging directory available, proceeding with new staging"      -- Clean up previous staging directory if needed (and not in last mode)-  unless lastMode $ cleanupStagingDirectories+  unless isLastMode $ cleanupStagingDirectories      -- Find all eligible files in the project-  allFiles <- findAllFiles projectPath [""]  -- Use empty string to avoid "./" prefix+  allFiles <- findAllFiles projectPath' [""]  -- Use empty string to avoid "./" prefix      -- Create capabilities for file operations-  let readCap = fileReadCap [projectPath]-      writeCap = fileWriteCap [stagingDir]+  let readCap = fileReadCap [projectPath']+      writeCap = fileWriteCap [stagingDir']    -- First filter out files that match ignore patterns BEFORE any other processing   let filteredFiles = filter (\path -> not (matchesIgnorePattern allPatterns path)) allFiles   -  when verbose $ do+  whenVerbose $ do     liftIO $ hPutStrLn stderr $ "Total files: " ++ show (length allFiles)     liftIO $ hPutStrLn stderr $ "Filtered files (after ignore patterns): " ++ show (length filteredFiles)      -- Flush missing files from database if in flush mode-  databaseUpdated <- if flushMode-                     then flushMissingEntries readCap database projectPath+  databaseUpdated <- if isFlushMode+                     then flushMissingEntries readCap database projectPath'                      else return database      -- Prepare to create the _path_manifest.dhall file-  let manifestPath = stagingDir </> "_path_manifest.dhall"+  let manifestPath = stagingDir' </> "_path_manifest.dhall"      -- Detect file changes by comparing checksums with database (using filtered files)-  (changedFiles, renamedFiles) <- detectFileChanges readCap databaseUpdated filteredFiles projectPath+  (changedFiles, renamedFiles) <- detectFileChanges readCap databaseUpdated filteredFiles projectPath'      -- Filter files based on database existence-  let dbExists = not $ null $ dbFiles databaseUpdated+  let dbExists = not $ null $ databaseUpdated ^. dbFiles      -- Debug output for database existence-  when verbose $ do+  whenVerbose $ do     liftIO $ hPutStrLn stderr $ "Database exists: " ++ show dbExists-    liftIO $ hPutStrLn stderr $ "Database entries: " ++ show (length $ dbFiles databaseUpdated)+    liftIO $ hPutStrLn stderr $ "Database entries: " ++ show (length $ databaseUpdated ^. dbFiles)      -- Find unchanged files for debugging   let unchangedFiles = filter (\(_, status) -> status == Unchanged) changedFiles-  when verbose $ do+  whenVerbose $ do     liftIO $ hPutStrLn stderr $ "Unchanged files: " ++ show (length unchangedFiles) ++ " of " ++ show (length changedFiles)        -- Get paths of changed files@@ -261,7 +270,7 @@   let filesToProcess = changedPaths      -- Log detailed information about file processing-  when verbose $ do+  whenVerbose $ do     let unchangedCount = length $ filter (\(_, status) -> status == Unchanged) changedFiles     let newCount = length $ filter (\(_, status) -> status == New) changedFiles     let modifiedCount = length $ filter (\(_, status) -> status == Modified) changedFiles@@ -270,7 +279,7 @@                                   Renamed _ -> True                                   _ -> False) changedFiles     -    liftIO $ hPutStrLn stderr $ "Database entries: " ++ show (length $ dbFiles databaseUpdated)+    liftIO $ hPutStrLn stderr $ "Database entries: " ++ show (length $ databaseUpdated ^. dbFiles)     liftIO $ hPutStrLn stderr $ "Files to process: " ++ show (length filesToProcess)     liftIO $ hPutStrLn stderr $ "  - Unchanged: " ++ show unchangedCount     liftIO $ hPutStrLn stderr $ "  - New: " ++ show newCount@@ -280,7 +289,7 @@   -- First pass: Add all files to the manifest   -- Create database entries for all files   let processFile' path = do-        let fullPath = projectPath </> path+        let fullPath = projectPath' </> path         checksum <- checksumFile readCap fullPath         modTime <- liftIO $ getModificationTime fullPath         let optName = createOptimizedName path@@ -290,7 +299,7 @@   -- This ensures consistency with the filtering we already did earlier   entries <- filterM (\path -> do                 -- Check if it's a text file-                isText <- safeIsTextFile readCap (projectPath </> path)+                isText <- safeIsTextFile readCap (projectPath' </> path)                 return isText              ) filteredFiles >>=               mapM processFile'@@ -302,24 +311,24 @@   -- Write the _path_manifest.dhall file   _ <- writeManifestFile writeCap manifestPath manifestEntries   -  when verbose $ do+  whenVerbose $ do     liftIO $ hPutStrLn stderr $ "Added " ++ show (length entries) ++ " files to _path_manifest.dhall"      -- Second pass: Only copy changed files to staging   if null filesToProcess-    then when verbose $ do+    then whenVerbose $ do       liftIO $ hPutStrLn stderr "No files changed since last run"     else do       -- Process files that have changed (copy to staging)-      when verbose $ do+      whenVerbose $ do         liftIO $ hPutStrLn stderr $ "Files to process: " ++ show (length filesToProcess)       (processed, skipped) <- processFiles configWithPatterns manifestPath filesToProcess False       -      when verbose $ do+      whenVerbose $ do         liftIO $ hPutStrLn stderr $ "Processed " ++ show processed ++ " files, skipped " ++ show skipped ++ " files"              -- Report renamed files if verbose-      when (verbose && not (null renamedFiles)) $ do+      whenVerbose $ when (not (null renamedFiles)) $ do         liftIO $ hPutStrLn stderr "Detected renamed files:"         forM_ renamedFiles $ \(newPath, oldPath) -> do           liftIO $ hPutStrLn stderr $ "  " ++ oldPath ++ " → " ++ newPath@@ -333,14 +342,13 @@       databaseUpdated entries            -- Set the last staging directory-    databaseWithStaging = finalDatabase { -        dbLastStagingDir = Just stagingDir,-        dbLastRunTime = dbLastRunTime finalDatabase -      }+    databaseWithStaging = finalDatabase +      & dbLastStagingDir .~ Just stagingDir'+      & dbLastRunTime .~ (finalDatabase ^. dbLastRunTime)      -- Save the updated database with the current staging directory path-  saveDatabase databaseFile databaseWithStaging+  saveDatabase databaseFile' databaseWithStaging      -- Output ONLY the staging directory path to stdout for piping to other tools   -- This follows Unix principles - single line of output for easy piping-  liftIO $ hPutStrLn stdout stagingDir+  liftIO $ hPutStrLn stdout stagingDir'

@@ -1,61 +0,0 @@-{-# LANGUAGE TemplateHaskell #-}-{-# LANGUAGE TypeOperators #-}-{-# LANGUAGE FlexibleContexts #-}-{-# LANGUAGE GADTs #-}-{-# LANGUAGE LambdaCase #-}-{-# LANGUAGE DataKinds #-}-{-# LANGUAGE ScopedTypeVariables #-}-{-# LANGUAGE PolyKinds #-}-{-# LANGUAGE TypeFamilies #-}-{-# LANGUAGE UndecidableInstances #-}-{-# LANGUAGE ConstraintKinds #-}-{-# LANGUAGE RankNTypes #-}-{-# LANGUAGE QuantifiedConstraints #-}---- |--- Module      : Clod.Effects--- Description : Effect types and utilities for Clod--- Copyright   : (c) Fuzz Leonard, 2025--- License     : MIT--- Maintainer  : ink@fuzz.ink--- Stability   : experimental------ This module provides types and utilities for working with effects in Clod.--- It uses a traditional monad transformer stack rather than an algebraic effects--- system, prioritizing type inference and error reporting clarity.------ The module re-exports the core functionality from Clod.Types to provide--- a clean interface for working with the ClodM monad stack.--module Clod.Effects -  ( -- * Core effect types-    ClodM-  , ClodError(..)-  , ClodConfig(..)-  -    -- * Running effects-  , runClodM-  -    -- * Monadic operations-  , throwError-  , catchError-  , liftIO-  -    -- * Reader operations-  , ask-  , asks-  , local-  ) where--import Clod.Types-  ( ClodM-  , ClodError(..)-  , ClodConfig(..)-  , runClodM-  , throwError-  , catchError-  , liftIO-  , ask-  , asks-  , local-  )

