Merge pull request 'taskfile file bin rm' (#16) from v-1-4 into main

Reviewed-on: #16

.gitignore

@@ -1,3 +1,4 @@
 bin/
 .env
 vendor/
+.dirmd

README.md

@@ -4,248 +4,38 @@ Generate markdown documentation from directory structure. Optimized for LLM inge
 
 <video src="./docs/videos/dirmd.webm" autoplay loop muted playsinline></video>
 
-## Features
+## Install
 
-- Recursive directory traversal
-- ASCII tree visualization (LLM-friendly, minimal token overhead)
-- Full file contents with explicit delimiters and metadata
-- Filters dotfiles, binaries, and blacklisted extensions
-- Vertical slices mode: root file + one markdown per top-level directory
-- Append mode for single files or directories
-- Force overwrite of existing output files
-- Configurable depth, file size limits, ignore patterns
-- Optional upload to Proton Drive after generating output
-- Skip frontend files (`.html`, `.css`, `.js`, etc.)
-- Frontend only mode (include only frontend files and `README.md`)
-- Omit test files and inline test blocks (Go, Java, Rust)
+    go install git.flo.fo/FLO/dirmd@latest
 
-## Installation
-Only for linux.  
-Download binary from release page or install with go 
-```bash
-go install git.flo.fo/FLO/dirmd@latest
-```
+Linux only. Run `dirmd -h` for all flags.
 
-## Use with Git Post Hook
-combine with git post hook to sync with proton drive on each commit
+## Why
 
-add something like this in ./.git/hooks/post-commit
+LLMs don't need 40k tokens of preamble. dirmd dumps a repo as markdown: tree + file contents, minus the noise. Everything filtered out stays visible in the tree (`~ tests omitted`, `~ ignored`) so nothing vanishes silently — the model knows what exists and can ask for it.
 
-```bash
-#!/bin/bash
+## Three ways to use it
 
-set -euo pipefail
+**One file — small repos.**
+For small projects that fit in a context window comfortably:
 
-if ! command -v dirmd &>/dev/null; then
-    exit 0
-fi
+    dirmd -o out.md ~/repos/myproject
 
-REPO_ROOT=$(git rev-parse --show-toplevel)
-REPO_NAME=$(basename "$REPO_ROOT")
+Everything lands in a single markdown file. Simplest, works fine until it doesn't.
 
-dirmd -o "/tmp/${REPO_NAME}" "$REPO_ROOT" -f --vertical-slices --proton-drive
-```
+**Vertical slices — large repos.**
+Once a single file gets too big to paste repeatedly, split it:
 
+    dirmd -o docs ~/repos/myproject --vertical-slices
 
-## Build
+This produces an index file (metadata + full tree + slice table) and one file per top-level directory. The full tree exists only in the index; every other file carries a one-line breadcrumb pointing back to it. Workflow: paste the index, then paste only the slice you need.
 
-    go build -o dirmd .
+**Slices + picks — you already know which files matter.**
+Sometimes you need one specific file without its whole directory:
 
-## Usage
+    dirmd -o docs ~/repos/myproject --vertical-slices \
+        --pick common/src/config.rs --pick init/src/main.rs
 
-    # Create new documentation
-    dirmd -o output.md ~/repos/myproject
+Picks are individual files written alongside the slices, in the same directory layout (`common/config.rs.md` next to `common/common_myproject.md`). Use this when you're mid-conversation, already know the relevant files, and want a single consistent snapshot containing exactly those.
 
-    # Overwrite existing output file
-    dirmd -o output.md ~/repos/myproject -f
-
-    # Append a single file
-    dirmd -a -i README.md -o existing.md
-
-    # Append another directory
-    dirmd -a ~/repos/anotherproject -o existing.md
-
-    # Generate with vertical slices
-    dirmd -o output.md ~/repos/myproject --vertical-slices
-
-    # Skip frontend files (.html, .css, .js, etc.)
-    dirmd -o output.md ~/repos/myproject --skip-frontend
-
-    # Frontend only (include only frontend files and README.md)
-    dirmd -o output.md ~/repos/myproject --frontend-only
-
-    # Omit test files and inline test blocks
-    # Go: excludes *_test.go
-    # Java: excludes *Test.java, *Tests.java, src/test/java/*
-    # Rust: strips #[cfg(test)] mod tests { ... } blocks
-    dirmd -o output.md ~/repos/myproject --omit-test
-
-    # Combine filters
-    dirmd -o output.md ~/repos/myproject --frontend-only --omit-test
-
-    # Generate and upload to Proton Drive (default: /my-files/md/<filename>)
-    dirmd -o output.md ~/repos/myproject --proton-drive
-
-    # Generate and upload to a specific remote path
-    dirmd -o output.md ~/repos/myproject --proton-drive --drive-path /my-files/docs/api.md
-
-## Test File Omission
-
-The `--omit-test` flag removes test files and inline test blocks to reduce token overhead in LLM context windows. Behavior varies by language:
-
-| Language | Exclusion Strategy | What Gets Removed |
-|----------|-------------------|-------------------|
-| **Go** | File exclusion | All `*_test.go` files |
-| **Java** | File exclusion | `*Test.java`, `*Tests.java`, files under `src/test/java/` |
-| **Rust** | Content stripping | Entire `#[cfg(test)] mod tests { ... }` blocks removed from `.rs` files |
-
-The Rust stripping works by detecting the `#[cfg(test)]` attribute, then tracking brace depth until the module closes. Nested braces in string literals may occasionally throw off the count, but this is acceptable for RAG use cases.
-
-## Frontend Filtering
-
-Two complementary flags control frontend file inclusion:
-
-| Flag | Effect |
-|------|--------|
-| `--skip-frontend` | Exclude frontend files, keep everything else |
-| `--frontend-only` | Include only frontend files and `README.md`, exclude everything else |
-
-Frontend extensions covered:
-
-| Type | Extensions |
-|------|------------|
-| Templates | `.html`, `.htm`, `.gohtml`, `.tmpl` |
-| Stylesheets | `.css`, `.scss`, `.sass`, `.less` |
-| JavaScript | `.js`, `.jsx`, `.mjs`, `.cjs` |
-| TypeScript | `.ts`, `.tsx` |
-| Frameworks | `.vue`, `.svelte` |
-
-`--skip-frontend` and `--frontend-only` are mutually exclusive. Both can be combined with `--omit-test`.
-
-## Vertical Slices Mode
-
-When `--vertical-slices` is passed, dirmd splits output into multiple files instead of one monolithic document:
-
-- **Root file** (`-o output.md`): Full directory tree with cross-references to slice files, a vertical slices index table (file counts, total bytes per directory), and full contents of all root-level files.
-- **Slice files** (`cmd.md`, `internal.md`, etc.): One per top-level directory, placed alongside the root file. Each contains its own tree, a back-reference to the root document, and full recursive file contents for that directory.
-
-This mode cannot be combined with `--append` or `--input-file`.
-
-Example output with `dirmd -o docs.md ~/repos/myproject --vertical-slices`:
-
-    docs/
-    ├── docs.md          ← root: tree + slices index + root file contents
-    ├── cmd.md           ← slice: tree + contents of cmd/
-    └── internal.md      ← slice: tree + contents of internal/
-
-## LLM-Optimized Output
-
-Output is designed for RAG ingestion and LLM context windows, not human presentation:
-
-- **ASCII tree format** (`+-` instead of Unicode box-drawing) to reduce token overhead
-- **Explicit file delimiters**: `--- FILE: ./path (bytes, lines) ---` and `--- END FILE ---`
-- **Document type markers**: `[ROOT]` and `[SLICE]` in H1 headers
-- **Cross-references**: Directory entries in root tree show `-> see cmd.md`; slice files reference their root document
-- **Slices index table**: File counts and total bytes per slice for informed retrieval decisions
-- **Tilde fences** (`~~~`) to avoid conflicts with backticks in source files
-
-## Flags
-
-| Flag | Description | Default |
-|------|-------------|---------|
-| `-o`, `--output` | Output markdown file path (required) | |
-| `-a`, `--append` | Append to existing output file | false |
-| `-f`, `--force` | Overwrite existing output file (non-append mode) | false |
-| `-i`, `--input-file` | Single file input (append mode only) | |
-| `--vertical-slices` | Split output into root file + one markdown per top-level directory | false |
-| `--max-size` | Max file size in bytes | 524288 |
-| `--max-depth` | Max directory recursion depth | 20 |
-| `--ignore` | Additional ignore patterns (glob) | |
-| `--extensions` | Additional file extensions to skip | |
-| `--proton-drive` | Upload output to Proton Drive after writing locally | false |
-| `--drive-path` | Full remote path on Proton Drive (e.g. /my-files/md/report.md) | /my-files/md/<filename> |
-| `--skip-frontend` | Omit frontend file types (.html, .css, .js, .ts, .vue, .svelte, etc.) | false |
-| `--frontend-only` | Include only frontend file types and README.md | false |
-| `--omit-test` | Exclude test files (Go *_test.go, Java *Test.java) and strip #[cfg(test)] blocks from Rust | false |
-
-## Proton Drive Integration
-
-dirmd can optionally upload the generated markdown file(s) to Proton Drive using the [Proton Drive CLI](https://proton.me/support/drive-cli). The upload is performed only when `--proton-drive` is passed. Without it, dirmd behaves exactly as before — no Proton Drive dependency is required.
-
-In vertical slices mode, all generated files (root + slices) are uploaded to `/my-files/md/`. The `--drive-path` flag is ignored in slices mode ; each file is uploaded by its basename.
-
-### Prerequisites
-
-1. Install the Proton Drive CLI — see the [official guide](https://proton.me/support/drive-cli) for download and installation instructions.
-2. Authenticate by running `proton-drive auth login`.
-3. Ensure `proton-drive` is in your PATH.
-
-If the CLI is not installed or you are not logged in, dirmd will report the error to stderr and exit with a non-zero code. Local files are always written successfully before the upload is attempted.
-
-For full documentation on the Proton Drive CLI, including installation, authentication, and troubleshooting, refer to the [official Proton Drive CLI support page](https://proton.me/support/drive-cli).
-
-## Examples
-
-    # Custom depth and size limit
-    dirmd -o output.md ~/repos/project --max-depth 5 --max-size 262144
-
-    # Ignore specific directories
-    dirmd -o output.md ~/repos/project --ignore __pycache__ --ignore .venv
-
-    # Skip additional file extensions
-    dirmd -o output.md ~/repos/project --extensions .log --extensions .tmp
-
-    # Vertical slices with overwrite
-    dirmd -o docs.md ~/repos/project -f --vertical-slices
-
-    # Skip frontend and omit tests
-    dirmd -o docs.md ~/repos/project -f --skip-frontend --omit-test
-
-    # Frontend only with test omission
-    dirmd -o docs.md ~/repos/project -f --frontend-only --omit-test
-
-    # Generate, then upload to default remote location
-    dirmd -o docs.md ~/repos/project --proton-drive
-
-    # Generate, then upload to a custom remote location
-    dirmd -o docs.md ~/repos/project --proton-drive --drive-path /my-files/projects/docs.md
-
-    # Overwrite existing local file and upload to Drive
-    dirmd -o docs.md ~/repos/project -f --proton-drive
-
-## Output Format
-
-Produces markdown with:
-
-1. Absolute path as H1 header with `[ROOT]` or `[SLICE]` marker
-2. ASCII directory tree (indented with `+-` and `|` characters)
-3. Vertical slices index table (sliced mode only)
-4. All text files with content in fenced code blocks
-5. Explicit `--- FILE: ---` and `--- END FILE ---` delimiters with byte and line counts
-6. Language detection from file extensions
-
-Example output structure (non-sliced mode):
-
-    # /home/user/repos/myproject [ROOT]
-
-    ## Directory Tree
-
-    ~~~
-    myproject/
-    +- cmd/
-    |   +- main.go
-    +- internal/
-    |   +- config.go
-    ~~~
-
-    ## Contents
-
-    --- FILE: ./cmd/main.go (45 bytes, 3 lines) ---
-    ~~~go
-    package main
-
-    func main() {}
-    ~~~
-    --- END FILE ---
-
-Note: Uses tilde fences (~~~) internally to avoid conflicts with nested backticks in source files.
+Rule of thumb: one file for tiny repos, slices when you need to browse, picks when you already know the answer.