@@ -73,7 +73,7 @@   ) where  import Control.Exception (try, IOException, SomeException)-import Control.Monad (when, forM)+import Control.Monad (forM, when) import qualified Data.ByteString as BS import qualified Data.Map.Strict as Map import Data.Maybe (mapMaybe, catMaybes)@@ -83,9 +83,15 @@ import System.FilePath ((</>), takeDirectory) import GHC.Generics (Generic) import Numeric (showHex)-import Clod.Types+import Clod.Types ((^.), (.~), (%~), (&), verbose, flushMode, dbFiles, dbChecksums,+                  entryChecksum, entryPath, previousStaging, +                  ClodDatabase(..), FileEntry(..), +                  Checksum(..), ClodM, FileReadCap(..), ClodError(..), OptimizedName(..),+                  DatabaseErrorType(..), -- Add the DatabaseErrorType+                  toSerializable, fromSerializable, ask, liftIO, throwError) import Clod.FileSystem.Detection (safeFileExists, safeIsTextFile) import Clod.FileSystem.Operations (safeReadFile)+import Clod.Output (whenVerbose)  import qualified Data.Text.IO as TextIO import qualified Dhall@@ -130,7 +136,7 @@       -- Check if it's a text file       isText <- safeIsTextFile readCap path       if not isText-        then throwError $ ChecksumError $ "Cannot checksum binary or ineligible file: " ++ path+        then throwError $ ChecksumError path "Cannot checksum binary or ineligible file"         else do           -- Read file content and calculate checksum           content <- safeReadFile readCap path@@ -141,10 +147,10 @@ initializeDatabase = do   currentTime <- liftIO getCurrentTime   return $ ClodDatabase-    { dbFiles = Map.empty-    , dbChecksums = Map.empty-    , dbLastStagingDir = Nothing-    , dbLastRunTime = currentTime+    { _dbFiles = Map.empty+    , _dbChecksums = Map.empty+    , _dbLastStagingDir = Nothing+    , _dbLastRunTime = currentTime     }  -- | Load the database from disk using Dhall@@ -173,8 +179,11 @@         Left err -> do           -- If parsing fails, log the error in verbose mode           config <- ask-          when (verbose config) $ +          when (config ^. verbose) $ do             liftIO $ putStrLn $ "Warning: Failed to parse database: " ++ show err+            -- Log the enhanced error format for better diagnostics+            liftIO $ putStrLn $ "Database error details: " ++ +              show (DatabaseError dbPath (DBCorrupted (show err)))                      -- Create a new database           whenVerbose $ liftIO $ putStrLn "Creating a new empty database"@@ -182,10 +191,6 @@           -- Save it right away to ensure it's in the right format for next time           saveDatabase dbPath db           return db-  where-    whenVerbose action = do-      config <- ask-      when (verbose config) action  -- | Save the database to disk using Dhall serialization saveDatabase :: FilePath -> ClodDatabase -> ClodM ()@@ -211,12 +216,8 @@     renameFile tempPath dbPath      case eitherResult of-    Left err -> throwError $ DatabaseError $ "Failed to save database: " ++ show err+    Left err -> throwError $ DatabaseError dbPath (DBOtherError $ "Failed to save: " ++ show err)     Right _ -> whenVerbose $ liftIO $ putStrLn $ "Successfully saved database to: " ++ dbPath-  where-    whenVerbose action = do-      config <- ask-      when (verbose config) action         @@ -226,24 +227,24 @@   let      -- Create new file entry     newEntry = FileEntry-      { entryPath = path-      , entryChecksum = checksum-      , entryLastModified = modTime-      , entryOptimizedName = optName+      { _entryPath = path+      , _entryChecksum = checksum+      , _entryLastModified = modTime+      , _entryOptimizedName = optName       }     -    -- Update maps-    newFiles = Map.insert path newEntry (dbFiles db)-    newChecksums = Map.insert (unChecksum checksum) path (dbChecksums db)+    -- Update maps using lenses+    db1 = db & dbFiles %~ Map.insert path newEntry+    db2 = db1 & dbChecksums %~ Map.insert (unChecksum checksum) path   in-    db { dbFiles = newFiles, dbChecksums = newChecksums }+    db2  -- | Detect file status by comparing against database getFileStatus :: ClodDatabase -> FilePath -> Checksum -> ClodM FileStatus getFileStatus db path checksum = do   let -    files = dbFiles db-    checksums = dbChecksums db+    files = db ^. dbFiles+    checksums = db ^. dbChecksums     checksumStr = unChecksum checksum    -- Check if file exists in database@@ -262,7 +263,7 @@     -- File exists in database     Just entry ->       -- Check if checksum matches-      if entryChecksum entry == checksum+      if entry ^. entryChecksum == checksum         then return Unchanged         else return Modified @@ -276,11 +277,6 @@     status <- getFileStatus db path checksum     whenVerbose $ liftIO $ putStrLn $ "File status for " ++ path ++ ": " ++ show status     return (path, status)-  -  where-    whenVerbose action = do-      config <- ask-      when (verbose config) action  -- | Find files that have been renamed findRenamedFiles :: ClodDatabase -> [(FilePath, FileStatus)] -> [(FilePath, FilePath)]@@ -294,7 +290,7 @@ detectFileChanges :: FileReadCap -> ClodDatabase -> [FilePath] -> FilePath -> ClodM ([(FilePath, FileStatus)], [(FilePath, FilePath)]) detectFileChanges readCap db filePaths projectRoot = do   whenVerbose $ liftIO $ putStrLn $ "Detecting changes for " ++ show (length filePaths) ++ " files"-  whenVerbose $ liftIO $ putStrLn $ "Database has " ++ show (Map.size (dbFiles db)) ++ " entries"+  whenVerbose $ liftIO $ putStrLn $ "Database has " ++ show (Map.size (db ^. dbFiles)) ++ " entries"      -- For each file, calculate checksum and get modification time   fileInfos <- catMaybes <$> forM filePaths (\path -> do@@ -332,10 +328,6 @@      return (changedFiles, renamedFiles)   -  where-    whenVerbose action = do-      config <- ask-      when (verbose config) action   -- | Clean up old staging directories@@ -344,7 +336,7 @@   config <- ask      -- Check if there's a previous staging directory to clean up-  case previousStaging config of+  case config ^. previousStaging of     Nothing -> return ()     Just oldDir -> do       -- Check if directory exists@@ -356,24 +348,21 @@         case result of           Left err -> whenVerbose $ liftIO $ putStrLn $ "Warning: Failed to remove old staging directory: " ++ show err           Right _ -> return ()-  where-    whenVerbose action = do-      config <- ask-      when (verbose config) action + -- | Find and remove missing files from the database flushMissingEntries :: FileReadCap -> ClodDatabase -> FilePath -> ClodM ClodDatabase flushMissingEntries readCap db projectRoot = do   config <- ask      -- Don't proceed unless in flush mode-  if not (flushMode config)+  if not (config ^. flushMode)     then return db     else do       whenVerbose $ liftIO $ putStrLn "Checking for missing files to flush from database..."              -- Check each file in database to see if it still exists-      let files = Map.toList (dbFiles db)+      let files = Map.toList (db ^. dbFiles)       existingEntries <- forM files $ \(path, entry) -> do         let fullPath = projectRoot </> path         fileExists <- safeFileExists readCap fullPath@@ -386,19 +375,17 @@              -- Filter out missing files       let newFiles = Map.fromList [(path, entry) | (path, Just entry) <- existingEntries]-          missingCount = length (dbFiles db) - Map.size newFiles+          missingCount = Map.size (db ^. dbFiles) - Map.size newFiles                  -- Rebuild checksums map       let newChecksums = Map.fromList -                       $ map (\entry -> (unChecksum (entryChecksum entry), entryPath entry)) +                       $ map (\entry -> (unChecksum (entry ^. entryChecksum), entry ^. entryPath))                         $ Map.elems newFiles              -- Report results       whenVerbose $ liftIO $ putStrLn $ "Removed " ++ show missingCount ++ " missing files from database"              -- Return updated database-      return db { dbFiles = newFiles, dbChecksums = newChecksums }-  where-    whenVerbose action = do-      config <- ask-      when (verbose config) action+      let db1 = db & dbFiles .~ newFiles+          db2 = db1 & dbChecksums .~ newChecksums+      return db2

@@ -27,7 +27,6 @@ import Control.Exception (try, SomeException) import Control.Monad.Except (throwError) import Control.Monad.IO.Class (liftIO)-import Control.Monad.Reader (asks) import Data.List (isPrefixOf) import Data.Time.Clock (UTCTime) import System.Directory (doesFileExist, getModificationTime, canonicalizePath)@@ -37,7 +36,8 @@ import qualified Dhall import Data.FileEmbed (embedStringFile) -import Clod.Types (ClodM, FileReadCap(..), ClodError(..), isPathAllowed, ClodConfig(..))+import Clod.Types (ClodM, FileReadCap(..), ClodError(..), isPathAllowed, +                 allowedReadDirs, configDir, ask, (^.)) import qualified Magic.Init as Magic import qualified Magic.Operations as Magic @@ -68,7 +68,8 @@ -- and falls back to the embedded default patterns if not found. loadTextPatterns :: ClodM TextPatterns loadTextPatterns = do-  clodDir <- asks configDir+  config <- ask+  let clodDir = config ^. configDir      -- First check if there's a custom pattern file in the clod directory   let customPath = clodDir </> "resources" </> "text_patterns.dhall"@@ -143,19 +144,19 @@ -- | Safe file existence check that checks capabilities safeFileExists :: FileReadCap -> FilePath -> ClodM Bool safeFileExists cap path = do-  allowed <- liftIO $ isPathAllowed (allowedReadDirs cap) path+  allowed <- liftIO $ isPathAllowed (cap ^. allowedReadDirs) path   if allowed     then liftIO $ doesFileExist path     else do       canonicalPath <- liftIO $ canonicalizePath path-      throwError $ CapabilityError $ "Access denied: Cannot check existence of file outside allowed directories: " ++ canonicalPath+      throwError $ CapabilityError canonicalPath "Access denied: Cannot check existence of file outside allowed directories"  -- | Safe file type check that checks capabilities safeIsTextFile :: FileReadCap -> FilePath -> ClodM Bool safeIsTextFile cap path = do-  allowed <- liftIO $ isPathAllowed (allowedReadDirs cap) path+  allowed <- liftIO $ isPathAllowed (cap ^. allowedReadDirs) path   if allowed     then isTextFile path     else do       canonicalPath <- liftIO $ canonicalizePath path-      throwError $ CapabilityError $ "Access denied: Cannot check file type outside allowed directories: " ++ canonicalPath+      throwError $ CapabilityError canonicalPath "Access denied: Cannot check file type outside allowed directories"

@@ -29,7 +29,8 @@ import System.FilePath ((</>)) import qualified Data.ByteString as BS -import Clod.Types (ClodM, FileReadCap(..), FileWriteCap(..), ClodError(..), isPathAllowed)+import Clod.Types (ClodM, FileReadCap(..), FileWriteCap(..), ClodError(..), isPathAllowed,+                   allowedReadDirs, allowedWriteDirs, (^.))  -- | Recursively find all files in a directory --@@ -83,36 +84,36 @@ -- | Safe file reading that checks capabilities safeReadFile :: FileReadCap -> FilePath -> ClodM BS.ByteString safeReadFile cap path = do-  allowed <- liftIO $ isPathAllowed (allowedReadDirs cap) path+  allowed <- liftIO $ isPathAllowed (cap ^. allowedReadDirs) path   if allowed     then liftIO $ BS.readFile path     else do       canonicalPath <- liftIO $ canonicalizePath path-      throwError $ CapabilityError $ "Access denied: Cannot read file outside allowed directories: " ++ canonicalPath+      throwError $ CapabilityError canonicalPath "Access denied: Cannot read file outside allowed directories"  -- | Safe file writing that checks capabilities safeWriteFile :: FileWriteCap -> FilePath -> BS.ByteString -> ClodM () safeWriteFile cap path content = do-  allowed <- liftIO $ isPathAllowed (allowedWriteDirs cap) path+  allowed <- liftIO $ isPathAllowed (cap ^. allowedWriteDirs) path   if allowed     then liftIO $ BS.writeFile path content     else do       canonicalPath <- liftIO $ canonicalizePath path-      throwError $ CapabilityError $ "Access denied: Cannot write file outside allowed directories: " ++ canonicalPath+      throwError $ CapabilityError canonicalPath "Access denied: Cannot write file outside allowed directories"  -- | Safe file copying that checks capabilities for both read and write safeCopyFile :: FileReadCap -> FileWriteCap -> FilePath -> FilePath -> ClodM () safeCopyFile readCap writeCap src dest = do-  srcAllowed <- liftIO $ isPathAllowed (allowedReadDirs readCap) src-  destAllowed <- liftIO $ isPathAllowed (allowedWriteDirs writeCap) dest+  srcAllowed <- liftIO $ isPathAllowed (readCap ^. allowedReadDirs) src+  destAllowed <- liftIO $ isPathAllowed (writeCap ^. allowedWriteDirs) dest   if srcAllowed && destAllowed     then liftIO $ copyFile src dest     else do       canonicalSrc <- liftIO $ canonicalizePath src       canonicalDest <- liftIO $ canonicalizePath dest-      let errorMsg = if not srcAllowed && not destAllowed-                     then "Access denied: Both source and destination paths violate restrictions"-                     else if not srcAllowed-                          then "Access denied: Source path violates restrictions: " ++ canonicalSrc-                          else "Access denied: Destination path violates restrictions: " ++ canonicalDest-      throwError $ CapabilityError errorMsg+      let (path, errorMsg) = if not srcAllowed && not destAllowed+                             then (canonicalSrc, "Access denied: Both source and destination paths violate restrictions")+                             else if not srcAllowed+                                  then (canonicalSrc, "Access denied: Source path violates restrictions")+                                  else (canonicalDest, "Access denied: Destination path violates restrictions")+      throwError $ CapabilityError path errorMsg

@@ -29,16 +29,19 @@ import System.FilePath (takeDirectory, takeFileName, (</>)) import qualified System.IO import System.IO (stderr, hPutStrLn)-import Control.Monad (when)+-- Control.Monad was only imported for 'when' which is now provided by Clod.Output import Control.Monad.Except (throwError)  import qualified System.Directory as D (copyFile)  import Clod.Types (OptimizedName(..), OriginalPath(..), ClodM, ClodConfig(..), -                  liftIO, FileWriteCap(..), fileWriteCap, isPathAllowed, ClodError(..))+                  liftIO, FileWriteCap(..), fileWriteCap, isPathAllowed, ClodError(..),+                  currentStaging, projectPath, ignorePatterns, stagingDir,+                  allowedWriteDirs, (^.)) import Clod.IgnorePatterns (matchesIgnorePattern) import Clod.FileSystem.Detection (isTextFile) import Clod.FileSystem.Transformations (transformFilename)+import Clod.Output (whenVerbose)  -- | A manifest entry consisting of an optimized name and original path --@@ -175,7 +178,7 @@     processOneFile :: FilePath -> ClodM (Maybe [ManifestEntry], Int)     processOneFile file = do       -- Get full path-      let fullPath = projectPath config </> file+      let fullPath = config ^. projectPath </> file              -- Skip if not a regular file       isFile <- liftIO $ doesFileExist fullPath@@ -183,9 +186,9 @@         then return (Nothing, 0)         else do           -- Skip any files in the staging directory-          if stagingDir config `L.isInfixOf` fullPath+          if (config ^. stagingDir) `L.isInfixOf` fullPath             then do-              when (verbose config) $ do+              whenVerbose $ do                 liftIO $ hPutStrLn stderr $ "Skipping: " ++ fullPath ++ " (in staging directory)"               return (Nothing, 0)             else do@@ -198,7 +201,7 @@     processForManifestOnly :: ClodConfig -> FilePath -> FilePath -> ClodM (Maybe [ManifestEntry], Int)     processForManifestOnly cfg fullPath relPath = do       -- Skip if matches ignore patterns-      let patterns = ignorePatterns cfg+      let patterns = cfg ^. ignorePatterns       if not (null patterns) && matchesIgnorePattern patterns relPath         then return (Nothing, 1)         else do@@ -224,7 +227,7 @@           return (Nothing, 1)       | otherwise = do           -- Skip if matches ignore patterns-          let patterns = ignorePatterns cfg+          let patterns = cfg ^. ignorePatterns           if not (null patterns) && matchesIgnorePattern patterns relPath             then return (Nothing, 1)             else do@@ -241,10 +244,10 @@                       getOptimizedName (OptimizedName name) = name                                      -- Copy file with optimized name-                  liftIO $ D.copyFile fullPath (currentStaging cfg </> getOptimizedName optimizedName)+                  liftIO $ D.copyFile fullPath (cfg ^. currentStaging </> getOptimizedName optimizedName)                                      -- Report the copy operation only when verbose flag is set (to stderr)-                  when (verbose cfg) $ do+                  whenVerbose $ do                     liftIO $ hPutStrLn stderr $ "Copied: " ++ relPath ++ " → " ++ getOptimizedName optimizedName                                      return (Just [entry], 0)@@ -279,9 +282,9 @@         in "  " ++ dhallOptimizedName ++ " = " ++ dhallOriginalPath ++ comma      -- Check if path is allowed by capability-  allowed <- liftIO $ isPathAllowed (allowedWriteDirs writeCap) manifestPath+  allowed <- liftIO $ isPathAllowed (writeCap ^. allowedWriteDirs) manifestPath   if not allowed-    then throwError $ CapabilityError $ "Access denied: Cannot write manifest file outside allowed directories: " ++ manifestPath+    then throwError $ CapabilityError manifestPath "Access denied: Cannot write manifest file outside allowed directories"     else do       -- Write the complete manifest file at once, ensuring handles are closed promptly       let content = unlines manifestLines

@@ -27,6 +27,7 @@   , printSuccess   , printError   , printWarning+  , whenVerbose        -- * User interaction   , promptUser@@ -36,10 +37,10 @@   , showNextSteps   ) where -import Control.Monad (unless)+import Control.Monad (unless, when) import System.IO (hFlush, stdout) -import Clod.Types+import Clod.Types (ClodM, ClodConfig(..), testMode, verbose, (^.), ask, liftIO)  -- | ANSI color codes for pretty printing red, green, yellow, noColor :: String@@ -64,6 +65,12 @@ printWarning :: String -> ClodM () printWarning msg = liftIO $ putStrLn $ yellow ++ "! " ++ msg ++ noColor +-- | Execute an action only when verbose mode is enabled+whenVerbose :: ClodM () -> ClodM ()+whenVerbose action = do+  config <- ask+  when (config ^. verbose) action+ -- | Prompt the user for input with a default value -- -- This function displays a prompt with a default value in brackets.@@ -114,7 +121,7 @@ showNextSteps :: ClodConfig  -- ^ Program configuration               -> FilePath    -- ^ Path to the staging directory               -> ClodM ()-showNextSteps config _ = unless (testMode config) $ +showNextSteps config _ = unless (config ^. testMode) $    mapM_ (liftIO . putStrLn) $ [""] ++ steps ++ [""] ++ notes   where     -- Numbered steps for Claude integration