Taskfile.yml

@@ -0,0 +1,22 @@
+version: "3"
+
+tasks:
+  build:
+    desc: Build dirmd with injected semantic version (task build VERSION=v0.1.4)
+    deps: [vet]
+    preconditions:
+      - sh: printf '%s' '{{.VERSION}}' | grep -Eq '^v[0-9]+\.[0-9]+\.[0-9]+$'
+        msg: "VERSION is required and must be a semantic tag like v0.1.4 — task build VERSION=v0.1.4"
+    cmds:
+      - rm ./bin/dirmd
+      - go build -trimpath -ldflags "-s -w -X git.flo.fo/FLO/dirmd/internal/config.Version={{.VERSION}}" -o bin/dirmd .
+
+  vet:
+    desc: Run go vet
+    cmds:
+      - go vet ./...
+
+  test:
+    desc: Run all tests
+    cmds:
+      - go test ./...

cmd/root.go

@@ -16,8 +16,9 @@ import (
 
 var (
 	rootCmd = &cobra.Command{
-		Use:   "dirmd [flags] <directory>",
-		Short: "Generate markdown documentation from directory structure",
+		Use:     "dirmd [flags] <directory>",
+		Short:   "Generate markdown documentation from directory structure",
+		Version: config.Version,
 		Long: `dirmd walks a directory and generates markdown files with:
 
 - Directory tree structure
@@ -27,35 +28,29 @@ Output is always written to a directory specified by -o.
 
 Examples:
 
-  # Create new documentation (writes index.md inside ./docs/)
+  # Create new documentation
   dirmd -o ./docs ~/repos/myproject
 
-  # Overwrite existing output directory
+  # Overwrite existing output directory (deletes all contents)
   dirmd -o ./docs ~/repos/myproject -f
 
   # Append a single file
   dirmd -a -i README.md -o ./docs
 
-  # Vertical slices (root index.md + one markdown per top-level dir)
+  # Vertical slices
   dirmd -o ./docs ~/repos/myproject --vertical-slices
 
-  # Skip frontend files
-  dirmd -o ./docs ~/repos/myproject --skip-frontend
-
-  # Frontend only
-  dirmd -o ./docs ~/repos/myproject --frontend-only
-
-  # Omit test files and test blocks
-  dirmd -o ./docs ~/repos/myproject --omit-test
+  # Include instructions from .dirmd
+  dirmd -o ./docs ~/repos/myproject --instructions
 
   # Generate and upload to Proton Drive
   dirmd -o ./docs ~/repos/myproject --proton-drive
 
-  # Generate and upload to a specific remote path
-  dirmd -o ./docs ~/repos/myproject --proton-drive --drive-path /my-files/docs/api
-
   # Interactive TUI mode
-  dirmd --tui`,
+  dirmd -i
+
+  # Pick specific files in vertical slices mode
+  dirmd -o ./docs ~/repos/myproject --vertical-slices --pick common/src/lib.rs --pick mssql-extractor/src/processor.rs`,
 		RunE: run,
 	}
 
@@ -75,6 +70,8 @@ Examples:
 	omitTest       bool
 	omitMd         bool
 	tuiMode        bool
+	instructions   bool
+	pickPaths      []string
 )
 
 func Execute() {
@@ -86,7 +83,7 @@ func Execute() {
 func init() {
 	rootCmd.PersistentFlags().StringVarP(&outputPath, "output", "o", "", "output directory (required)")
 	rootCmd.Flags().BoolVarP(&appendMode, "append", "a", false, "append to existing index.md")
-	rootCmd.Flags().BoolVarP(&force, "force", "f", false, "overwrite existing output directory")
+	rootCmd.Flags().BoolVarP(&force, "force", "f", false, "overwrite existing output directory (deletes all contents)")
 	rootCmd.Flags().StringVar(&singleFile, "input-file", "", "single file input (append mode only)")
 	rootCmd.Flags().BoolVarP(&tuiMode, "interactive", "i", false, "launch interactive TUI configuration wizard")
 	rootCmd.Flags().Int64Var(&maxSize, "max-size", config.DefaultMaxSize, "max file size in bytes")
@@ -100,6 +97,8 @@ func init() {
 	rootCmd.Flags().BoolVar(&frontendOnly, "frontend-only", false, "include only frontend file types and README.md")
 	rootCmd.Flags().BoolVar(&omitTest, "omit-test", false, "exclude test files (Go *_test.go, Java *Test.java) and strip #[cfg(test)] blocks from Rust")
 	rootCmd.Flags().BoolVar(&omitMd, "omit-md", false, "omit all .md files except README.md")
+	rootCmd.Flags().BoolVar(&instructions, "instructions", false, "include .dirmd instructions file if present in root")
+	rootCmd.Flags().StringArrayVar(&pickPaths, "pick", nil, "repeatable: relative path to file to include as pick (requires --vertical-slices)")
 }
 
 func run(cmd *cobra.Command, args []string) error {
@@ -108,7 +107,7 @@ func run(cmd *cobra.Command, args []string) error {
 	}
 
 	if outputPath == "" {
-		return fmt.Errorf("-o is required (or use --tui for interactive mode)")
+		return fmt.Errorf("-o is required (or use --interactive for interactive mode)")
 	}
 
 	if drivePath != "" && !protonDrive {
@@ -127,26 +126,32 @@ func run(cmd *cobra.Command, args []string) error {
 		return fmt.Errorf("--skip-frontend and --frontend-only are mutually exclusive")
 	}
 
+	if len(pickPaths) > 0 && !verticalSlices {
+		return fmt.Errorf("--pick requires --vertical-slices")
+	}
+
 	excludedExts := append(config.DefaultExts, extensions...)
 	if skipFrontend {
 		excludedExts = append(excludedExts, config.FrontendExts...)
 	}
 
 	cfg := &config.Config{
-		OutputPath:     outputPath,
-		AppendMode:     appendMode,
-		Force:          force,
-		MaxSize:        maxSize,
-		MaxDepth:       maxDepth,
-		Ignores:        append(config.DefaultIgnores, ignorePatterns...),
-		Extensions:     excludedExts,
-		ProtonDrive:    protonDrive,
-		DrivePath:      drivePath,
-		VerticalSlices: verticalSlices,
-		SkipFrontend:   skipFrontend,
-		FrontendOnly:   frontendOnly,
-		OmitTest:       omitTest,
-		OmitMd:         omitMd,
+		OutputPath:          outputPath,
+		AppendMode:          appendMode,
+		Force:               force,
+		MaxSize:             maxSize,
+		MaxDepth:            maxDepth,
+		Ignores:             append(config.DefaultIgnores, ignorePatterns...),
+		Extensions:          excludedExts,
+		ProtonDrive:         protonDrive,
+		DrivePath:           drivePath,
+		VerticalSlices:      verticalSlices,
+		SkipFrontend:        skipFrontend,
+		FrontendOnly:        frontendOnly,
+		OmitTest:            omitTest,
+		OmitMd:              omitMd,
+		IncludeInstructions: instructions,
+		PickPaths:           pickPaths,
 	}
 
 	if singleFile != "" {
@@ -174,8 +179,13 @@ func run(cmd *cobra.Command, args []string) error {
 	}
 
 	if !appendMode {
-		if _, err := os.Stat(absOutput); err == nil && !force {
-			return fmt.Errorf("output directory %s already exists (use -f to overwrite)", absOutput)
+		if _, err := os.Stat(absOutput); err == nil {
+			if !force {
+				return fmt.Errorf("output directory %s already exists (use -f to overwrite)", absOutput)
+			}
+			if err := os.RemoveAll(absOutput); err != nil {
+				return fmt.Errorf("failed to remove existing output directory: %w", err)
+			}
 		}
 	}
 
@@ -202,7 +212,6 @@ func run(cmd *cobra.Command, args []string) error {
 		if err != nil {
 			return err
 		}
-
 		fmt.Fprintf(os.Stderr, "generated %d files in %s\n", len(generated), absOutput)
 
 		if protonDrive {
@@ -210,27 +219,22 @@ func run(cmd *cobra.Command, args []string) error {
 			if remoteDir == "" {
 				remoteDir = "/my-files/md/" + filepath.Base(absOutput)
 			}
-
 			if err := drive.CheckAuth(); err != nil {
 				fmt.Fprintf(os.Stderr, "error: %v\n", err)
 				fmt.Fprintln(os.Stderr, "local files were written successfully, but upload was skipped")
 				return err
 			}
-
 			if err := drive.UploadDir(absOutput, remoteDir); err != nil {
 				fmt.Fprintf(os.Stderr, "error: %v\n", err)
 				fmt.Fprintln(os.Stderr, "local files were written successfully, but upload failed")
 				return err
 			}
-
 			fmt.Fprintf(os.Stderr, "uploaded %s to %s on Proton Drive\n", absOutput, remoteDir)
 		}
-
 		return nil
 	}
 
 	indexPath := filepath.Join(absOutput, indexBasename)
-
 	if err := renderer.Write(result, indexPath, appendMode, cfg.SingleFile); err != nil {
 		return err
 	}
@@ -242,19 +246,16 @@ func run(cmd *cobra.Command, args []string) error {
 		if remoteDir == "" {
 			remoteDir = "/my-files/md/" + filepath.Base(absOutput)
 		}
-
 		if err := drive.CheckAuth(); err != nil {
 			fmt.Fprintf(os.Stderr, "error: %v\n", err)
 			fmt.Fprintln(os.Stderr, "local file was written successfully, but upload was skipped")
 			return err
 		}
-
 		if err := drive.UploadDir(absOutput, remoteDir); err != nil {
 			fmt.Fprintf(os.Stderr, "error: %v\n", err)
 			fmt.Fprintln(os.Stderr, "local file was written successfully, but upload failed")
 			return err
 		}
-
 		fmt.Fprintf(os.Stderr, "uploaded %s to %s on Proton Drive\n", absOutput, remoteDir)
 	}
 

internal/config/config.go

@@ -1,36 +1,16 @@
 package config
 
-import (
-	"flag"
-	"fmt"
-	"os"
-	"path/filepath"
-	"strings"
-)
-
 const (
 	DefaultMaxSize  = 512 * 1024
 	DefaultMaxDepth = 20
-	Version         = "0.1.0"
 )
 
+var Version = "dev"
+
 var DefaultIgnores = []string{
-	".git",
-	"node_modules",
-	"vendor",
-	"bin",
-	"go.mod",
-	"go.sum",
-	"target",
-	"build",
-	"dist",
-	"Cargo.lock",
-	".idea",
-	".vscode",
-	"dependency-reduced-pom.xml",
-	"__pycache__",
-	"venv",
-	"env",
+	".git", "node_modules", "vendor", "bin", "go.mod", "go.sum",
+	"target", "build", "dist", "Cargo.lock", ".idea", ".vscode",
+	"dependency-reduced-pom.xml", "__pycache__", "venv", "env", "uv.lock",
 }
 
 var DefaultExts = []string{
@@ -42,10 +22,7 @@ var DefaultExts = []string{
 	".pdf", ".doc", ".docx", ".xls", ".xlsx",
 	".pem", ".key", ".cert",
 	".db", ".sqlite", ".sqlite3",
-	".class",
-	".jar",
-	".war",
-	".ear",
+	".class", ".jar", ".war", ".ear",
 	".pyc", ".pyo",
 }
 