@@ -6,9 +6,11 @@ {-# LANGUAGE DeriveGeneric #-} {-# LANGUAGE DeriveAnyClass #-} {-# LANGUAGE DerivingStrategies #-}+{-# LANGUAGE DeriveFunctor #-} {-# LANGUAGE StrictData #-} {-# LANGUAGE ConstraintKinds #-} {-# LANGUAGE InstanceSigs #-}+{-# LANGUAGE RankNTypes #-}  -- | -- Module      : Clod.Types@@ -35,6 +37,7 @@     ClodConfig(..)   , FileResult(..)   , ClodError(..)+  , DatabaseErrorType(..)   , ClodM   , FileEntry(..)   , ClodDatabase(..)@@ -42,6 +45,11 @@   , toSerializable   , fromSerializable   +    -- * Validation types and functions+  , Validated(..)+  , validatedToEither+  , eitherToValidated+     -- * Type conversions and runners   , runClodM   , throwError@@ -67,11 +75,45 @@        -- * Path validation   , isPathAllowed+    +    -- * Lens operators and accessors+  , (^.), (.~), (%~), (&)+    +    -- * Field lenses for ClodConfig+  , projectPath+  , stagingDir+  , configDir+  , databaseFile+  , timestamp+  , currentStaging+  , previousStaging+  , testMode+  , verbose+  , flushMode+  , lastMode+  , ignorePatterns+    +    -- * Field lenses for ClodDatabase+  , dbFiles+  , dbChecksums+  , dbLastStagingDir+  , dbLastRunTime+    +    -- * Field lenses for FileEntry+  , entryPath+  , entryChecksum+  , entryLastModified+  , entryOptimizedName+    +    -- * Field lenses for capability types+  , allowedReadDirs+  , allowedWriteDirs   ) where  import Control.Monad.Except (ExceptT, runExceptT, throwError, catchError) import Control.Monad.IO.Class (liftIO) import Control.Monad.Reader (ReaderT, ask, asks, local, runReaderT)+import Control.Lens (Lens', lens, (^.), (.~), (%~), (&), makePrisms) import Data.String (IsString(..)) import GHC.Generics (Generic) import Data.List (isPrefixOf)@@ -111,20 +153,68 @@  -- | Configuration for the clod program data ClodConfig = ClodConfig-  { projectPath    :: !FilePath      -- ^ Root path of the project-  , stagingDir     :: !FilePath      -- ^ Directory where files will be staged for Claude-  , configDir      :: !FilePath      -- ^ Directory for configuration files-  , databaseFile   :: !FilePath      -- ^ Path to the checksums database file-  , timestamp      :: !String        -- ^ Timestamp for the current run-  , currentStaging :: !FilePath      -- ^ Path to the current staging directory-  , previousStaging :: !(Maybe FilePath) -- ^ Path to the previous staging directory, if any-  , testMode       :: !Bool          -- ^ Whether we're running in test mode-  , verbose        :: !Bool          -- ^ Whether to print verbose output-  , flushMode      :: !Bool          -- ^ Whether to flush stale entries from the database-  , lastMode       :: !Bool          -- ^ Whether to use the previous staging directory-  , ignorePatterns :: ![IgnorePattern] -- ^ Patterns from .gitignore and .clodignore+  { _projectPath    :: !FilePath      -- ^ Root path of the project+  , _stagingDir     :: !FilePath      -- ^ Directory where files will be staged for Claude+  , _configDir      :: !FilePath      -- ^ Directory for configuration files+  , _databaseFile   :: !FilePath      -- ^ Path to the checksums database file+  , _timestamp      :: !String        -- ^ Timestamp for the current run+  , _currentStaging :: !FilePath      -- ^ Path to the current staging directory+  , _previousStaging :: !(Maybe FilePath) -- ^ Path to the previous staging directory, if any+  , _testMode       :: !Bool          -- ^ Whether we're running in test mode+  , _verbose        :: !Bool          -- ^ Whether to print verbose output+  , _flushMode      :: !Bool          -- ^ Whether to flush stale entries from the database+  , _lastMode       :: !Bool          -- ^ Whether to use the previous staging directory+  , _ignorePatterns :: ![IgnorePattern] -- ^ Patterns from .gitignore and .clodignore   } deriving stock (Show, Eq, Generic) +-- | Lens for projectPath field+projectPath :: Lens' ClodConfig FilePath+projectPath = lens _projectPath (\c v -> c { _projectPath = v })++-- | Lens for stagingDir field+stagingDir :: Lens' ClodConfig FilePath+stagingDir = lens _stagingDir (\c v -> c { _stagingDir = v })++-- | Lens for configDir field+configDir :: Lens' ClodConfig FilePath+configDir = lens _configDir (\c v -> c { _configDir = v })++-- | Lens for databaseFile field+databaseFile :: Lens' ClodConfig FilePath+databaseFile = lens _databaseFile (\c v -> c { _databaseFile = v })++-- | Lens for timestamp field+timestamp :: Lens' ClodConfig String+timestamp = lens _timestamp (\c v -> c { _timestamp = v })++-- | Lens for currentStaging field+currentStaging :: Lens' ClodConfig FilePath+currentStaging = lens _currentStaging (\c v -> c { _currentStaging = v })++-- | Lens for previousStaging field+previousStaging :: Lens' ClodConfig (Maybe FilePath)+previousStaging = lens _previousStaging (\c v -> c { _previousStaging = v })++-- | Lens for testMode field+testMode :: Lens' ClodConfig Bool+testMode = lens _testMode (\c v -> c { _testMode = v })++-- | Lens for verbose field+verbose :: Lens' ClodConfig Bool+verbose = lens _verbose (\c v -> c { _verbose = v })++-- | Lens for flushMode field+flushMode :: Lens' ClodConfig Bool+flushMode = lens _flushMode (\c v -> c { _flushMode = v })++-- | Lens for lastMode field+lastMode :: Lens' ClodConfig Bool+lastMode = lens _lastMode (\c v -> c { _lastMode = v })++-- | Lens for ignorePatterns field+ignorePatterns :: Lens' ClodConfig [IgnorePattern]+ignorePatterns = lens _ignorePatterns (\c v -> c { _ignorePatterns = v })+ -- | Result of processing a file --  -- * 'Success' indicates the file was successfully processed and included@@ -134,19 +224,53 @@   | Skipped !String      -- ^ File was skipped with the given reason   deriving stock (Show, Eq, Generic) +-- | Database error types for more specific error reporting+data DatabaseErrorType +  = DBFileNotFound      -- ^ Database file could not be found+  | DBCorrupted String  -- ^ Database file is corrupted with details+  | DBVersionMismatch   -- ^ Database version is incompatible+  | DBOtherError String -- ^ Other database error with description+  deriving stock (Show, Eq, Generic)+ -- | Errors that can occur during Clod operation -- -- These represent the different categories of errors that can occur during -- file processing, allowing for specific error handling for each case. data ClodError -  = FileSystemError !FilePath !IOError -- ^ Error related to filesystem operations-  | ConfigError !String                -- ^ Error related to configuration (e.g., invalid settings)-  | PatternError !String               -- ^ Error related to pattern matching (e.g., invalid pattern)-  | CapabilityError !String            -- ^ Error related to capability validation-  | DatabaseError !String              -- ^ Error related to checksums database-  | ChecksumError !String              -- ^ Error related to checksum calculation+  = FileSystemError !FilePath !IOError        -- ^ Error related to filesystem operations+  | ConfigError !String                       -- ^ Error related to configuration (e.g., invalid settings)+  | PatternError !String                      -- ^ Error related to pattern matching (e.g., invalid pattern)+  | CapabilityError !FilePath !String         -- ^ Error related to capability validation with the path+  | DatabaseError !FilePath !DatabaseErrorType -- ^ Error related to checksums database with file and type+  | ChecksumError !FilePath !String           -- ^ Error related to checksum calculation with the file   deriving stock (Show, Eq, Generic) +-- Generate prisms for ClodError+makePrisms ''ClodError++-- | Validation type for collecting multiple errors+-- This allows us to accumulate errors instead of stopping at the first one+data Validated a = Invalid [ClodError] | Valid a+  deriving stock (Functor, Show, Eq)++instance Applicative Validated where+  pure = Valid+  Invalid errs1 <*> Invalid errs2 = Invalid (errs1 ++ errs2)+  Invalid errs <*> _ = Invalid errs+  _ <*> Invalid errs = Invalid errs+  Valid f <*> Valid a = Valid (f a)++-- | Convert from Validated to Either for compatibility+validatedToEither :: Validated a -> Either ClodError a+validatedToEither (Valid a) = Right a+validatedToEither (Invalid []) = Left (ConfigError "Unknown error")+validatedToEither (Invalid (e:_)) = Left e  -- Return first error for simplicity++-- | Convert from Either to Validated for integration+eitherToValidated :: Either ClodError a -> Validated a+eitherToValidated (Right a) = Valid a+eitherToValidated (Left e) = Invalid [e]+ -- | Newtype for file checksums to prevent mixing with other string types newtype Checksum = Checksum { unChecksum :: String }   deriving (Show, Eq, Ord) via String@@ -160,21 +284,53 @@  -- | File entry in the checksum database data FileEntry = FileEntry-  { entryPath         :: !FilePath       -- ^ Original path-  , entryChecksum     :: !Checksum       -- ^ File content checksum-  , entryLastModified :: !UTCTime        -- ^ Last modified time-  , entryOptimizedName :: !OptimizedName -- ^ Name in staging directory+  { _entryPath         :: !FilePath       -- ^ Original path+  , _entryChecksum     :: !Checksum       -- ^ File content checksum+  , _entryLastModified :: !UTCTime        -- ^ Last modified time+  , _entryOptimizedName :: !OptimizedName -- ^ Name in staging directory   } deriving stock (Show, Eq, Generic)     deriving anyclass (FromDhall, ToDhall, FromJSON, ToJSON) +-- | Lens for entryPath field+entryPath :: Lens' FileEntry FilePath+entryPath = lens _entryPath (\e v -> e { _entryPath = v })++-- | Lens for entryChecksum field+entryChecksum :: Lens' FileEntry Checksum+entryChecksum = lens _entryChecksum (\e v -> e { _entryChecksum = v })++-- | Lens for entryLastModified field+entryLastModified :: Lens' FileEntry UTCTime+entryLastModified = lens _entryLastModified (\e v -> e { _entryLastModified = v })++-- | Lens for entryOptimizedName field+entryOptimizedName :: Lens' FileEntry OptimizedName+entryOptimizedName = lens _entryOptimizedName (\e v -> e { _entryOptimizedName = v }) + -- | Main database structure data ClodDatabase = ClodDatabase-  { dbFiles          :: !(Map FilePath FileEntry)  -- ^ All tracked files by path-  , dbChecksums      :: !(Map String FilePath)     -- ^ Mapping from checksum to path (for rename detection)-  , dbLastStagingDir :: !(Maybe FilePath)          -- ^ Previous staging directory-  , dbLastRunTime    :: !UTCTime                  -- ^ Time of last run+  { _dbFiles          :: !(Map FilePath FileEntry)  -- ^ All tracked files by path+  , _dbChecksums      :: !(Map String FilePath)     -- ^ Mapping from checksum to path (for rename detection)+  , _dbLastStagingDir :: !(Maybe FilePath)          -- ^ Previous staging directory+  , _dbLastRunTime    :: !UTCTime                  -- ^ Time of last run   } deriving stock (Show, Eq, Generic) +-- | Lens for dbFiles field+dbFiles :: Lens' ClodDatabase (Map FilePath FileEntry)+dbFiles = lens _dbFiles (\d v -> d { _dbFiles = v })++-- | Lens for dbChecksums field+dbChecksums :: Lens' ClodDatabase (Map String FilePath)+dbChecksums = lens _dbChecksums (\d v -> d { _dbChecksums = v })++-- | Lens for dbLastStagingDir field+dbLastStagingDir :: Lens' ClodDatabase (Maybe FilePath)+dbLastStagingDir = lens _dbLastStagingDir (\d v -> d { _dbLastStagingDir = v })++-- | Lens for dbLastRunTime field+dbLastRunTime :: Lens' ClodDatabase UTCTime+dbLastRunTime = lens _dbLastRunTime (\d v -> d { _dbLastRunTime = v })+ -- | Serialization-friendly version of ClodDatabase data SerializableClodDatabase = SerializableClodDatabase   { serializedFiles          :: ![(FilePath, FileEntry)]  -- ^ All tracked files as pairs@@ -187,19 +343,19 @@ -- | Convert to serializable form toSerializable :: ClodDatabase -> SerializableClodDatabase toSerializable db = SerializableClodDatabase-  { serializedFiles = Map.toList (dbFiles db)-  , serializedChecksums = Map.toList (dbChecksums db)-  , serializedLastStagingDir = dbLastStagingDir db-  , serializedLastRunTime = dbLastRunTime db+  { serializedFiles = Map.toList (db ^. dbFiles)+  , serializedChecksums = Map.toList (db ^. dbChecksums)+  , serializedLastStagingDir = db ^. dbLastStagingDir+  , serializedLastRunTime = db ^. dbLastRunTime   }  -- | Convert from serializable form fromSerializable :: SerializableClodDatabase -> ClodDatabase fromSerializable sdb = ClodDatabase-  { dbFiles = Map.fromList (serializedFiles sdb)-  , dbChecksums = Map.fromList (serializedChecksums sdb)-  , dbLastStagingDir = serializedLastStagingDir sdb-  , dbLastRunTime = serializedLastRunTime sdb+  { _dbFiles = Map.fromList (serializedFiles sdb)+  , _dbChecksums = Map.fromList (serializedChecksums sdb)+  , _dbLastStagingDir = serializedLastStagingDir sdb+  , _dbLastRunTime = serializedLastRunTime sdb   }  -- | The Clod monad@@ -220,21 +376,29 @@  -- | Capability for reading files within certain directories data FileReadCap = FileReadCap -  { allowedReadDirs :: [FilePath] -- ^ Directories where reading is permitted+  { _allowedReadDirs :: [FilePath] -- ^ Directories where reading is permitted   } deriving (Show, Eq) +-- | Lens for allowedReadDirs field+allowedReadDirs :: Lens' FileReadCap [FilePath]+allowedReadDirs = lens _allowedReadDirs (\c v -> c { _allowedReadDirs = v })+ -- | Capability for writing files within certain directories data FileWriteCap = FileWriteCap -  { allowedWriteDirs :: [FilePath] -- ^ Directories where writing is permitted+  { _allowedWriteDirs :: [FilePath] -- ^ Directories where writing is permitted   } deriving (Show, Eq) +-- | Lens for allowedWriteDirs field+allowedWriteDirs :: Lens' FileWriteCap [FilePath]+allowedWriteDirs = lens _allowedWriteDirs (\c v -> c { _allowedWriteDirs = v })+ -- | Create a file read capability for specified directories fileReadCap :: [FilePath] -> FileReadCap-fileReadCap dirs = FileReadCap { allowedReadDirs = dirs }+fileReadCap dirs = FileReadCap { _allowedReadDirs = dirs }  -- | Create a file write capability for specified directories fileWriteCap :: [FilePath] -> FileWriteCap-fileWriteCap dirs = FileWriteCap { allowedWriteDirs = dirs }+fileWriteCap dirs = FileWriteCap { _allowedWriteDirs = dirs }  -- | Check if a path is within allowed directories -- This improved version handles path traversal attacks by comparing canonical paths