@@ -57,157 +34,24 @@ var FrontendExts = []string{
 	".vue", ".svelte",
 }
 
-type stringSlice []string
-
-func (s *stringSlice) String() string {
-	return strings.Join(*s, ", ")
-}
-
-func (s *stringSlice) Set(v string) error {
-	*s = append(*s, v)
-	return nil
-}
-
 type Config struct {
-	InputPath      string
-	OutputPath     string
-	AppendMode     bool
-	Force          bool
-	SingleFile     bool
-	MaxSize        int64
-	MaxDepth       int
-	Ignores        []string
-	Extensions     []string
-	AbsRoot        string
-	ProtonDrive    bool
-	DrivePath      string
-	VerticalSlices bool
-	SkipFrontend   bool
-	FrontendOnly   bool
-	OmitTest       bool
-	OmitMd         bool
-}
-
-func PrintUsage() {
-	fmt.Fprintf(os.Stderr, "dirmd v%s\n\n", Version)
-	fmt.Fprintf(os.Stderr, "Usage: dirmd [flags] <directory>\n")
-	fmt.Fprintf(os.Stderr, "       dirmd -a -i <file> -o <output>\n\n")
-	fmt.Fprintf(os.Stderr, "Flags:\n")
-	flag.PrintDefaults()
-}
-
-func Parse() (*Config, error) {
-	var (
-		input          string
-		output         string
-		appendMd       bool
-		force          bool
-		maxSize        int64
-		maxDepth       int
-		ignores        stringSlice
-		exts           stringSlice
-		showVer        bool
-		protonDrive    bool
-		drivePath      string
-		verticalSlices bool
-		skipFrontend   bool
-		frontendOnly   bool
-		omitTest       bool
-		omitMd         bool
-	)
-
-	flag.StringVar(&input, "i", "", "single file input (append mode only)")
-	flag.StringVar(&output, "o", "", "output markdown file path (required)")
-	flag.BoolVar(&appendMd, "a", false, "append to existing output file")
-	flag.BoolVar(&force, "f", false, "overwrite existing output file (non-append mode)")
-	flag.Int64Var(&maxSize, "max-size", DefaultMaxSize, "max file size in bytes")
-	flag.IntVar(&maxDepth, "max-depth", DefaultMaxDepth, "max directory recursion depth")
-	flag.Var(&ignores, "ignore", "additional ignore patterns (glob, repeatable)")
-	flag.Var(&exts, "extensions", "additional file extensions to skip (repeatable)")
-	flag.BoolVar(&showVer, "version", false, "print version and exit")
-	flag.BoolVar(&protonDrive, "proton-drive", false, "upload output to Proton Drive after writing locally")
-	flag.StringVar(&drivePath, "drive-path", "", "full remote path on Proton Drive (requires --proton-drive")
-	flag.BoolVar(&verticalSlices, "vertical-slices", false, "split output into root file + one markdown per top-level directory")
-	flag.BoolVar(&skipFrontend, "skip-frontend", false, "omit frontend file types (.html, .css, .js, .ts, .vue, .svelte, etc.)")
-	flag.BoolVar(&frontendOnly, "frontend-only", false, "include only frontend file types and README.md")
-	flag.BoolVar(&omitTest, "omit-test", false, "exclude test files (Go *_test.go, Java *Test.java) and strip #[cfg(test)] blocks from Rust")
-	flag.BoolVar(&omitMd, "omit-md", false, "omit all .md files except README.md")
-
-	flag.Usage = PrintUsage
-	flag.Parse()
-
-	if showVer {
-		fmt.Printf("dirmd v%s\n", Version)
-		os.Exit(0)
-	}
-
-	if output == "" {
-		return nil, fmt.Errorf("-o is required")
-	}
-
-	if drivePath != "" && !protonDrive {
-		return nil, fmt.Errorf("--drive-path requires --proton-drive")
-	}
-
-	if verticalSlices && appendMd {
-		return nil, fmt.Errorf("--vertical-slices cannot be used with --append")
-	}
-
-	if verticalSlices && input != "" {
-		return nil, fmt.Errorf("--vertical-slices cannot be used with --input-file")
-	}
-
-	if skipFrontend && frontendOnly {
-		return nil, fmt.Errorf("--skip-frontend and --frontend-only are mutually exclusive")
-	}
-
-	excludedExts := append(DefaultExts, exts...)
-	if skipFrontend {
-		excludedExts = append(excludedExts, FrontendExts...)
-	}
-
-	cfg := &Config{
-		OutputPath:     output,
-		AppendMode:     appendMd,
-		Force:          force,
-		MaxSize:        maxSize,
-		MaxDepth:       maxDepth,
-		Ignores:        append(DefaultIgnores, ignores...),
-		Extensions:     excludedExts,
-		ProtonDrive:    protonDrive,
-		DrivePath:      drivePath,
-		VerticalSlices: verticalSlices,
-		SkipFrontend:   skipFrontend,
-		FrontendOnly:   frontendOnly,
-		OmitTest:       omitTest,
-		OmitMd:         omitMd,
-	}
-
-	if input != "" {
-		cfg.SingleFile = true
-		cfg.InputPath = input
-		if !appendMd {
-			return nil, fmt.Errorf("single file input (-i) requires append mode (-a)")
-		}
-	} else {
-		args := flag.Args()
-		if len(args) < 1 {
-			return nil, fmt.Errorf("directory argument is required when -i is not used")
-		}
-		cfg.InputPath = args[0]
-	}
-
-	abs, err := filepath.Abs(cfg.InputPath)
-	if err != nil {
-		return nil, fmt.Errorf("failed to resolve absolute path: %w", err)
-	}
-	cfg.AbsRoot = abs
-
-	if !appendMd {
-		if _, err := os.Stat(output); err == nil && !force {
-			return nil, fmt.Errorf("output file %s already exists (use -f to overwrite or -a to append)", output)
-		}
-	}
-
-	return cfg, nil
+	InputPath           string
+	OutputPath          string
+	AppendMode          bool
+	Force               bool
+	SingleFile          bool
+	MaxSize             int64
+	MaxDepth            int
+	Ignores             []string
+	Extensions          []string
+	AbsRoot             string
+	ProtonDrive         bool
+	DrivePath           string
+	VerticalSlices      bool
+	SkipFrontend        bool
+	FrontendOnly        bool
+	OmitTest            bool
+	OmitMd              bool
+	IncludeInstructions bool
+	PickPaths           []string
 }

internal/config/config_test.go

@@ -0,0 +1,81 @@
+package config
+
+import (
+	"slices"
+	"testing"
+)
+
+func TestVersion(t *testing.T) {
+	if Version == "" {
+		t.Error("Version is empty")
+	}
+}
+
+func TestDefaultIgnores(t *testing.T) {
+	tests := []struct {
+		name string
+		want string
+	}{
+		{"git", ".git"},
+		{"node_modules", "node_modules"},
+		{"vendor", "vendor"},
+		{"target", "target"},
+		{"pycache", "__pycache__"},
+		{"lock_file", "uv.lock"},
+		{"cargo_lock", "Cargo.lock"},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if !slices.Contains(DefaultIgnores, tt.want) {
+				t.Errorf("DefaultIgnores does not contain %q", tt.want)
+			}
+		})
+	}
+}
+
+func TestDefaultExts(t *testing.T) {
+	tests := []struct {
+		name string
+		want string
+	}{
+		{"jpg", ".jpg"},
+		{"png", ".png"},
+		{"mp4", ".mp4"},
+		{"zip", ".zip"},
+		{"exe", ".exe"},
+		{"pdf", ".pdf"},
+		{"pem", ".pem"},
+		{"db", ".db"},
+		{"jar", ".jar"},
+		{"pyc", ".pyc"},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if !slices.Contains(DefaultExts, tt.want) {
+				t.Errorf("DefaultExts does not contain %q", tt.want)
+			}
+		})
+	}
+}
+
+func TestFrontendExts(t *testing.T) {
+	tests := []struct {
+		name string
+		want string
+	}{
+		{"html", ".html"},
+		{"css", ".css"},
+		{"js", ".js"},
+		{"ts", ".ts"},
+		{"vue", ".vue"},
+		{"svelte", ".svelte"},
+		{"gohtml", ".gohtml"},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if !slices.Contains(FrontendExts, tt.want) {
+				t.Errorf("FrontendExts does not contain %q", tt.want)
+			}
+		})
+	}
+}

internal/drive/drive_test.go

@@ -0,0 +1,9 @@
+package drive
+
+import "testing"
+
+func TestBinaryName_constant(t *testing.T) {
+	if binaryName != "proton-drive" {
+		t.Errorf("binaryName = %q; want \"proton-drive\"", binaryName)
+	}
+}

internal/filter/filter.go

@@ -46,15 +46,15 @@ func (f *Filter) ShouldSkipFile(path, name string, info os.FileInfo) bool {
 		return true
 	}
 
-	if f.OmitMd && isNonReadmeMarkdown(path, name) {
+	if f.OmitMd && IsNonReadmeMarkdown(path, name) {
 		return true
 	}
 
-	if f.FrontendOnly && !isFrontendOrReadme(path, name) {
+	if f.FrontendOnly && !IsFrontendOrReadme(path, name) {
 		return true
 	}
 
-	if f.OmitTest && isTestFile(path, name) {
+	if f.OmitTest && IsTestFile(path, name) {
 		return true
 	}
 
@@ -68,25 +68,37 @@ func (f *Filter) ShouldSkipFile(path, name string, info os.FileInfo) bool {
 	return false
 }
 
-func isNonReadmeMarkdown(path, name string) bool {
+func IsNonReadmeMarkdown(path, name string) bool {
 	ext := strings.ToLower(filepath.Ext(path))
 	if ext != ".md" && ext != ".markdown" {
 		return false
 	}
-	return !strings.EqualFold(name, "README.md")
+	return !strings.EqualFold(name, "README.md") && !strings.EqualFold(name, "README.markdown")
 }
 
-func isFrontendOrReadme(path, name string) bool {
+func IsFrontendOrReadme(path, name string) bool {
+	if IsFrontendExt(path) {
+		return true
+	}
+	return strings.EqualFold(name, "README.md")
+}
+
+func IsFrontendExt(path string) bool {
 	ext := strings.ToLower(filepath.Ext(path))
 	for _, fe := range config.FrontendExts {
 		if strings.EqualFold(ext, fe) {
 			return true
 		}
 	}
-	return strings.EqualFold(name, "README.md")
+	return false
 }
 
-func isTestFile(path, name string) bool {
+func IsTestDir(path string) bool {
+	slashPath := filepath.ToSlash(path)
+	return strings.Contains(slashPath, "/tests/") || strings.HasPrefix(slashPath, "tests/")
+}
+
+func IsTestFile(path, name string) bool {
 	ext := strings.ToLower(filepath.Ext(path))
 
 	switch ext {
@@ -107,8 +119,7 @@ func isTestFile(path, name string) bool {
 		if strings.EqualFold(name, "conftest.py") {
 			return true
 		}
-		slashPath := filepath.ToSlash(path)
-		return strings.Contains(slashPath, "/tests/")
+		return IsTestDir(path)
 	}
 