@@ -1,182 +0,0 @@-{-# LANGUAGE DataKinds #-}-{-# LANGUAGE TypeApplications #-}-{-# LANGUAGE ScopedTypeVariables #-}-{-# LANGUAGE OverloadedStrings #-}---- |--- Module      : Clod.AdvancedCapabilitySpec--- Description : Tests for the advanced capability system--- Copyright   : (c) Fuzz Leonard, 2025--- License     : MIT--- Maintainer  : ink@fuzz.ink--- Stability   : experimental------ This module contains tests for the advanced capability-based security system--- that uses type-level programming to enforce security constraints.--module Clod.AdvancedCapabilitySpec (spec) where--import Test.Hspec-import System.Directory (createDirectoryIfMissing, doesFileExist)-import System.FilePath ((</>))-import System.IO.Temp (withSystemTempDirectory)-import qualified Data.ByteString as BS-import Control.Monad.IO.Class (liftIO)--import Clod.AdvancedCapability hiding (readFile, writeFile)-import qualified Clod.AdvancedCapability as AC---- | Test specification for AdvancedCapability module-spec :: Spec-spec = do-  describe "Advanced capability system" $ do-    typeRestrictedFileAccessSpec-    pathTraversalProtectionSpec-    permissionConstraintsSpec-    --- | Tests for type-restricted file access-typeRestrictedFileAccessSpec :: Spec-typeRestrictedFileAccessSpec = describe "Type-restricted file access" $ do-  it "allows access to files inside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directory and file-      let testDir = tmpDir </> "test-dir"-      let testFile = testDir </> "test-file.txt"-      createDirectoryIfMissing True testDir-      BS.writeFile testFile "Hello, World!"-      -      -- Create capability for the test directory-      let cap = createCapability @'Read [testDir]-      -      -- Use withPath to create a typed path-      withPath cap testFile $ \pathMaybe -> do-        -- pathMaybe should be Just because the path is allowed-        case pathMaybe of-          Nothing -> expectationFailure "Path should be allowed but wasn't"-          Just typedPath -> do-            -- Read file with the capability-            content <- AC.readFile cap typedPath-            content `shouldBe` "Hello, World!"-            -  it "denies access to files outside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create allowed and forbidden directories-      let allowedDir = tmpDir </> "allowed"-      let forbiddenDir = tmpDir </> "forbidden"-      createDirectoryIfMissing True allowedDir-      createDirectoryIfMissing True forbiddenDir-      -      -- Create files in both directories-      let allowedFile = allowedDir </> "allowed.txt"-      let forbiddenFile = forbiddenDir </> "forbidden.txt"-      BS.writeFile allowedFile "Allowed content"-      BS.writeFile forbiddenFile "Forbidden content"-      -      -- Create capability for the allowed directory only-      let cap = createCapability @'Read [allowedDir]-      -      -- Try to access forbidden file-      withPath cap forbiddenFile $ \pathMaybe -> do-        -- pathMaybe should be Nothing because the path is not allowed-        pathMaybe `shouldBe` Nothing---- | Tests for path traversal protection-pathTraversalProtectionSpec :: Spec-pathTraversalProtectionSpec = describe "Path traversal protection" $ do-  it "prevents path traversal attacks with ../" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directory structure-      let safeDir = tmpDir </> "safe"-      let dataFile = safeDir </> "data.txt"-      let secretDir = tmpDir </> "secret"-      let secretFile = secretDir </> "secret.txt"-      -      createDirectoryIfMissing True safeDir-      createDirectoryIfMissing True secretDir-      BS.writeFile dataFile "Safe data"-      BS.writeFile secretFile "Secret data"-      -      -- Create capability for the safe directory only-      let cap = createCapability @'Read [safeDir]-      -      -- Try to access secret file through path traversal-      let traversalPath = safeDir </> "../secret/secret.txt"-      -      withPath cap traversalPath $ \pathMaybe -> do-        -- pathMaybe should be Nothing because path traversal is prevented-        pathMaybe `shouldBe` Nothing---- | Tests for permission constraints-permissionConstraintsSpec :: Spec-permissionConstraintsSpec = describe "Permission constraints" $ do-  it "allows write operations with write capability" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directory-      let testDir = tmpDir </> "write-test"-      let testFile = testDir </> "writeable.txt"-      createDirectoryIfMissing True testDir-      -      -- Create write capability-      let writeCap = createCapability @'Write [testDir]-      -      -- Use withPath to get a typed path-      withPath writeCap testFile $ \pathMaybe -> do-        case pathMaybe of-          Nothing -> expectationFailure "Path should be allowed for writing"-          Just typedPath -> do-            -- Write to the file-            AC.writeFile writeCap typedPath "Written with capability"-            -            -- Verify content was written-            fileExists <- liftIO $ doesFileExist testFile-            fileExists `shouldBe` True-            content <- liftIO $ BS.readFile testFile-            content `shouldBe` "Written with capability"-            -  it "allows using AllPerm for both read and write" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directory-      let testDir = tmpDir </> "all-perm-test"-      let testFile = testDir </> "all-access.txt"-      createDirectoryIfMissing True testDir-      -      -- Create all-permission capability-      let allCap = createCapability @'All [testDir]-      -      -- Use withPath to get a typed path-      withPath allCap testFile $ \pathMaybe -> do-        case pathMaybe of-          Nothing -> expectationFailure "Path should be allowed with AllPerm"-          Just typedPath -> do-            -- Write to file-            AC.writeFile allCap typedPath "Initial content"-            -            -- Read from file-            content <- AC.readFile allCap typedPath-            content `shouldBe` "Initial content"-  -  it "allows capability restriction to more limited permissions" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directory-      let testDir = tmpDir </> "restriction-test"-      let testFile = testDir </> "restrict.txt"-      createDirectoryIfMissing True testDir-      BS.writeFile testFile "Original content"-      -      -- Create all-permission capability-      let allCap = createCapability @'All [testDir]-      -      -- Restrict to read-only-      let readCap = restrictCapability allCap-      -      -- Use withPath to get a typed path-      withPath readCap testFile $ \pathMaybe -> do-        case pathMaybe of-          Nothing -> expectationFailure "Path should be allowed for reading"-          Just typedPath -> do-            -- Read should be allowed-            content <- AC.readFile readCap typedPath-            content `shouldBe` "Original content"-            -            -- This would fail to compile:-            -- writeFile readCap typedPath "New content" -- Type error!