 	return false

internal/filter/filter_test.go

@@ -0,0 +1,269 @@
+package filter
+
+import (
+	"os"
+	"path/filepath"
+	"testing"
+	"time"
+
+	"git.flo.fo/FLO/dirmd/internal/config"
+)
+
+func TestIsNonReadmeMarkdown(t *testing.T) {
+	tests := []struct {
+		name string
+		path string
+		want bool
+	}{
+		{"readme_md_false", "README.md", false},
+		{"readme_markdown_false", "README.markdown", false},
+		{"readme_lower_false", "readme.md", false},
+		{"other_md_true", "CHANGELOG.md", true},
+		{"other_markdown_true", "LICENSE.markdown", true},
+		{"txt_false", "README.txt", false},
+		{"go_false", "main.go", false},
+		{"empty_false", "", false},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := IsNonReadmeMarkdown(tt.path, filepath.Base(tt.path)); got != tt.want {
+				t.Errorf("IsNonReadmeMarkdown(%q) = %v; want %v", tt.path, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestIsFrontendExt(t *testing.T) {
+	tests := []struct {
+		name string
+		path string
+		want bool
+	}{
+		{"html_true", "page.html", true},
+		{"htm_true", "page.htm", true},
+		{"css_true", "style.css", true},
+		{"js_true", "app.js", true},
+		{"ts_true", "app.ts", true},
+		{"vue_true", "component.vue", true},
+		{"svelte_true", "app.svelte", true},
+		{"gohtml_true", "template.gohtml", true},
+		{"go_false", "main.go", false},
+		{"md_false", "README.md", false},
+		{"json_false", "config.json", false},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := IsFrontendExt(tt.path); got != tt.want {
+				t.Errorf("IsFrontendExt(%q) = %v; want %v", tt.path, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestIsFrontendOrReadme(t *testing.T) {
+	tests := []struct {
+		name string
+		path string
+		want bool
+	}{
+		{"html_true", "page.html", true},
+		{"readme_true", "README.md", true},
+		{"readme_lower_true", "readme.md", true},
+		{"css_true", "style.css", true},
+		{"go_false", "main.go", false},
+		{"changelog_false", "CHANGELOG.md", false},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := IsFrontendOrReadme(tt.path, filepath.Base(tt.path)); got != tt.want {
+				t.Errorf("IsFrontendOrReadme(%q) = %v; want %v", tt.path, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestIsTestDir(t *testing.T) {
+	tests := []struct {
+		name string
+		path string
+		want bool
+	}{
+		{"tests_top_level_true", "tests/", true},
+		{"tests_nested_true", "pkg/tests/unit/", true},
+		{"test_single_letter_false", "test/", false},
+		{"src_test_false_current_behavior", "src/test/java/com/example/", false},
+		{"normal_false", "src/", false},
+		{"tests_file_false", "testfile.go", false},
+		{"empty_false", "", false},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := IsTestDir(tt.path); got != tt.want {
+				t.Errorf("IsTestDir(%q) = %v; want %v", tt.path, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestIsTestFile(t *testing.T) {
+	tests := []struct {
+		name string
+		path string
+		want bool
+	}{
+		{"go_test_true", "path/to/file_test.go", true},
+		{"go_test_uppercase_true", "path/to/file_TEST.go", true},
+		{"go_normal_false", "path/to/main.go", false},
+		{"go_integration_test_true", "path/to/integration_test.go", true},
+		{"java_test_suffix_true", "MyClassTest.java", true},
+		{"java_tests_suffix_true", "MyClassTests.java", true},
+		{"java_normal_false", "MyClass.java", false},
+		{"java_src_test_true", "src/test/java/com/example/MyTest.java", true},
+		{"py_test_prefix_true", "test_main.py", true},
+		{"py_test_suffix_true", "main_test.py", true},
+		{"py_conftest_true", "conftest.py", true},
+		{"py_normal_false", "main.py", false},
+		{"py_tests_dir_true", "tests/conftest.py", true},
+		{"rust_cfg_false", "main.rs", false},
+		{"c_false", "main.c", false},
+		{"unknown_false", "README.md", false},
+		{"empty_false", "", false},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := IsTestFile(tt.path, filepath.Base(tt.path)); got != tt.want {
+				t.Errorf("IsTestFile(%q, %q) = %v; want %v", tt.path, filepath.Base(tt.path), got, tt.want)
+			}
+		})
+	}
+}
+
+func TestShouldSkipFile(t *testing.T) {
+	tests := []struct {
+		name   string
+		filter *Filter
+		path   string
+		size   int64
+		want   bool
+	}{
+		{
+			name:   "large_file_skipped",
+			filter: &Filter{MaxSize: 1000, Extensions: []string{}, Ignores: []string{}},
+			path:   "big.bin",
+			size:   2000,
+			want:   true,
+		},
+		{
+			name:   "small_file_not_skipped",
+			filter: &Filter{MaxSize: 1000, Extensions: []string{}, Ignores: []string{}},
+			path:   "tiny.txt",
+			size:   500,
+			want:   false,
+		},
+		{
+			name:   "excluded_extension_skipped",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{".bin"}, Ignores: []string{}},
+			path:   "file.bin",
+			size:   500,
+			want:   true,
+		},
+		{
+			name:   "hidden_file_skipped",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}},
+			path:   ".gitignore",
+			size:   500,
+			want:   true,
+		},
+		{
+			name:   "omit_test_go_test",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, OmitTest: true},
+			path:   "main_test.go",
+			size:   500,
+			want:   true,
+		},
+		{
+			name:   "omit_test_normal_go",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, OmitTest: true},
+			path:   "main.go",
+			size:   500,
+			want:   false,
+		},
+		{
+			name:   "omit_md_changelog",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, OmitMd: true},
+			path:   "CHANGELOG.md",
+			size:   500,
+			want:   true,
+		},
+		{
+			name:   "omit_md_readme_not",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, OmitMd: true},
+			path:   "README.md",
+			size:   500,
+			want:   false,
+		},
+		{
+			name:   "omit_md_readme_markdown_not",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, OmitMd: true},
+			path:   "README.markdown",
+			size:   500,
+			want:   false,
+		},
+		{
+			name:   "frontend_only_non_frontend",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, FrontendOnly: true},
+			path:   "main.go",
+			size:   500,
+			want:   true,
+		},
+		{
+			name:   "frontend_only_readme",
+			filter: &Filter{MaxSize: 1000000, Extensions: []string{}, Ignores: []string{}, FrontendOnly: true},
+			path:   "README.md",
+			size:   500,
+			want:   false,
+		},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			fi := fakeFileInfo{size: tt.size}
+			if got := tt.filter.ShouldSkipFile(tt.path, filepath.Base(tt.path), fi); got != tt.want {
+				t.Errorf("ShouldSkipFile() = %v; want %v", got, tt.want)
+			}
+		})
+	}
+}
+
+func TestShouldSkipDir(t *testing.T) {
+	tests := []struct {
+		name   string
+		filter *Filter
+		dir    string
+		want   bool
+	}{
+		{"hidden_dir", &Filter{Ignores: []string{}}, ".git", true},
+		{"node_modules_with_defaults", &Filter{Ignores: config.DefaultIgnores}, "node_modules", true},
+		{"node_modules_without_defaults", &Filter{Ignores: []string{}}, "node_modules", false},
+		{"custom_ignore", &Filter{Ignores: []string{"vendor"}}, "vendor", true},
+		{"normal_dir", &Filter{Ignores: config.DefaultIgnores}, "src", false},
+		{"empty_ignores_no_skip", &Filter{Ignores: []string{}}, "src", false},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := tt.filter.ShouldSkipDir(tt.dir); got != tt.want {
+				t.Errorf("ShouldSkipDir(%q) = %v; want %v", tt.dir, got, tt.want)
+			}
+		})
+	}
+}
+
+type fakeFileInfo struct {
+	size int64
+}
+
+func (f fakeFileInfo) Name() string       { return "" }
+func (f fakeFileInfo) Size() int64        { return f.size }
+func (f fakeFileInfo) Mode() os.FileMode  { return 0 }
+func (f fakeFileInfo) ModTime() time.Time { return time.Time{} }
+func (f fakeFileInfo) IsDir() bool        { return false }
+func (f fakeFileInfo) Sys() any           { return nil }

internal/git/git.go

@@ -0,0 +1,37 @@
+package git
+
+import (
+	"fmt"
+	"os/exec"
+	"strings"
+)
+
+type CommitInfo struct {
+	ShortSHA string
+	Message  string
+}
+
+func GetCommitInfo(rootDir string) *CommitInfo {
+	cmd := exec.Command("git", "-C", rootDir, "log", "-1", "--format=%h %s")
+	output, err := cmd.Output()
+	if err != nil {
+		return nil
+	}
+
+	parts := strings.SplitN(strings.TrimSpace(string(output)), " ", 2)
+	if len(parts) < 2 {
+		return nil
+	}
+
+	return &CommitInfo{
+		ShortSHA: parts[0],
+		Message:  parts[1],
+	}
+}
+
+func FormatCommitLine(info *CommitInfo) string {
+	if info == nil {
+		return ""
+	}
+	return fmt.Sprintf("> Commit: %s (%s)\n", info.ShortSHA, info.Message)
+}

internal/git/git_test.go

@@ -0,0 +1,48 @@
+package git
+
+import (
+	"os/exec"
+	"strings"
+	"testing"
+)
+
+func TestFormatCommitLine_nil(t *testing.T) {
+	if got := FormatCommitLine(nil); got != "" {
+		t.Errorf("FormatCommitLine(nil) = %q; want empty", got)
+	}
+}
+
+func TestFormatCommitLine_valid(t *testing.T) {
+	commit := &CommitInfo{
+		ShortSHA: "abc1234",
+		Message:  "Initial commit",
+	}
+	expected := "> Commit: abc1234 (Initial commit)\n"
+	if got := FormatCommitLine(commit); got != expected {
+		t.Errorf("FormatCommitLine() = %q; want %q", got, expected)
+	}
+}
+
+func TestGetCommitInfo_no_git(t *testing.T) {
+	cmd := exec.Command("git", "-C", "/nonexistent", "log", "-1", "--format=%h %s")
+	output, err := cmd.Output()
+	if err == nil {
+		t.Fatalf("expected error from nonexistent path, got %s", string(output))
+	}
+
+	result := GetCommitInfo("/nonexistent")
+	if result != nil {
+		t.Errorf("GetCommitInfo(/nonexistent) = %v; want nil", result)
+	}
+}
+
+func TestGetCommitInfo_no_commits(t *testing.T) {
+	out, err := exec.Command("sh", "-c", "echo 'abc123'").Output()
+	if err != nil {
+		t.Skip("shell command failed")
+	}
+	parts := strings.SplitN(strings.TrimSpace(string(out)), " ", 2)
+	if len(parts) < 2 {
+		t.Skip("cannot verify single-part output")
+	}
+}

internal/instructions/instructions.go

@@ -0,0 +1,41 @@
+package instructions
+
+import (
+	"os"
+	"path/filepath"
+	"strings"
+)
+
+const FileName = ".dirmd"
+
+func Read(rootDir string) (string, error) {
+	path := filepath.Join(rootDir, FileName)
+	data, err := os.ReadFile(path)
+	if err != nil {
+		if os.IsNotExist(err) {
+			return "", nil
+		}
+		return "", err
+	}
+	return string(data), nil
+}
+
+func Format(content string) string {
+	if content == "" {
+		return ""
+	}
+	content = strings.TrimSpace(content)
+	if content == "" {
+		return ""
+	}
+	lines := strings.Split(content, "\n")
+	var sb strings.Builder
+	sb.WriteString("> Instructions:\n")
+	for _, line := range lines {
+		sb.WriteString("> ")
+		sb.WriteString(line)
+		sb.WriteString("\n")
+	}
+	sb.WriteString("\n")
+	return sb.String()
+}

internal/instructions/instructions_test.go

@@ -0,0 +1,60 @@
+package instructions
+
+import (
+	"strings"
+	"testing"
+)
+
+func TestFormat_empty(t *testing.T) {
+	tests := []struct {
+		name  string
+		input string
+		want  string
+	}{
+		{"empty_string", "", ""},
+		{"whitespace_only", "   ", ""},
+		{"newline_only", "\n\n", ""},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := Format(tt.input); got != tt.want {
+				t.Errorf("Format(%q) = %q; want %q", tt.input, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestFormat_valid(t *testing.T) {
+	tests := []struct {
+		name  string
+		input string
+	}{
+		{"single_line", "hello world"},
+		{"multi_line", "line 1\nline 2\nline 3"},
+		{"trailing_newlines", "content\n\n\n"},
+		{"leading_whitespace", "\n\ncontent"},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			got := Format(tt.input)
+			if !strings.HasPrefix(got, "> Instructions:\n") {
+				t.Errorf("missing instructions header")
+			}
+			if !strings.HasSuffix(got, "\n") {
+				t.Errorf("does not end with newline")
+			}
+			lines := strings.Split(got, "\n")
+			for _, line := range lines {
+				if line != "" && !strings.HasPrefix(line, ">") {
+					t.Errorf("line does not start with '>': %q", line)
+				}
+			}
+		})
+	}
+}
+
+func TestFileName_constant(t *testing.T) {
+	if FileName != ".dirmd" {
+		t.Errorf("FileName = %q; want \".dirmd\"", FileName)
+	}
+}

internal/renderer/flags.go

@@ -0,0 +1,75 @@
+package renderer
+
+import (
+	"fmt"
+	"slices"
+	"strings"
+
+	"git.flo.fo/FLO/dirmd/internal/config"
+)
+
+func FormatFlags(cfg *config.Config) string {
+	if cfg == nil {
+		return ""
+	}
+
+	var flags []string
+	if cfg.OmitTest {
+		flags = append(flags, "--omit-test")
+	}
+	if cfg.OmitMd {
+		flags = append(flags, "--omit-md")
+	}
+	if cfg.SkipFrontend {
+		flags = append(flags, "--skip-frontend")
+	}
+	if cfg.FrontendOnly {
+		flags = append(flags, "--frontend-only")
+	}
+	if cfg.MaxDepth != config.DefaultMaxDepth {
+		flags = append(flags, fmt.Sprintf("--max-depth %d", cfg.MaxDepth))
+	}
+	if cfg.MaxSize != config.DefaultMaxSize {
+		flags = append(flags, fmt.Sprintf("--max-size %d", cfg.MaxSize))
+	}
+
+	var sb strings.Builder
+
+	if len(flags) > 0 {
+		fmt.Fprintf(&sb, "> Flags: %s\n", strings.Join(flags, " "))
+	}
+
+	extraIgnores := setMinus(cfg.Ignores, config.DefaultIgnores)
+	if len(extraIgnores) > 0 {
+		fmt.Fprintf(&sb, "> Ignored: %s\n", strings.Join(extraIgnores, ", "))
+	}
+
+	var extraExts []string
+	for _, e := range cfg.Extensions {
+		if slices.Contains(config.DefaultExts, e) || slices.Contains(config.FrontendExts, e) {
+			continue
+		}
+		extraExts = append(extraExts, e)
+	}
+	if len(extraExts) > 0 {
+		fmt.Fprintf(&sb, "> Skipped extensions: %s\n", strings.Join(extraExts, ", "))
+	}
+
+	if sb.Len() > 0 {
+		sb.WriteString("\n")
+	}
+	return sb.String()
+}
+
+func setMinus(haystack, defaults []string) []string {
+	seen := make(map[string]bool)
+	var extra []string
+	for _, h := range haystack {
+		if slices.Contains(defaults, h) || seen[h] {
+			continue
+		}
+		seen[h] = true
+		extra = append(extra, h)
+	}
+	return extra
+}

internal/renderer/renderer.go

@@ -6,8 +6,13 @@ import (
 	"path/filepath"
 	"sort"
 	"strings"
+	"time"
 	"unicode/utf8"
 
+	"git.flo.fo/FLO/dirmd/internal/config"
+	"git.flo.fo/FLO/dirmd/internal/filter"
+	"git.flo.fo/FLO/dirmd/internal/git"
+	"git.flo.fo/FLO/dirmd/internal/instructions"
 	"git.flo.fo/FLO/dirmd/internal/tree"
 	"git.flo.fo/FLO/dirmd/internal/walker"
 )
@@ -35,14 +40,31 @@ func Write(result *walker.Result, outputPath string, appendMode bool, singleFile
 		h1Path = filepath.Join(result.AbsRoot, result.Entries[0].RelPath)
 	}
 
-	fmt.Fprintf(&sb, "# %s [ROOT]\n\n", h1Path)
+	fmt.Fprintf(&sb, "# %s [ROOT]\n", h1Path)
+
+	if !appendMode {
+		fmt.Fprintf(&sb, "> Generated: %s\n", time.Now().Format(time.RFC3339))
+		sb.WriteString(git.FormatCommitLine(result.Commit))
+
+		if result.Instructions != "" {
+			sb.WriteString(instructions.Format(result.Instructions))
+		} else {
+			sb.WriteString("\n")
+		}
+
+		sb.WriteString(FormatFlags(result.Cfg))
+	}
 
 	if !singleFile {
-		root := tree.Build(result.Entries)
+		treeRoot, err := tree.BuildFullTree(result.AbsRoot, result.Cfg)
+		if err != nil {
+			return fmt.Errorf("cannot build tree: %w", err)
+		}
+
 		rootName := filepath.Base(result.AbsRoot)
 		sb.WriteString("## Directory Tree\n\n")
 		sb.WriteString(fenceChars + "\n")
-		sb.WriteString(renderTreeForLLM(root, rootName))
+		sb.WriteString(renderTreeWithLegend(treeRoot, rootName))
 		sb.WriteString(fenceChars + "\n\n")
 	}
 
@@ -53,7 +75,6 @@ func Write(result *walker.Result, outputPath string, appendMode bool, singleFile
 
 		for _, entry := range result.Entries {
 			fullPath := filepath.Join(result.AbsRoot, entry.RelPath)
-
 			content, err := readFileForOutput(fullPath, result.OmitTest)
 			if err != nil {
 				fmt.Fprintf(os.Stderr, "warning: cannot read %s: %v\n", entry.RelPath, err)
@@ -63,7 +84,7 @@ func Write(result *walker.Result, outputPath string, appendMode bool, singleFile
 			language := extToLang(filepath.Ext(entry.RelPath))
 			lines := countLines(content)
 
-			fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", entry.RelPath, entry.Size, lines)
+			fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", entry.RelPath, len(content), lines)
 			fmt.Fprintf(&sb, "%s", fenceChars)
 			if language != "" {
 				fmt.Fprintf(&sb, "%s", language)
@@ -104,14 +125,9 @@ func WriteSlices(result *walker.Result, outputDir, repoName string) ([]string, e
 		}
 	}
 
-	var generated []string
-
-	indexBasename := "index_" + repoName + ".md"
-	rootPath := filepath.Join(outputDir, indexBasename)
-	generated = append(generated, rootPath)
-
-	if err := writeRootSlice(rootPath, absRoot, rootName, repoName, rootFiles, topLevelDirs, result.OmitTest); err != nil {
-		return nil, fmt.Errorf("failed to write root slice: %w", err)
+	treeRoot, err := tree.BuildFullTree(absRoot, result.Cfg)
+	if err != nil {
+		return nil, fmt.Errorf("cannot build full tree: %w", err)
 	}
 
 	var dirNames []string
@@ -121,7 +137,40 @@ func WriteSlices(result *walker.Result, outputDir, repoName string) ([]string, e
 	sort.Strings(dirNames)
 
 	for _, dirName := range dirNames {
-		sliceName := strings.TrimSuffix(dirName, "/") + "_" + repoName + ".md"
+		if node, ok := treeRoot.Children[dirName]; ok {
+			node.Ref = filepath.Join(dirName, dirName+"_"+repoName+".md")
+		}
+	}
+
+	var generated []string
+	indexBasename := "index_" + repoName + ".md"
+	rootPath := filepath.Join(outputDir, indexBasename)
+	generated = append(generated, rootPath)
+
+	rootSliceBasename := "root_" + repoName + ".md"
+	rootSlicePath := filepath.Join(outputDir, rootSliceBasename)
+	generated = append(generated, rootSlicePath)
+
+	pickInfos := make([]PickInfo, 0)
+
+	if len(result.Cfg.PickPaths) > 0 {
+		pickInfos, err = writePickFiles(absRoot, outputDir, result.Cfg, result.OmitTest, result.Commit)
+		if err != nil {
+			return nil, fmt.Errorf("failed to write pick files: %w", err)
+		}
+		generated = append(generated, pickInfoPaths(pickInfos)...)
+	}
+
+	if err := writeRootIndex(rootPath, absRoot, rootName, repoName, topLevelDirs, rootFiles, result.Commit, result.Instructions, treeRoot, result.Cfg, pickInfos); err != nil {
+		return nil, fmt.Errorf("failed to write root index: %w", err)
+	}
+
+	if err := writeRootSliceFile(rootSlicePath, absRoot, rootFiles, result.OmitTest, result.Commit, result.Cfg); err != nil {
+		return nil, fmt.Errorf("failed to write root slice: %w", err)
+	}
+
+	for _, dirName := range dirNames {
+		sliceName := dirName + "_" + repoName + ".md"
 		sliceDir := filepath.Join(outputDir, dirName)
 		if err := os.MkdirAll(sliceDir, 0755); err != nil {
 			return nil, fmt.Errorf("cannot create slice directory %s: %w", sliceDir, err)
@@ -132,20 +181,7 @@ func WriteSlices(result *walker.Result, outputDir, repoName string) ([]string, e
 		absDir := filepath.Join(absRoot, dirName)
 		dirEntries := topLevelDirs[dirName]
 
-		treeEntries := make([]walker.Entry, len(dirEntries))
-		for i, e := range dirEntries {
-			sepIdx := strings.Index(e.RelPath, string(filepath.Separator))
-			if sepIdx >= 0 {
-				treeEntries[i] = walker.Entry{
-					RelPath: e.RelPath[sepIdx+1:],
-					Size:    e.Size,
-				}
-			} else {
-				treeEntries[i] = e
-			}
-		}
-
-		if err := writeDirSlice(slicePath, absDir, absRoot, dirName, treeEntries, dirEntries, indexBasename, result.OmitTest); err != nil {
+		if err := writeDirSlice(slicePath, absDir, absRoot, dirName, dirEntries, indexBasename, result.OmitTest, result.Commit, result.Cfg); err != nil {
 			return nil, fmt.Errorf("failed to write slice %s: %w", sliceName, err)
 		}
 	}
@@ -153,21 +189,137 @@ func WriteSlices(result *walker.Result, outputDir, repoName string) ([]string, e
 	return generated, nil
 }
 
-func writeRootSlice(path, absRoot, rootName, repoName string, rootFiles []walker.Entry, topLevelDirs map[string][]walker.Entry, omitTest bool) error {
+type PickInfo struct {
+	RelPath  string
+	FileType string
+	SliceDir string
+}
+
+func pickInfoPaths(picks []PickInfo) []string {
+	var paths []string
+	for _, p := range picks {
+		paths = append(paths, filepath.Join(p.SliceDir, p.FileType))
+	}
+	return paths
+}
+
+func writePickFiles(absRoot, outputDir string, cfg *config.Config, omitTest bool, commit *git.CommitInfo) ([]PickInfo, error) {
+	var pickInfos []PickInfo
+
+	for _, pickPath := range cfg.PickPaths {
+		fullPath := filepath.Join(absRoot, pickPath)
+
+		info, err := os.Stat(fullPath)
+		if err != nil {
+			return nil, fmt.Errorf("cannot access pick path %s: %w", pickPath, err)
+		}
+
+		if info.IsDir() {
+			return nil, fmt.Errorf("pick path must be a file: %s", pickPath)
+		}
+
+		name := filepath.Base(pickPath)
+		flt := &filter.Filter{
+			MaxSize:      cfg.MaxSize,
+			Extensions:   cfg.Extensions,
+			Ignores:      cfg.Ignores,
+			OmitTest:     cfg.OmitTest,
+			FrontendOnly: cfg.FrontendOnly,
+			OmitMd:       cfg.OmitMd,
+		}
+
+		if flt.ShouldSkipFile(fullPath, name, info) {
+			return nil, fmt.Errorf("pick path %s filtered by active rules", pickPath)
+		}
+
+		parts := strings.Split(pickPath, string(filepath.Separator))
+		sliceDir := outputDir
+		if len(parts) > 1 {
+			sliceDir = filepath.Join(outputDir, parts[0])
+			if err := os.MkdirAll(sliceDir, 0755); err != nil {
+				return nil, fmt.Errorf("cannot create pick slice directory %s: %w", sliceDir, err)
+			}
+		}
+
+		sliceName := filepath.Base(pickPath) + ".md"
+		pickPathOut := filepath.Join(sliceDir, sliceName)
+
+		if err := writePickFile(pickPathOut, absRoot, pickPath, omitTest, commit, cfg); err != nil {
+			return nil, fmt.Errorf("failed to write pick %s: %w", pickPath, err)
+		}
+
+		pickInfos = append(pickInfos, PickInfo{
+			RelPath:  pickPath,
+			FileType: sliceName,
+			SliceDir: filepath.Base(sliceDir),
+		})
+	}
+
+	return pickInfos, nil
+}
+
+func writePickFile(path, absRoot, relPath string, omitTest bool, commit *git.CommitInfo, cfg *config.Config) error {
 	f, err := os.Create(path)
 	if err != nil {
-		return fmt.Errorf("cannot create root file: %w", err)
+		return fmt.Errorf("cannot create pick file: %w", err)
 	}
 	defer f.Close()
 
 	var sb strings.Builder
 
-	fmt.Fprintf(&sb, "# %s [ROOT]\n\n", absRoot)
+	fmt.Fprintf(&sb, "# %s [SLICE]\n", filepath.Join(absRoot, relPath))
+	fmt.Fprintf(&sb, "> Generated: %s\n", time.Now().Format(time.RFC3339))
+	sb.WriteString(git.FormatCommitLine(commit))
+	sb.WriteString(FormatFlags(cfg))
+	fmt.Fprintf(&sb, "Root document: index_%s.md\n\n", filepath.Base(absRoot))
+
+	fullPath := filepath.Join(absRoot, relPath)
+	content, err := readFileForOutput(fullPath, omitTest)
+	if err != nil {
+		return fmt.Errorf("cannot read pick file %s: %w", relPath, err)
+	}
+	language := extToLang(filepath.Ext(relPath))
+	lines := countLines(content)
+
+	fmt.Fprintf(&sb, "Tree: %s\n\n", tree.RenderBreadcrumb(absRoot, relPath))
+
+	fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", relPath, len(content), lines)
+	sb.WriteString(fenceChars)
+	if language != "" {
+		sb.WriteString(language)
+	}
+	sb.WriteString("\n")
+	sb.WriteString(content)
+	if !strings.HasSuffix(content, "\n") {
+		sb.WriteString("\n")
+	}
+	fmt.Fprintf(&sb, "%s\n--- END FILE ---\n\n", fenceChars)
+
+	_, err = f.WriteString(sb.String())
+	return err
+}
+
+func writeRootIndex(path, absRoot, rootName, repoName string, topLevelDirs map[string][]walker.Entry, rootFiles []walker.Entry, commit *git.CommitInfo, instContent string, treeRoot *tree.Node, cfg *config.Config, picks []PickInfo) error {
+	f, err := os.Create(path)
+	if err != nil {
+		return fmt.Errorf("cannot create root index: %w", err)
+	}
+	defer f.Close()
+
+	var sb strings.Builder
+	fmt.Fprintf(&sb, "# %s [ROOT]\n", absRoot)
+	fmt.Fprintf(&sb, "> Generated: %s\n", time.Now().Format(time.RFC3339))
+	sb.WriteString(git.FormatCommitLine(commit))
+	if instContent != "" {
+		sb.WriteString(instructions.Format(instContent))
+	} else {
+		sb.WriteString("\n")
+	}
+	sb.WriteString(FormatFlags(cfg))
 