@@ -1,250 +0,0 @@-{-# LANGUAGE OverloadedStrings #-}---- |--- Module      : Clod.CapabilitySpec--- Description : Tests for capability-based security--- Copyright   : (c) Fuzz Leonard, 2025--- License     : MIT--- Maintainer  : ink@fuzz.ink--- Stability   : experimental------ This module contains tests for the capability-based security system,--- which is a critical component for ensuring files cannot be accessed--- outside allowed directories.--module Clod.CapabilitySpec (spec) where--import Test.Hspec-import System.Directory-import System.FilePath-import System.IO.Temp (withSystemTempDirectory)-import Data.Either (isRight, isLeft)-import qualified System.IO--import Clod.Types-import Clod.FileSystem.Operations (safeReadFile, safeWriteFile)-import Clod.TestHelpers (defaultTestConfig)---- | Test specification for capability-based security-spec :: Spec-spec = do-  fileReadCapSpec-  fileWriteCapSpec-  gitCapSpec-  capabilityEscapePreventionSpec---- | Tests for file read capabilities-fileReadCapSpec :: Spec-fileReadCapSpec = describe "File read capabilities" $ do-  it "allows access to files inside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test files-      let subDir = tmpDir </> "allowed"-      createDirectoryIfMissing True subDir-      System.IO.writeFile (subDir </> "test.txt") "test content"-      -      -- Create capability that allows access to the subDir-      let readCap = fileReadCap [subDir]-          config = defaultTestConfig tmpDir-      -      -- Test file access-      result <- runClodM config $ safeReadFile readCap (subDir </> "test.txt")-      -      -- Should succeed-      result `shouldSatisfy` isRight-      -  it "denies access to files outside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test files-      let allowedDir = tmpDir </> "allowed"-      let forbiddenDir = tmpDir </> "forbidden"-      -      createDirectoryIfMissing True allowedDir-      createDirectoryIfMissing True forbiddenDir-      -      System.IO.writeFile (allowedDir </> "allowed.txt") "allowed content"-      System.IO.writeFile (forbiddenDir </> "forbidden.txt") "forbidden content"-      -      -- Create capability that only allows access to allowedDir-      let readCap = fileReadCap [allowedDir]-          config = defaultTestConfig tmpDir-      -      -- Try to access forbidden file-      result <- runClodM config $ safeReadFile readCap (forbiddenDir </> "forbidden.txt")-      -      -- Should fail with permission error-      result `shouldSatisfy` isLeft-      case result of-        Left err -> putStrLn (show err) -- Just check that it's an error, we'll skip exact error message-        Right _ -> expectationFailure "Access was granted to a forbidden file"---- | Tests for file write capabilities-fileWriteCapSpec :: Spec-fileWriteCapSpec = describe "File write capabilities" $ do-  it "allows writing to files inside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directory-      let writeDir = tmpDir </> "writable"-      createDirectoryIfMissing True writeDir-      -      -- Create write capability-      let writeCap = fileWriteCap [writeDir]-          config = defaultTestConfig tmpDir-      -      -- Try to write to permitted directory-      result <- runClodM config $ safeWriteFile writeCap (writeDir </> "new.txt") "new content"-      -      -- Should succeed-      result `shouldSatisfy` isRight-      -      -- Verify file was created-      fileExistsCheck <- doesFileExist (writeDir </> "new.txt")-      fileExistsCheck `shouldBe` True-      -  it "denies writing to files outside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Create test directories-      let writeDir = tmpDir </> "writable"-      let noWriteDir = tmpDir </> "not-writable"-      -      createDirectoryIfMissing True writeDir-      createDirectoryIfMissing True noWriteDir-      -      -- Create write capability that only allows certain directories-      let writeCap = fileWriteCap [writeDir]-          config = defaultTestConfig tmpDir-      -      -- Try to write to forbidden directory-      result <- runClodM config $ safeWriteFile writeCap (noWriteDir </> "forbidden.txt") "forbidden content"-      -      -- Should fail with permission error-      result `shouldSatisfy` isLeft-      case result of-        Left err -> putStrLn (show err) -- Just check that it's an error-        Right _ -> expectationFailure "Write access was granted to a forbidden directory"---- | Tests for Checksum Database capabilities-gitCapSpec :: Spec-gitCapSpec = describe "Database capabilities" $ do-  it "allows basic file operations with capabilities" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Set up a test directory-      let dataDir = tmpDir </> "data-dir"-      createDirectoryIfMissing True dataDir-      -      -- Create a file-      System.IO.writeFile (dataDir </> "test-file.txt") "test content"-      -      -- Create capabilities-      let readCap = fileReadCap [dataDir]-          writeCap = fileWriteCap [dataDir]-          config = defaultTestConfig tmpDir-      -      -- Check file access-      readResult <- runClodM config $ safeReadFile readCap (dataDir </> "test-file.txt")-      -      -- Should succeed-      readResult `shouldSatisfy` isRight-      -      -- Write a new file with write capability-      writeResult <- runClodM config $ safeWriteFile writeCap (dataDir </> "new-file.txt") "new content"-      writeResult `shouldSatisfy` isRight-      -  it "restricts database operations outside permitted directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Set up test directories-      let allowedDir = tmpDir </> "allowed-dir"-      let forbiddenDir = tmpDir </> "forbidden-dir"-      -      -- Create the directories-      createDirectoryIfMissing True allowedDir-      createDirectoryIfMissing True forbiddenDir-      -      -- Create files in both dirs-      System.IO.writeFile (allowedDir </> "allowed.txt") "allowed content"-      System.IO.writeFile (forbiddenDir </> "forbidden.txt") "forbidden content"-      -      -- Create restricted capabilities-      let readCap = fileReadCap [allowedDir]-          writeCap = fileWriteCap [allowedDir]-          config = defaultTestConfig tmpDir-      -      -- Try to access forbidden dir-      readResult <- runClodM config $ safeReadFile readCap (forbiddenDir </> "forbidden.txt")-      -      -- Should fail with permission error-      readResult `shouldSatisfy` isLeft-      -      -- Try to write to forbidden dir-      writeResult <- runClodM config $ safeWriteFile writeCap (forbiddenDir </> "new-file.txt") "new content"-      -      -- Should fail with permission error-      writeResult `shouldSatisfy` isLeft---- | Tests that specifically try to escape capability restrictions-capabilityEscapePreventionSpec :: Spec-capabilityEscapePreventionSpec = describe "Capability escape prevention" $ do-  it "prevents path traversal attacks with ../" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Set up test directories-      let allowedDir = tmpDir </> "allowed"-      let secretDir = tmpDir </> "secret"-      -      createDirectoryIfMissing True allowedDir-      createDirectoryIfMissing True secretDir-      -      -- Create a secret file-      System.IO.writeFile (secretDir </> "secret.txt") "highly sensitive data"-      -      -- Create a limited capability-      let readCap = fileReadCap [allowedDir]-          config = defaultTestConfig tmpDir-      -      -- Try path traversal attack using ../-      let traversalPath = allowedDir </> ".." </> "secret" </> "secret.txt"-      -      -- Verify the path does point to the secret file-      canonicalTraversalPath <- canonicalizePath traversalPath-      canonicalSecretPath <- canonicalizePath (secretDir </> "secret.txt")-      canonicalTraversalPath `shouldBe` canonicalSecretPath-      -      -- But capability should prevent access-      result <- runClodM config $ safeReadFile readCap traversalPath-      -      -- Should fail with permission error-      result `shouldSatisfy` isLeft-      -  it "prevents access via symbolic links outside allowed directories" $ do-    withSystemTempDirectory "clod-test" $ \tmpDir -> do-      -- Skip test on Windows where symlinks might not work-      let isWindows = False -- Replace with actual OS detection if needed-      -      if isWindows-        then pendingWith "Symlink tests not applicable on Windows"-        else do-          -- Set up test directories-          let allowedDir = tmpDir </> "allowed"-          let secretDir = tmpDir </> "secret"-          -          createDirectoryIfMissing True allowedDir-          createDirectoryIfMissing True secretDir-          -          -- Create a secret file-          System.IO.writeFile (secretDir </> "secret.txt") "highly sensitive data"-          -          -- Create a symlink in the allowed directory pointing to the secret-          let linkPath = allowedDir </> "link-to-secret.txt"-          -          -- Create symlink (catching exceptions as this may fail on some systems)-          createFileLink (secretDir </> "secret.txt") linkPath-          -          -- Create a limited capability-          let readCap = fileReadCap [allowedDir]-              config = defaultTestConfig tmpDir-          -          -- Try to access via symlink-          result <- runClodM config $ safeReadFile readCap linkPath-          -          -- Should fail with permission error since the target is outside-          result `shouldSatisfy` isLeft-

@@ -27,8 +27,9 @@  import Clod.Core import Clod.Types -  ( ClodConfig(..), FileResult(..), FileReadCap(..), IgnorePattern(..),-    runClodM, isPathAllowed, fileReadCap, fileWriteCap+  ( FileResult(..), IgnorePattern(..),+    runClodM, isPathAllowed, fileReadCap, fileWriteCap,+    ignorePatterns, allowedReadDirs, (&), (.~), (^.)   ) import Clod.TestHelpers (defaultTestConfig) @@ -158,7 +159,7 @@       let readCap = fileReadCap [tmpDir]              -- Try to check if a file exists outside our capability-      allowed <- isPathAllowed (allowedReadDirs readCap) forbiddenDir+      allowed <- isPathAllowed (readCap ^. allowedReadDirs) forbiddenDir       allowed `shouldBe` False  -- | Tests for ignore pattern handling@@ -179,9 +180,8 @@       writeFile (tmpDir </> ".clodignore") "ignored/"              -- Create a test config with ignore patterns-      let config = (defaultTestConfig tmpDir) {-            ignorePatterns = [IgnorePattern "ignored/"]-          }+      let config = defaultTestConfig tmpDir & +            ignorePatterns .~ [IgnorePattern "ignored/"]              -- Create the read capability       let readCap = fileReadCap [tmpDir]@@ -253,9 +253,8 @@       writeFile (tmpDir </> ".clodignore") ".git/\nnode_modules/"              -- Create a test config with ignore patterns-      let config = (defaultTestConfig tmpDir) {-            ignorePatterns = [IgnorePattern ".git/", IgnorePattern "node_modules/"]-          }+      let config = defaultTestConfig tmpDir &+            ignorePatterns .~ [IgnorePattern ".git/", IgnorePattern "node_modules/"]              -- Run the application       result <- runClodApp config "" True False@@ -308,9 +307,8 @@              -- Create a test config that sets the ignorePatterns manually       -- This is critical - we need to set the patterns explicitly-      let config = (defaultTestConfig tmpDir) {-            ignorePatterns = [IgnorePattern "node_modules/", IgnorePattern ".git/"]  -- Set patterns directly-          }+      let config = defaultTestConfig tmpDir &+            ignorePatterns .~ [IgnorePattern "node_modules/", IgnorePattern ".git/"]  -- Set patterns directly              -- Call Core.runClodApp directly, which should use the ignorePatterns in the config       result <- runClodApp config "" False True

@@ -26,7 +26,8 @@ import Data.List (isInfixOf)  import Clod.Types (ClodDatabase(..), FileEntry(..), OptimizedName(..), Checksum(..), -               runClodM, fileReadCap, liftIO, IgnorePattern(..))+               runClodM, fileReadCap, liftIO, IgnorePattern(..),+               dbFiles, entryPath, entryChecksum, (^.)) import Clod.TestHelpers (defaultTestConfig) import qualified Clod.IgnorePatterns import Clod.FileSystem.Checksums@@ -109,7 +110,7 @@              case result of         Left err -> expectationFailure $ "Failed to initialize database: " ++ show err-        Right db -> Map.size (dbFiles db) `shouldBe` 0+        Right db -> Map.size (db ^. dbFiles) `shouldBe` 0      it "successfully saves and loads a database" $ do     withSystemTempDirectory "clod-test" $ \tmpDir -> do@@ -144,18 +145,18 @@           doesFileExist dbPath >>= (`shouldBe` True)                      -- Now with proper Dhall parsing, we should have one file entry-          Map.size (dbFiles db) `shouldBe` 1+          Map.size (db ^. dbFiles) `shouldBe` 1                      -- Verify the entry is correct-          Map.member "test.txt" (dbFiles db) `shouldBe` True+          Map.member "test.txt" (db ^. dbFiles) `shouldBe` True                      -- Get the entry and check its attributes-          let entry = Map.lookup "test.txt" (dbFiles db)+          let entry = Map.lookup "test.txt" (db ^. dbFiles)           case entry of             Nothing -> expectationFailure "Entry for test.txt not found in database"             Just e -> do-              entryPath e `shouldBe` "test.txt"-              entryChecksum e `shouldBe` checksum+              e ^. entryPath `shouldBe` "test.txt"+              e ^. entryChecksum `shouldBe` checksum  -- | Tests for change detection changeDetectionSpec :: Spec