-	treeLines := buildTreeWithRefs(rootName, repoName, topLevelDirs, rootFiles)
 	sb.WriteString("## Directory Tree\n\n")
 	sb.WriteString(fenceChars + "\n")
-	sb.WriteString(treeLines)
+	sb.WriteString(renderTreeWithLegend(treeRoot, rootName))
 	sb.WriteString(fenceChars + "\n\n")
 
 	sb.WriteString("## Vertical Slices Index\n\n")
@@ -176,61 +328,88 @@ func writeRootSlice(path, absRoot, rootName, repoName string, rootFiles []walker
 	sb.WriteString("| Slice File | Directory | Files | Total Bytes |\n")
 	sb.WriteString("|------------|-----------|-------|-------------|\n")
 
-	var dirNames []string
-	for k := range topLevelDirs {
-		dirNames = append(dirNames, k)
+	rootSliceFile := "root_" + repoName + ".md"
+	rootFileCount := len(rootFiles)
+	rootTotalBytes := int64(0)
+	for _, e := range rootFiles {
+		rootTotalBytes += e.Size
 	}
-	sort.Strings(dirNames)
+	fmt.Fprintf(&sb, "| %s | (root) | %d | %d |\n", rootSliceFile, rootFileCount, rootTotalBytes)
 
-	for _, dirName := range dirNames {
+	for _, dirName := range sortedKeys(topLevelDirs) {
 		entries := topLevelDirs[dirName]
 		fileCount := len(entries)
 		totalBytes := int64(0)
 		for _, e := range entries {
 			totalBytes += e.Size
 		}
-		sliceFile := filepath.Join(dirName, strings.TrimSuffix(dirName, "/")+"_"+repoName+".md")
+		sliceFile := filepath.Join(dirName, dirName+"_"+repoName+".md")
 		fmt.Fprintf(&sb, "| %s | %s/ | %d | %d |\n", sliceFile, dirName, fileCount, totalBytes)
 	}
 	sb.WriteString("\n")
 
-	if len(rootFiles) > 0 {
-		sb.WriteString("## Root Contents\n\n")
-
-		sort.Slice(rootFiles, func(i, j int) bool {
-			return rootFiles[i].RelPath < rootFiles[j].RelPath
-		})
-
-		for _, entry := range rootFiles {
-			fullPath := filepath.Join(absRoot, entry.RelPath)
-			content, err := readFileForOutput(fullPath, omitTest)
-			if err != nil {
-				fmt.Fprintf(os.Stderr, "warning: cannot read %s: %v\n", entry.RelPath, err)
-				continue
-			}
-
-			language := extToLang(filepath.Ext(entry.RelPath))
-			lines := countLines(content)
-
-			fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", entry.RelPath, entry.Size, lines)
-			fmt.Fprintf(&sb, "%s", fenceChars)
-			if language != "" {
-				fmt.Fprintf(&sb, "%s", language)
-			}
-			fmt.Fprintf(&sb, "\n")
-			fmt.Fprintf(&sb, "%s", content)
-			if !strings.HasSuffix(content, "\n") {
-				fmt.Fprintf(&sb, "\n")
-			}
-			fmt.Fprintf(&sb, "%s\n--- END FILE ---\n\n", fenceChars)
+	if len(picks) > 0 {
+		sb.WriteString("## Picks\n\n")
+		sb.WriteString("These files were explicitly selected via --pick flags.\n\n")
+		for _, p := range picks {
+			fmt.Fprintf(&sb, "- `%s` (%s)\n", p.RelPath, p.SliceDir)
 		}
+		sb.WriteString("\n")
 	}
 
 	_, err = f.WriteString(sb.String())
 	return err
 }
 
-func writeDirSlice(path, absDir, absRoot, dirName string, treeEntries, fileEntries []walker.Entry, rootFileName string, omitTest bool) error {
+func writeRootSliceFile(path, absRoot string, rootFiles []walker.Entry, omitTest bool, commit *git.CommitInfo, cfg *config.Config) error {
+	f, err := os.Create(path)
+	if err != nil {
+		return fmt.Errorf("cannot create root slice file: %w", err)
+	}
+	defer f.Close()
+
+	var sb strings.Builder
+	fmt.Fprintf(&sb, "# %s [ROOT]\n", absRoot)
+	fmt.Fprintf(&sb, "> Generated: %s\n", time.Now().Format(time.RFC3339))
+	sb.WriteString(git.FormatCommitLine(commit))
+	sb.WriteString(FormatFlags(cfg))
+
+	rootName := filepath.Base(absRoot)
+	fmt.Fprintf(&sb, "Tree: %s /\n\n", rootName)
+
+	if len(rootFiles) == 0 {
+		sb.WriteString("(none)\n")
+		_, err = f.WriteString(sb.String())
+		return err
+	}
+
+	sort.Slice(rootFiles, func(i, j int) bool { return rootFiles[i].RelPath < rootFiles[j].RelPath })
+	for _, entry := range rootFiles {
+		fullPath := filepath.Join(absRoot, entry.RelPath)
+		content, err := readFileForOutput(fullPath, omitTest)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "warning: cannot read %s: %v\n", entry.RelPath, err)
+			continue
+		}
+		language := extToLang(filepath.Ext(entry.RelPath))
+		lines := countLines(content)
+		fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", entry.RelPath, len(content), lines)
+		fmt.Fprintf(&sb, "%s", fenceChars)
+		if language != "" {
+			fmt.Fprintf(&sb, "%s", language)
+		}
+		fmt.Fprintf(&sb, "\n%s", content)
+		if !strings.HasSuffix(content, "\n") {
+			fmt.Fprintf(&sb, "\n")
+		}
+		fmt.Fprintf(&sb, "%s\n--- END FILE ---\n\n", fenceChars)
+	}
+
+	_, err = f.WriteString(sb.String())
+	return err
+}
+
+func writeDirSlice(path, absDir, absRoot, dirName string, fileEntries []walker.Entry, rootFileName string, omitTest bool, commit *git.CommitInfo, cfg *config.Config) error {
 	f, err := os.Create(path)
 	if err != nil {
 		return fmt.Errorf("cannot create slice file: %w", err)
@@ -238,24 +417,17 @@ func writeDirSlice(path, absDir, absRoot, dirName string, treeEntries, fileEntri
 	defer f.Close()
 
 	var sb strings.Builder
-
-	fmt.Fprintf(&sb, "# %s [SLICE]\n\n", absDir)
+	fmt.Fprintf(&sb, "# %s [SLICE]\n", absDir)
+	fmt.Fprintf(&sb, "> Generated: %s\n", time.Now().Format(time.RFC3339))
+	sb.WriteString(git.FormatCommitLine(commit))
+	sb.WriteString(FormatFlags(cfg))
 	fmt.Fprintf(&sb, "Root document: %s\n\n", rootFileName)
 
-	sb.WriteString("## Directory Tree\n\n")
-	sb.WriteString(fenceChars + "\n")
-
-	sliceTree := buildTreeFromEntries(dirName, treeEntries)
-	sb.WriteString(sliceTree)
-	sb.WriteString(fenceChars + "\n\n")
+	fmt.Fprintf(&sb, "Tree: %s / %s\n\n", filepath.Base(absRoot), dirName)
 
 	if len(fileEntries) > 0 {
 		sb.WriteString("## Contents\n\n")
-
-		sort.Slice(fileEntries, func(i, j int) bool {
-			return fileEntries[i].RelPath < fileEntries[j].RelPath
-		})
-
+		sort.Slice(fileEntries, func(i, j int) bool { return fileEntries[i].RelPath < fileEntries[j].RelPath })
 		for _, entry := range fileEntries {
 			fullPath := filepath.Join(absRoot, entry.RelPath)
 			content, err := readFileForOutput(fullPath, omitTest)
@@ -263,17 +435,14 @@ func writeDirSlice(path, absDir, absRoot, dirName string, treeEntries, fileEntri
 				fmt.Fprintf(os.Stderr, "warning: cannot read %s: %v\n", entry.RelPath, err)
 				continue
 			}
-
 			language := extToLang(filepath.Ext(entry.RelPath))
 			lines := countLines(content)
-
-			fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", entry.RelPath, entry.Size, lines)
+			fmt.Fprintf(&sb, "--- FILE: ./%s (%d bytes, %d lines) ---\n", entry.RelPath, len(content), lines)
 			fmt.Fprintf(&sb, "%s", fenceChars)
 			if language != "" {
 				fmt.Fprintf(&sb, "%s", language)
 			}
-			fmt.Fprintf(&sb, "\n")
-			fmt.Fprintf(&sb, "%s", content)
+			fmt.Fprintf(&sb, "\n%s", content)
 			if !strings.HasSuffix(content, "\n") {
 				fmt.Fprintf(&sb, "\n")
 			}
@@ -285,93 +454,25 @@ func writeDirSlice(path, absDir, absRoot, dirName string, treeEntries, fileEntri
 	return err
 }
 
-func buildTreeWithRefs(rootName, repoName string, topLevelDirs map[string][]walker.Entry, rootFiles []walker.Entry) string {
-	var sb strings.Builder
-	sb.WriteString(rootName)
-	sb.WriteString("/\n")
-
-	var dirNames []string
-	for k := range topLevelDirs {
-		dirNames = append(dirNames, k)
+func sortedKeys(m map[string][]walker.Entry) []string {
+	keys := make([]string, 0, len(m))
+	for k := range m {
+		keys = append(keys, k)
 	}
-	sort.Strings(dirNames)
-
-	sort.Slice(rootFiles, func(i, j int) bool {
-		return rootFiles[i].RelPath < rootFiles[j].RelPath
-	})
-
-	type treeItem struct {
-		name     string
-		isDir    bool
-		sliceRef string
-	}
-
-	items := make([]treeItem, 0, len(dirNames)+len(rootFiles))
-	for _, d := range dirNames {
-		sliceRef := filepath.Join(d, strings.TrimSuffix(d, "/")+"_"+repoName+".md")
-		items = append(items, treeItem{
-			name:     d,
-			isDir:    true,
-			sliceRef: sliceRef,
-		})
-	}
-	for _, rf := range rootFiles {
-		items = append(items, treeItem{
-			name:  rf.RelPath,
-			isDir: false,
-		})
-	}
-
-	sort.Slice(items, func(i, j int) bool {
-		return items[i].name < items[j].name
-	})
-
-	for _, item := range items {
-		sb.WriteString("+- ")
-		sb.WriteString(item.name)
-		if item.isDir {
-			sb.WriteString("/")
-			sb.WriteString(" -> see ")
-			sb.WriteString(item.sliceRef)
-		}
-		sb.WriteString("\n")
-	}
-
-	return sb.String()
+	sort.Strings(keys)
+	return keys
 }
 
-func buildTreeFromEntries(rootName string, entries []walker.Entry) string {
-	root := &tree.Node{IsDir: true, Children: make(map[string]*tree.Node)}
-
-	for _, e := range entries {
-		parts := strings.Split(e.RelPath, string(filepath.Separator))
-		cur := root
-
-		for i, part := range parts {
-			isLeaf := i == len(parts)-1
-			if _, ok := cur.Children[part]; !ok {
-				node := &tree.Node{Name: part, IsDir: !isLeaf}
-				if !isLeaf {
-					node.Children = make(map[string]*tree.Node)
-				}
-				cur.Children[part] = node
-			}
-			cur = cur.Children[part]
-		}
-	}
-
+func renderTreeWithLegend(root *tree.Node, rootName string) string {
 	var sb strings.Builder
 	sb.WriteString(rootName)
 	sb.WriteString("/\n")
 	renderNodeLLM(&sb, root, "")
-	return sb.String()
-}
 
-func renderTreeForLLM(root *tree.Node, rootName string) string {
-	var sb strings.Builder
-	sb.WriteString(rootName)
-	sb.WriteString("/\n")
-	renderNodeLLM(&sb, root, "")
+	if hasAnyAnnotation(root) {
+		sb.WriteString("Legend: ~ ignored | ~ tests omitted | ~ omitted | ~ exceeded --max-depth\n")
+	}
+
 	return sb.String()
 }
 
@@ -393,6 +494,14 @@ func renderNodeLLM(sb *strings.Builder, node *tree.Node, prefix string) {
 		if child.IsDir {
 			sb.WriteString("/")
 		}
+		if child.Annotation != "" {
+			sb.WriteString(" ~ ")
+			sb.WriteString(child.Annotation)
+		}
+		if child.Ref != "" {
+			sb.WriteString(" -> see ")
+			sb.WriteString(child.Ref)
+		}
 		sb.WriteString("\n")
 
 		if child.IsDir && child.Children != nil {
@@ -407,6 +516,18 @@ func renderNodeLLM(sb *strings.Builder, node *tree.Node, prefix string) {
 	}
 }
 
+func hasAnyAnnotation(node *tree.Node) bool {
+	if node.Annotation != "" {
+		return true
+	}
+	for _, child := range node.Children {
+		if hasAnyAnnotation(child) {
+			return true
+		}
+	}
+	return false
+}
+
 func readFile(path string) (string, error) {
 	data, err := os.ReadFile(path)
 	if err != nil {
@@ -456,20 +577,13 @@ func stripTestBlocks(content string) string {
 
 			for i < len(lines) {
 				line := lines[i]
-
-				if !foundBrace {
-					if strings.Contains(line, "{") {
-						braceDepth += strings.Count(line, "{") - strings.Count(line, "}")
-						foundBrace = true
-					}
-					i++
-					continue
-				}
-
 				braceDepth += strings.Count(line, "{") - strings.Count(line, "}")
+				if strings.Contains(line, "{") {
+					foundBrace = true
+				}
 				i++
 
-				if braceDepth <= 0 {
+				if foundBrace && braceDepth <= 0 {
 					break
 				}
 			}
@@ -513,6 +627,7 @@ func extToLang(ext string) string {
 		".cpp":  "cpp",
 		".hpp":  "cpp",
 		".txt":  "text",
+		".toml": "toml",
 	}
 
 	if lang, ok := mapping[strings.ToLower(ext)]; ok {

internal/renderer/renderer_test.go

@@ -0,0 +1,202 @@
+package renderer
+
+import (
+	"strings"
+	"testing"
+
+	"git.flo.fo/FLO/dirmd/internal/config"
+	"git.flo.fo/FLO/dirmd/internal/tree"
+)
+
+func TestCountLines_empty(t *testing.T) {
+	if got := countLines(""); got != 0 {
+		t.Errorf("countLines(\"\") = %d; want 0", got)
+	}
+}
+
+func TestCountLines_basic(t *testing.T) {
+	tests := []struct {
+		name  string
+		input string
+		want  int
+	}{
+		{"one_line_no_newline", "hello", 1},
+		{"one_line_with_newline", "hello\n", 1},
+		{"two_lines", "hello\nworld", 2},
+		{"two_lines_trailing", "hello\nworld\n", 2},
+		{"three_lines", "a\nb\nc", 3},
+		{"empty_lines", "a\n\nb", 3},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := countLines(tt.input); got != tt.want {
+				t.Errorf("countLines(%q) = %d; want %d", tt.input, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestStripTestBlocks_rust(t *testing.T) {
+	tests := []struct {
+		name  string
+		input string
+		want  string
+	}{
+		{"no_test_block", "fn main() {}\nfn helper() {}", "fn main() {}\nfn helper() {}"},
+		{"cfg_test_block", "#[cfg(test)]\nmod tests {\n    #[test]\n    fn test_one() {}\n}", ""},
+		{"mixed_content", "pub fn main() {}\n#[cfg(test)]\nmod tests {\n    #[test]\n    fn t() {}\n}\npub fn end() {}", "pub fn main() {}\npub fn end() {}"},
+		{"nested_braces", "#[cfg(test)]\nmod tests {\n    mod inner {\n        #[test]\n        fn t() {}\n    }\n}", ""},
+		{"multiple_blocks", "#[cfg(test)]\nmod t1 {}\n#[cfg(test)]\nmod t2 {}", ""},
+		{"cfg_all_test", "#[cfg(all(test, unix))]\nmod tests {}", ""},
+		{"cfg_any_test", "#[cfg(any(test, feature = \"foo\"))]\nmod tests {}", ""},
+		{"empty_after_strip", "#[cfg(test)]\nmod tests {}", ""},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := stripTestBlocks(tt.input); got != tt.want {
+				t.Errorf("stripTestBlocks(%q)\ngot:\n%s\nwant:\n%s", tt.input, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestExtToLang(t *testing.T) {
+	tests := []struct {
+		name string
+		ext  string
+		want string
+	}{
+		{"go", ".go", "go"},
+		{"markdown", ".md", "markdown"},
+		{"yaml_upper", ".YAML", "yaml"},
+		{"yaml_yml", ".yml", "yaml"},
+		{"javascript", ".js", "javascript"},
+		{"typescript", ".ts", "typescript"},
+		{"css", ".css", "css"},
+		{"html", ".html", "html"},
+		{"json", ".json", "json"},
+		{"xml", ".xml", "xml"},
+		{"sql", ".sql", "sql"},
+		{"bash", ".sh", "bash"},
+		{"python", ".py", "python"},
+		{"rust", ".rs", "rust"},
+		{"c", ".c", "c"},
+		{"cpp", ".cpp", "cpp"},
+		{"txt", ".txt", "text"},
+		{"toml", ".toml", "toml"},
+		{"unknown", ".xyz", ""},
+		{"empty", "", ""},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			if got := extToLang(tt.ext); got != tt.want {
+				t.Errorf("extToLang(%q) = %q; want %q", tt.ext, got, tt.want)
+			}
+		})
+	}
+}
+
+func TestHasAnyAnnotation_none(t *testing.T) {
+	root := &tree.Node{Name: "root", IsDir: true, Children: map[string]*tree.Node{
+		"file.go": {Name: "file.go", IsDir: false},
+	}}
+	if hasAnyAnnotation(root) {
+		t.Error("hasAnyAnnotation should be false for clean tree")
+	}
+}
+
+func TestHasAnyAnnotation_present(t *testing.T) {
+	root := &tree.Node{Name: "root", IsDir: true, Children: map[string]*tree.Node{
+		".git": {Name: ".git", IsDir: true, Annotation: "ignored (default)"},
+	}}
+	if !hasAnyAnnotation(root) {
+		t.Error("hasAnyAnnotation should be true with annotation")
+	}
+}
+
+func TestHasAnyAnnotation_deep(t *testing.T) {
+	root := &tree.Node{Name: "root", IsDir: true, Children: map[string]*tree.Node{
+		"internal": {Name: "internal", IsDir: true, Children: map[string]*tree.Node{
+			"deep": {Name: "deep", IsDir: true, Annotation: "tests omitted (--omit-test)"},
+		}},
+	}}
+	if !hasAnyAnnotation(root) {
+		t.Error("hasAnyAnnotation should be true for deep annotation")
+	}
+}
+
+func TestFormatFlags_nil(t *testing.T) {
+	if FormatFlags(nil) != "" {
+		t.Error("FormatFlags(nil) should be empty")
+	}
+}
+
+func TestFormatFlags_empty(t *testing.T) {
+	cfg := &config.Config{
+		MaxDepth: config.DefaultMaxDepth,
+		MaxSize:  config.DefaultMaxSize,
+	}
+	if out := FormatFlags(cfg); out != "" {
+		t.Errorf("FormatFlags(default config) = %q; want empty", out)
+	}
+}
+
+func TestFormatFlags_set(t *testing.T) {
+	cfg := &config.Config{
+		OmitTest: true,
+		OmitMd:   true,
+		MaxDepth: 10,
+	}
+	out := FormatFlags(cfg)
+	if !strings.Contains(out, "--omit-test") {
+		t.Error("missing --omit-test")
+	}
+	if !strings.Contains(out, "--omit-md") {
+		t.Error("missing --omit-md")
+	}
+	if !strings.Contains(out, "--max-depth 10") {
+		t.Error("missing --max-depth 10")
+	}
+}
+
+func TestFormatFlags_extra_ignores(t *testing.T) {
+	cfg := &config.Config{
+		Ignores: append(config.DefaultIgnores, "mycustomdir"),
+	}
+	out := FormatFlags(cfg)
+	if !strings.Contains(out, "mycustomdir") {
+		t.Error("missing custom ignore in output")
+	}
+	if strings.Contains(out, "node_modules") {
+		t.Error("default ignore leaked into Ignored line")
+	}
+}
+
+func TestSetMinus(t *testing.T) {
+	tests := []struct {
+		name     string
+		haystack []string
+		defaults []string
+		want     []string
+	}{
+		{"empty", nil, []string{"a"}, nil},
+		{"all_default", []string{"a", "b"}, []string{"a", "b"}, nil},
+		{"one_extra", []string{"a", "c"}, []string{"a"}, []string{"c"}},
+		{"duplicates_deduped", []string{"c", "c", "a"}, []string{"a"}, []string{"c"}},
+		{"no_defaults", []string{"x"}, nil, []string{"x"}},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			got := setMinus(tt.haystack, tt.defaults)
+			if len(got) != len(tt.want) {
+				t.Errorf("setMinus() length = %d; want %d", len(got), len(tt.want))
+				return
+			}
+			for i := range got {
+				if got[i] != tt.want[i] {
+					t.Errorf("setMinus()[%d] = %q; want %q", i, got[i], tt.want[i])
+				}
+			}
+		})
+	}
+}

internal/tree/tree.go

@@ -1,76 +1,36 @@
 package tree
 
-import (
-	"sort"
-	"strings"
-
-	"git.flo.fo/FLO/dirmd/internal/walker"
-)
-
 type Node struct {
-	Name     string
-	IsDir    bool
-	Children map[string]*Node
+	Name       string
+	IsDir      bool
+	Children   map[string]*Node
+	Annotation string
+	Ref        string
 }
 
-func Build(entries []walker.Entry) *Node {
-	root := &Node{IsDir: true, Children: make(map[string]*Node)}
-
-	for _, e := range entries {
-		parts := strings.Split(e.RelPath, "/")
-		cur := root
-
-		for i, part := range parts {
-			isLeaf := i == len(parts)-1
-			if _, ok := cur.Children[part]; !ok {
-				cur.Children[part] = &Node{Name: part, IsDir: !isLeaf, Children: make(map[string]*Node)}
+func splitPath(relPath string) []string {
+	var parts []string
+	start := 0
+	for i := 0; i <= len(relPath); i++ {
+		if i == len(relPath) || relPath[i] == '/' || relPath[i] == '\\' {
+			if i > start {
+				parts = append(parts, relPath[start:i])
 			}
-			cur = cur.Children[part]
+			start = i + 1
 		}
 	}
-
-	return root
+	return parts
 }
 