@@ -23,8 +23,10 @@ import qualified Data.Map.Strict as Map import Data.Time.Clock (getCurrentTime) -import Clod.Types (ClodConfig(..), ClodDatabase(..), runClodM, fileReadCap, liftIO, -                     OptimizedName(..), IgnorePattern(..))+import Clod.Types (ClodDatabase(..), runClodM, fileReadCap, liftIO, +                     OptimizedName(..), IgnorePattern(..),+                     flushMode, lastMode, ignorePatterns, dbFiles, dbLastRunTime,+                     (&), (.~), (^.)) import Clod.TestHelpers (defaultTestConfig) import Clod.FileSystem.Checksums   ( checksumFile@@ -56,7 +58,7 @@       writeFile file2 "Content 2"              -- Create a config and capabilities-      let config = (defaultTestConfig tmpDir) { flushMode = True }+      let config = defaultTestConfig tmpDir & flushMode .~ True           readCap = fileReadCap [tmpDir]           dbPath = tmpDir </> ".clod" </> "db.dhall"       @@ -101,11 +103,11 @@         Left err -> expectationFailure $ "Flush operation failed: " ++ show err         Right db -> do           -- Should have only one file entry (file2) remaining-          Map.size (dbFiles db) `shouldBe` 1+          Map.size (db ^. dbFiles) `shouldBe` 1           -- file1 should be removed-          Map.member "file1.txt" (dbFiles db) `shouldBe` False+          Map.member "file1.txt" (db ^. dbFiles) `shouldBe` False           -- file2 should still be present-          Map.member "file2.txt" (dbFiles db) `shouldBe` True+          Map.member "file2.txt" (db ^. dbFiles) `shouldBe` True    it "keeps missing entries without --flush flag" $ do     withSystemTempDirectory "clod-test" $ \tmpDir -> do@@ -116,7 +118,7 @@       writeFile file2 "Content 2"              -- Create a config with flush mode OFF-      let config = (defaultTestConfig tmpDir) { flushMode = False }+      let config = defaultTestConfig tmpDir & flushMode .~ False           readCap = fileReadCap [tmpDir]           dbPath = tmpDir </> ".clod" </> "db.dhall"       @@ -161,10 +163,10 @@         Left err -> expectationFailure $ "Database operation failed: " ++ show err         Right db -> do           -- Should still have both file entries-          Map.size (dbFiles db) `shouldBe` 2+          Map.size (db ^. dbFiles) `shouldBe` 2           -- Both files should be present in the database-          Map.member "file1.txt" (dbFiles db) `shouldBe` True-          Map.member "file2.txt" (dbFiles db) `shouldBe` True+          Map.member "file1.txt" (db ^. dbFiles) `shouldBe` True+          Map.member "file2.txt" (db ^. dbFiles) `shouldBe` True  -- | Tests for last flag functionality lastFlagSpec :: Spec@@ -172,7 +174,7 @@   it "uses previous staging directory with --last flag" $ do     withSystemTempDirectory "clod-test" $ \tmpDir -> do       -- Create config with last mode enabled-      let config = (defaultTestConfig tmpDir) { lastMode = True }+      let config = defaultTestConfig tmpDir & lastMode .~ True           dbPath = tmpDir </> ".clod" </> "db.dhall"           previousDir = tmpDir </> "staging" </> "previous-run"       @@ -181,18 +183,13 @@              -- Create a database with a previous staging directory       currentTime <- getCurrentTime-      let originalDb = ClodDatabase -            { dbFiles = Map.empty-            , dbChecksums = Map.empty-            , dbLastStagingDir = Just previousDir-            , dbLastRunTime = currentTime-            }+      let originalDb = ClodDatabase Map.empty Map.empty (Just previousDir) currentTime              -- Save this database       result <- runClodM config $ do         -- We'll create a time here just for the database         updatedTime <- liftIO getCurrentTime-        let db = originalDb { dbLastRunTime = updatedTime }+        let db = originalDb & dbLastRunTime .~ updatedTime                  -- Save this database         saveDatabase dbPath db@@ -224,8 +221,10 @@       writeFile ignoredFile "Should be ignored"              -- Create test config with ignore patterns-      let ignorePatterns = [IgnorePattern "*.tmp"]-          config = (defaultTestConfig tmpDir) { flushMode = False, ignorePatterns = ignorePatterns }+      let ignorePatternsVal = [IgnorePattern "*.tmp"]+          config = defaultTestConfig tmpDir +                   & flushMode .~ False +                   & ignorePatterns .~ ignorePatternsVal           readCap = fileReadCap [tmpDir]           dbPath = tmpDir </> ".clod" </> "db.dhall"       @@ -272,17 +271,17 @@         Left err -> expectationFailure $ "Database loading failed: " ++ show err         Right db -> do           -- Should have both tracked files but not the ignored one-          Map.size (dbFiles db) `shouldBe` 3  -- Currently 3 because we manually added it above+          Map.size (db ^. dbFiles) `shouldBe` 3  -- Currently 3 because we manually added it above                      -- Both files should be present-          Map.member "file1.txt" (dbFiles db) `shouldBe` True-          Map.member "file2.txt" (dbFiles db) `shouldBe` True+          Map.member "file1.txt" (db ^. dbFiles) `shouldBe` True+          Map.member "file2.txt" (db ^. dbFiles) `shouldBe` True                      -- In a real implementation with proper ignore pattern filtering,            -- the ignored file wouldn't be added to the database in the first place           -- This would be handled by the Core.hs logic which we've fixed           -- But for this specific test where we manually added it, it will be there-          Map.member "ignored.tmp" (dbFiles db) `shouldBe` True+          Map.member "ignored.tmp" (db ^. dbFiles) `shouldBe` True              it "detects file changes correctly" $ do     withSystemTempDirectory "clod-test" $ \tmpDir -> do

@@ -24,7 +24,7 @@ -- import qualified System.IO import qualified Data.ByteString as BS -import Clod.Types (runClodM, fileReadCap, ClodConfig(..))+import Clod.Types (runClodM, fileReadCap, configDir, (&), (.~)) import Clod.FileSystem.Detection (safeIsTextFile, isTextDescription, needsTransformation) import Clod.TestHelpers (defaultTestConfig) @@ -107,7 +107,7 @@       setupTestEnvironment tmpDir              -- Set config directory to our test directory-      let config = (defaultTestConfig tmpDir) { configDir = tmpDir }+      let config = defaultTestConfig tmpDir & configDir .~ tmpDir              -- Test various text file descriptions       let textDescriptions = @@ -135,7 +135,7 @@       setupTestEnvironment tmpDir              -- Set config directory to our test directory-      let config = (defaultTestConfig tmpDir) { configDir = tmpDir }+      let config = defaultTestConfig tmpDir & configDir .~ tmpDir              -- Test various non-text file descriptions       let nonTextDescriptions = 

@@ -96,6 +96,6 @@              -- Should fail with capability error       case result of-        Left (CapabilityError _) -> return ()  -- Expected error+        Left (CapabilityError _ _) -> return ()  -- Expected error         Left other -> expectationFailure $ "Got wrong error: " ++ show other         Right _ -> expectationFailure "Read succeeded when it should have failed"

@@ -30,6 +30,7 @@  import Clod.Types import Clod.FileSystem.Transformations+import Clod.FileSystem.Detection (needsTransformation) import Clod.TestHelpers (defaultTestConfig)  -- | Test the file transformations@@ -128,7 +129,7 @@                      -- Verify the operation failed           case result of-            Left (CapabilityError _) -> return ()+            Left (CapabilityError _ _) -> return ()             _ -> expectationFailure "Expected CapabilityError but got different result"                        -- Verify the destination file wasn't created@@ -164,6 +165,30 @@         xmlContent <- TE.decodeUtf8 <$> BS.readFile xmlPath         T.unpack xmlContent `shouldBe` svgContent +  describe "SPEC.md compliance" $ do+    it "transforms filenames according to SPEC.md rules" $ do+      -- Test examples from the SPEC.md document+      -- Root files should be unchanged+      transformFilename "package.json" "package.json" `shouldBe` "package.json"+      +      -- Nested path files should be flattened with dashes+      transformFilename "package.json" "app/lib/plugin/package.json" `shouldBe` "package.json"+      +      -- Hidden files should have dots removed and replaced with dot-- prefix+      transformFilename ".gitignore" ".gitignore" `shouldBe` "dot--gitignore"+      transformFilename ".env" ".env" `shouldBe` "dot--env"+      +      -- SVG files should be transformed to XML+      transformFilename "logo.svg" "logo.svg" `shouldBe` "logo-svg.xml"+      -- For nested SVG files, the function uses the filename (first arg), not the path (second arg)+      transformFilename "logo.svg" "assets/images/logo.svg" `shouldBe` "logo-svg.xml"+      +    it "correctly identifies files needing transformation" $ do+      needsTransformation ".gitignore" `shouldBe` True+      needsTransformation ".env" `shouldBe` True+      needsTransformation "logo.svg" `shouldBe` True+      needsTransformation "regular.txt" `shouldBe` False+     describe "End-to-end transformation" $ do     it "works with complex transformations" $ do       -- Create a temp directory

@@ -28,7 +28,7 @@ import Control.Monad.IO.Class ()  import qualified Clod.Core as Core-import Clod.Types (ClodConfig(..), runClodM, fileReadCap, fileWriteCap)+import qualified Clod.Types as T import qualified Options.Applicative as Opt import Clod.TestHelpers (defaultTestConfig) @@ -169,12 +169,13 @@       System.IO.writeFile (projectDir </> "file2.txt") "original content"              -- Create a basic config-      let config = (defaultTestConfig projectDir) {-            stagingDir = stagingDir,-            currentStaging = stagingDir,-            configDir = configDir,-            databaseFile = configDir </> "checksums.dhall"-          }+      let stagingDirPath = stagingDir+          configDirPath = configDir+          config = defaultTestConfig projectDir+            T.& T.stagingDir T..~ stagingDirPath+            T.& T.currentStaging T..~ stagingDirPath+            T.& T.configDir T..~ configDirPath+            T.& T.databaseFile T..~ configDirPath </> "checksums.dhall"              -- Initialize test environment       @@ -192,10 +193,10 @@       createDirectoryIfMissing True stagingDir2              -- Update config for second run-      let config2 = config {-            stagingDir = stagingDir2,-            currentStaging = stagingDir2-          }+      let stagingDir2Path = stagingDir2+          config2 = config+            T.& T.stagingDir T..~ stagingDir2Path+            T.& T.currentStaging T..~ stagingDir2Path              -- Make no changes to files       result2 <- Core.runClodApp config2 stagingDir2 False False@@ -225,10 +226,10 @@       createDirectoryIfMissing True stagingDir3              -- Update config for third run-      let config3 = config {-            stagingDir = stagingDir3,-            currentStaging = stagingDir3-          }+      let stagingDir3Path = stagingDir3+          config3 = config+            T.& T.stagingDir T..~ stagingDir3Path+            T.& T.currentStaging T..~ stagingDir3Path              -- Run third time - should process only modified file       _ <- Core.runClodApp config3 stagingDir3 False False@@ -257,10 +258,10 @@       -- Direct execution in production code would need a more sophisticated approach       result <- Exception.try @SomeException $ do         -- Create minimal config to use in test (avoiding main which could exit)-        let config = (defaultTestConfig projectDir) {-              stagingDir = stagingDir,-              currentStaging = stagingDir-            }+        let stagingDirPath = stagingDir+            config = defaultTestConfig projectDir+              T.& T.stagingDir T..~ stagingDirPath+              T.& T.currentStaging T..~ stagingDirPath                  -- Now execute what main would do but in a controlled way         createDirectoryIfMissing True stagingDir@@ -274,11 +275,11 @@         _ <- Core.runClodApp config stagingDir True False                  -- Now explicitly process the test file (since runClodApp doesn't process files by default)-        let readCap = fileReadCap [projectDir]-            writeCap = fileWriteCap [stagingDir]+        let readCap = T.fileReadCap [projectDir]+            writeCap = T.fileWriteCap [stagingDir]                      -- Process the test file manually-        runClodM config $ +        T.runClodM config $            Core.processFile readCap writeCap (projectDir </> "test.txt") "test.txt"              -- Verify directories were created

@@ -51,8 +51,8 @@  -- | Formats file output with either verbose or summary information formatFileOutput :: Handle -> Bool -> [String] -> ClodM ()-formatFileOutput handle verbose paths = do-  if verbose+formatFileOutput handle isVerbose paths = do+  if isVerbose     then mapM_ (liftIO . hPutStrLn handle) paths     else liftIO $ hPutStrLn handle $ show (length paths) ++ " files" 

@@ -15,7 +15,10 @@   ) where  import System.FilePath ((</>))-import Clod.Types (ClodConfig(..))+import Clod.Types (ClodConfig(..), +                  projectPath, stagingDir, configDir, databaseFile, previousStaging,+                  flushMode, lastMode, timestamp, currentStaging, testMode, +                  verbose, ignorePatterns, (&), (.~))  -- | Default config for testing -- @@ -27,20 +30,22 @@ -- let config = defaultTestConfig tmpDir --  -- -- Override specific values--- let customConfig = (defaultTestConfig tmpDir) { verbose = True, flushMode = True }+-- let customConfig = defaultTestConfig tmpDir & verbose .~ True & flushMode .~ True -- @ defaultTestConfig :: FilePath -> ClodConfig-defaultTestConfig tmpDir = ClodConfig-  { projectPath = tmpDir-  , stagingDir = tmpDir </> "staging"-  , configDir = tmpDir </> ".clod"-  , databaseFile = tmpDir </> ".clod" </> "db.dhall"-  , previousStaging = Nothing-  , flushMode = False-  , lastMode = False-  , timestamp = "20250401-000000"-  , currentStaging = tmpDir </> "staging"-  , testMode = True-  , verbose = False-  , ignorePatterns = []-  }+defaultTestConfig tmpDir = +  -- Start with empty config+  ClodConfig "" "" "" "" "" "" Nothing False False False False []+  -- Apply lenses to set values+  & projectPath .~ tmpDir+  & stagingDir .~ tmpDir </> "staging"+  & configDir .~ tmpDir </> ".clod"+  & databaseFile .~ tmpDir </> ".clod" </> "db.dhall"+  & previousStaging .~ Nothing+  & flushMode .~ False+  & lastMode .~ False+  & timestamp .~ "20250401-000000"+  & currentStaging .~ tmpDir </> "staging"+  & testMode .~ True+  & verbose .~ False+  & ignorePatterns .~ []

@@ -17,9 +17,7 @@  import Test.Hspec import Test.QuickCheck hiding (Success)-import Control.Exception () import Data.Text ()--- import System.FilePath import System.IO.Temp () import Control.Monad.Reader () import Control.Monad.Except ()@@ -35,6 +33,14 @@ prop_originalPathRoundTrip :: FilePath -> Bool  prop_originalPathRoundTrip p = unOriginalPath (OriginalPath p) == p +-- | Property: Validated to Either should preserve success values+prop_validatedToEitherSuccess :: Int -> Bool+prop_validatedToEitherSuccess x = validatedToEither (Valid x) == Right x++-- | Property: Either to Validated should preserve Right values+prop_eitherToValidatedRight :: Int -> Bool+prop_eitherToValidatedRight x = eitherToValidated (Right x) == Valid x+ spec :: Spec spec = do   describe "Newtypes and smart constructors" $ do@@ -55,8 +61,15 @@   describe "ClodError" $ do     it "can be created and displayed" $ do       show (ConfigError "test error") `shouldBe` "ConfigError \"test error\""-      show (DatabaseError "db error") `shouldBe` "DatabaseError \"db error\""-      show (FileSystemError "file.txt" (userError "fs error")) `shouldBe` "FileSystemError \"file.txt\" user error (fs error)"+      show (DatabaseError "db.dhall" (DBCorrupted "parse error")) `shouldBe` "DatabaseError \"db.dhall\" (DBCorrupted \"parse error\")"+      show (CapabilityError "/path/to/file" "Access denied") `shouldBe` "CapabilityError \"/path/to/file\" \"Access denied\""+      show (ChecksumError "data.bin" "Binary file") `shouldBe` "ChecksumError \"data.bin\" \"Binary file\""+      +    it "handles all database error types" $ do+      show (DatabaseError "db" DBFileNotFound) `shouldBe` "DatabaseError \"db\" DBFileNotFound"+      show (DatabaseError "db" (DBCorrupted "parse error")) `shouldBe` "DatabaseError \"db\" (DBCorrupted \"parse error\")"+      show (DatabaseError "db" DBVersionMismatch) `shouldBe` "DatabaseError \"db\" DBVersionMismatch"+      show (DatabaseError "db" (DBOtherError "unknown error")) `shouldBe` "DatabaseError \"db\" (DBOtherError \"unknown error\")"      describe "FileResult" $ do     it "can be created and displayed" $ do@@ -67,7 +80,7 @@     it "handles reader operations correctly" $ do       let mtlComputation = do             config <- ask-            return (projectPath config) :: ClodM String+            return (config ^. projectPath) :: ClodM String                    mtlResult <- runExceptT $ runReaderT mtlComputation (defaultTestConfig "test-dir")       mtlResult `shouldBe` Right "test-dir"@@ -77,4 +90,52 @@                  mtlResult <- runExceptT $ runReaderT mtlError (defaultTestConfig "test")       mtlResult `shouldBe` Left (ConfigError "test error")+      +  describe "Validated data type" $ do+    it "converts from Valid to Right" $ do+      property prop_validatedToEitherSuccess+      +    it "converts from Invalid to Left (first error)" $ do+      -- Test with a specific case instead of property+      let e1 = ConfigError "main error"+      let e2 = ConfigError "secondary error"+      validatedToEither (Invalid [e1, e2] :: Validated String) `shouldBe` (Left e1 :: Either ClodError String)+      +    it "converts from Right to Valid" $ do+      property prop_eitherToValidatedRight+      +    it "converts from Left to Invalid (singleton)" $ do+      -- Test with a specific case+      let err = ConfigError "test error"+      eitherToValidated (Left err :: Either ClodError String) `shouldBe` (Invalid [err] :: Validated String)+      +    it "combines errors when applying Invalid values" $ do+      -- Test with specific cases+      let es1 = [ConfigError "error 1"]+      let es2 = [ConfigError "error 2"]+      let v1 = Invalid es1 :: Validated (Int -> Int)+      let v2 = Invalid es2 :: Validated Int+      +      case v1 <*> v2 of+        Invalid combined -> combined `shouldBe` es1 ++ es2+        _ -> expectationFailure "Expected Invalid result"+      +    it "handles basic Applicative operations correctly" $ do+      let v1 = Valid (+1) :: Validated (Int -> Int)+      let v2 = Valid 2 :: Validated Int+      +      (v1 <*> v2) `shouldBe` Valid 3+      +      let e1 = Invalid [ConfigError "error 1"] :: Validated (Int -> Int)+      let e2 = Invalid [ConfigError "error 2"] :: Validated Int+      +      (v1 <*> e2) `shouldBe` e2+      +      -- Can't directly compare here because types differ - test the core behavior instead+      case (e1 <*> v2) of+        Invalid [ConfigError msg] -> msg `shouldBe` "error 1"+        _ -> expectationFailure "Expected Invalid with ConfigError"+      +      -- Test the combination of errors+      (e1 <*> e2) `shouldBe` Invalid [ConfigError "error 1", ConfigError "error 2"]   

@@ -23,9 +23,6 @@ import qualified Clod.FileSystem.DetectionSpec import qualified Clod.FileSystem.ChecksumsSpec import qualified Clod.FileSystem.DatabaseSpec-import qualified Clod.CapabilitySpec-import qualified Clod.AdvancedCapabilitySpec-import qualified Clod.EffectsSpec import qualified Clod.TypesSpec import qualified Clod.FileSystem.OperationsSpec import qualified Clod.FileSystem.ProcessingSpec@@ -43,9 +40,6 @@   describe "Clod.Output" Clod.OutputSpec.spec   describe "Clod.Config" Clod.ConfigSpec.spec   describe "Clod.Main" Clod.MainSpec.spec-  describe "Clod.Capability" Clod.CapabilitySpec.spec-  describe "Clod.AdvancedCapability" Clod.AdvancedCapabilitySpec.spec-  describe "Clod.Effects" Clod.EffectsSpec.spec   describe "Clod.Types" Clod.TypesSpec.spec   describe "Clod.FileSystem.Operations" Clod.FileSystem.OperationsSpec.spec   describe "Clod.FileSystem.Processing" Clod.FileSystem.ProcessingSpec.spec