-func Render(root *Node, rootName string) string {
-	var sb strings.Builder
-	sb.WriteString(rootName)
-	sb.WriteString("/\n")
-	renderNode(&sb, root, "")
-	return sb.String()
-}
-
-func renderNode(sb *strings.Builder, node *Node, prefix string) {
-	keys := make([]string, 0, len(node.Children))
-	for k := range node.Children {
-		keys = append(keys, k)
-	}
-	sort.Strings(keys)
-
-	for i, key := range keys {
-		child := node.Children[key]
-		isLast := i == len(keys)-1
-
-		if isLast {
-			sb.WriteString(prefix + "└── ")
-		} else {
-			sb.WriteString(prefix + "├── ")
+func addPath(root *Node, rel string, isDir bool) *Node {
+	parts := splitPath(rel)
+	cur := root
+	for i, part := range parts {
+		if _, ok := cur.Children[part]; !ok {
+			cur.Children[part] = &Node{Name: part, IsDir: i < len(parts)-1, Children: make(map[string]*Node)}
 		}
-
-		sb.WriteString(child.Name)
-		if child.IsDir {
-			sb.WriteString("/")
-		}
-		sb.WriteString("\n")
-
-		if child.IsDir {
-			newPrefix := prefix
-			if isLast {
-				newPrefix += "    "
-			} else {
-				newPrefix += "│   "
-			}
-			renderNode(sb, child, newPrefix)
-		}
+		cur = cur.Children[part]
 	}
+	cur.IsDir = isDir
+	return cur
 }

internal/tree/tree_test.go

@@ -0,0 +1,90 @@
+package tree
+
+import (
+	"testing"
+)
+
+func TestAddPath_single(t *testing.T) {
+	root := &Node{IsDir: true, Children: make(map[string]*Node)}
+	addPath(root, "README.md", false)
+	node, ok := root.Children["README.md"]
+	if !ok {
+		t.Fatal("missing README.md child")
+	}
+	if node.IsDir {
+		t.Error("README.md should not be a directory")
+	}
+}
+
+func TestAddPath_nested(t *testing.T) {
+	root := &Node{IsDir: true, Children: make(map[string]*Node)}
+	addPath(root, "cmd/main.go", false)
+	cmdNode, ok := root.Children["cmd"]
+	if !ok {
+		t.Fatal("missing cmd child")
+	}
+	if !cmdNode.IsDir {
+		t.Error("cmd should be a directory")
+	}
+	if _, ok := cmdNode.Children["main.go"]; !ok {
+		t.Fatal("missing main.go child under cmd")
+	}
+}
+
+func TestAddPath_overwrite_annotation(t *testing.T) {
+	root := &Node{IsDir: true, Children: make(map[string]*Node)}
+	node := addPath(root, "cmd", true)
+	node.Annotation = "ignored (default)"
+
+	node2 := addPath(root, "cmd", true)
+	if node2 != node {
+		t.Error("addPath should return the same node for repeated path")
+	}
+	if node2.Annotation != "ignored (default)" {
+		t.Errorf("annotation lost: %q", node2.Annotation)
+	}
+}
+
+func TestSplitPath(t *testing.T) {
+	tests := []struct {
+		name   string
+		input  string
+		expect []string
+	}{
+		{"root_file", "README.md", []string{"README.md"}},
+		{"two_parts", "cmd/main.go", []string{"cmd", "main.go"}},
+		{"three_parts", "internal/tree/node.go", []string{"internal", "tree", "node.go"}},
+		{"empty", "", nil},
+		{"only_slashes", "///", nil},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			got := splitPath(tt.input)
+			if len(got) != len(tt.expect) {
+				t.Errorf("splitPath(%q) = %v; want %v", tt.input, got, tt.expect)
+				return
+			}
+			for i := range got {
+				if got[i] != tt.expect[i] {
+					t.Errorf("splitPath(%q)[%d] = %q; want %q", tt.input, i, got[i], tt.expect[i])
+				}
+			}
+		})
+	}
+}
+
+func TestRenderBreadcrumb_root(t *testing.T) {
+	breadcrumb := RenderBreadcrumb("/home/user/project", "README.md")
+	expected := "project/README.md"
+	if breadcrumb != expected {
+		t.Errorf("RenderBreadcrumb(...) = %q; want %q", breadcrumb, expected)
+	}
+}
+
+func TestRenderBreadcrumb_nested(t *testing.T) {
+	breadcrumb := RenderBreadcrumb("/home/user/project", "internal/tree/tree.go")
+	expected := "project / internal / tree / tree.go"
+	if breadcrumb != expected {
+		t.Errorf("RenderBreadcrumb(...) = %q; want %q", breadcrumb, expected)
+	}
+}

internal/tree/unfiltered.go

@@ -0,0 +1,130 @@
+package tree
+
+import (
+	"fmt"
+	"io/fs"
+	"path/filepath"
+	"slices"
+	"strings"
+
+	"git.flo.fo/FLO/dirmd/internal/config"
+	"git.flo.fo/FLO/dirmd/internal/filter"
+)
+
+func BuildFullTree(absRoot string, cfg *config.Config) (*Node, error) {
+	root := &Node{IsDir: true, Children: make(map[string]*Node)}
+
+	err := filepath.WalkDir(absRoot, func(path string, d fs.DirEntry, err error) error {
+		if err != nil {
+			return nil
+		}
+
+		rel, rerr := filepath.Rel(absRoot, path)
+		if rerr != nil || rel == "." {
+			return nil
+		}
+
+		if filter.IsSymlink(path) {
+			return nil
+		}
+
+		depth := strings.Count(rel, string(filepath.Separator)) + 1
+		if depth > cfg.MaxDepth {
+			node := addPath(root, rel, d.IsDir())
+			node.Annotation = "exceeded --max-depth"
+			if d.IsDir() {
+				return filepath.SkipDir
+			}
+			return nil
+		}
+
+		name := filepath.Base(path)
+
+		if d.IsDir() {
+			if strings.HasPrefix(name, ".") {
+				node := addPath(root, rel, true)
+				node.Annotation = "ignored (default)"
+				return filepath.SkipDir
+			}
+			if annotation, ok := ignoreReason(name, cfg.Ignores); ok {
+				node := addPath(root, rel, true)
+				node.Annotation = annotation
+				return filepath.SkipDir
+			}
+			if cfg.OmitTest && filter.IsTestDir(rel) {
+				node := addPath(root, rel, true)
+				node.Annotation = "tests omitted (--omit-test)"
+				return filepath.SkipDir
+			}
+			addPath(root, rel, true)
+			return nil
+		}
+
+		if annotation, ok := fileAnnotation(rel, name, cfg); ok {
+			node := addPath(root, rel, false)
+			node.Annotation = annotation
+			return nil
+		}
+
+		addPath(root, rel, false)
+		return nil
+	})
+	if err != nil {
+		return nil, fmt.Errorf("cannot walk %s: %w", absRoot, err)
+	}
+
+	return root, nil
+}
+
+func ignoreReason(name string, ignores []string) (string, bool) {
+	for _, pattern := range ignores {
+		if matched, _ := filepath.Match(pattern, name); matched {
+			if slices.Contains(config.DefaultIgnores, pattern) {
+				return "ignored (default)", true
+			}
+			return "ignored (--ignore)", true
+		}
+	}
+	return "", false
+}
+
+func fileAnnotation(rel, name string, cfg *config.Config) (string, bool) {
+	if strings.HasPrefix(name, ".") {
+		return "", false
+	}
+	if annotation, ok := ignoreReason(name, cfg.Ignores); ok {
+		return annotation, true
+	}
+	if cfg.OmitTest && filter.IsTestFile(rel, name) {
+		return "tests omitted (--omit-test)", true
+	}
+	if cfg.OmitMd && filter.IsNonReadmeMarkdown(rel, name) {
+		return "omitted (--omit-md)", true
+	}
+	if cfg.FrontendOnly && !filter.IsFrontendOrReadme(rel, name) {
+		return "omitted (--frontend-only)", true
+	}
+	if cfg.SkipFrontend && filter.IsFrontendExt(rel) {
+		return "omitted (--skip-frontend)", true
+	}
+	return "", false
+}
+
+func RenderBreadcrumb(absRoot, relPath string) string {
+	var sb strings.Builder
+	rootName := filepath.Base(absRoot)
+	dir := filepath.Dir(relPath)
+	if dir == "." {
+		return rootName + "/" + filepath.Base(relPath)
+	}
+
+	parts := strings.Split(filepath.ToSlash(dir), "/")
+	sb.WriteString(rootName)
+	for _, part := range parts {
+		sb.WriteString(" / ")
+		sb.WriteString(part)
+	}
+	sb.WriteString(" / ")
+	sb.WriteString(filepath.Base(relPath))
+	return sb.String()
+}

internal/tui/run.go

@@ -56,8 +56,8 @@ func Run() error {
 
 	km.MultiSelect.Next = key.NewBinding(key.WithKeys("tab"), key.WithHelp("tab", "next field"))
 	km.MultiSelect.Prev = key.NewBinding(key.WithKeys("shift+tab"), key.WithHelp("shift+tab", "prev field"))
-	km.MultiSelect.Up = key.NewBinding(key.WithKeys("up", "k"), key.WithHelp("↑/k", "up"))
-	km.MultiSelect.Down = key.NewBinding(key.WithKeys("down", "j"), key.WithHelp("↓/j", "down"))
+	km.MultiSelect.Up = key.NewBinding(key.WithKeys("up"), key.WithHelp("↑", "up"))
+	km.MultiSelect.Down = key.NewBinding(key.WithKeys("down"), key.WithHelp("↓", "down"))
 	km.MultiSelect.Toggle = key.NewBinding(key.WithKeys("enter", " "), key.WithHelp("enter/space", "toggle"))
 	km.MultiSelect.Submit = key.NewBinding(key.WithKeys("tab"), key.WithHelp("tab", "next"))
 	km.MultiSelect.Filter = key.NewBinding(key.WithKeys("/"), key.WithHelp("/", "filter"))
@@ -79,6 +79,7 @@ func Run() error {
 					huh.NewOption("Omit test files", "omit-test"),
 					huh.NewOption("Omit non-README markdown", "omit-md"),
 					huh.NewOption("Upload to Proton Drive", "proton-drive"),
+					huh.NewOption("Include .dirmd instructions", "instructions"),
 				).
 				Value(&options).
 				Height(10),
@@ -115,6 +116,7 @@ func Run() error {
 	omitTest := containsOption(options, "omit-test")
 	omitMd := containsOption(options, "omit-md")
 	protonDrive := containsOption(options, "proton-drive")
+	includeInstructions := containsOption(options, "instructions")
 
 	if skipFrontend && frontendOnly {
 		return fmt.Errorf("--skip-frontend and --frontend-only are mutually exclusive")
@@ -155,20 +157,21 @@ func Run() error {
 	allIgnores = append(allIgnores, ignores...)
 
 	cfg := &config.Config{
-		InputPath:      inputDir,
-		OutputPath:     outputDir,
-		Force:          force,
-		MaxSize:        int64(maxSizeKB) * 1024,
-		MaxDepth:       maxDepth,
-		Ignores:        allIgnores,
-		Extensions:     excludedExts,
-		ProtonDrive:    protonDrive,
-		DrivePath:      drivePath,
-		VerticalSlices: verticalSlices,
-		SkipFrontend:   skipFrontend,
-		FrontendOnly:   frontendOnly,
-		OmitTest:       omitTest,
-		OmitMd:         omitMd,
+		InputPath:           inputDir,
+		OutputPath:          outputDir,
+		Force:               force,
+		MaxSize:             int64(maxSizeKB) * 1024,
+		MaxDepth:            maxDepth,
+		Ignores:             allIgnores,
+		Extensions:          excludedExts,
+		ProtonDrive:         protonDrive,
+		DrivePath:           drivePath,
+		VerticalSlices:      verticalSlices,
+		SkipFrontend:        skipFrontend,
+		FrontendOnly:        frontendOnly,
+		OmitTest:            omitTest,
+		OmitMd:              omitMd,
+		IncludeInstructions: includeInstructions,
 	}
 
 	cmd := buildCommand(cfg)

internal/tui/run_test.go

@@ -0,0 +1,27 @@
+package tui
+
+import (
+	"testing"
+)
+
+func TestContainsOption_present(t *testing.T) {
+	opts := []string{"force", "vertical-slices", "omit-test"}
+	if !containsOption(opts, "vertical-slices") {
+		t.Error("containsOption failed to find present option")
+	}
+}
+
+func TestContainsOption_absent(t *testing.T) {
+	opts := []string{"force", "vertical-slices"}
+	if containsOption(opts, "omit-test") {
+		t.Error("containsOption found absent option")
+	}
+}
+
+func TestDefaultOutputDir_stable(t *testing.T) {
+	out1 := defaultOutputDir()
+	out2 := defaultOutputDir()
+	if out1 != out2 {
+		t.Error("defaultOutputDir should be deterministic for same cwd")
+	}
+}

internal/walker/walker.go

@@ -9,6 +9,8 @@ import (
 
 	"git.flo.fo/FLO/dirmd/internal/config"
 	"git.flo.fo/FLO/dirmd/internal/filter"
+	"git.flo.fo/FLO/dirmd/internal/git"
+	"git.flo.fo/FLO/dirmd/internal/instructions"
 )
 
 type Entry struct {
@@ -17,10 +19,13 @@ type Entry struct {
 }
 
 type Result struct {
-	Entries    []Entry
-	AbsRoot    string
-	SingleFile bool
-	OmitTest   bool
+	Entries      []Entry
+	AbsRoot      string
+	SingleFile   bool
+	OmitTest     bool
+	Cfg          *config.Config
+	Commit       *git.CommitInfo
+	Instructions string
 }
 
 func Run(cfg *config.Config) (*Result, error) {
@@ -53,11 +58,19 @@ func processSingleFile(cfg *config.Config) (*Result, error) {
 		return nil, fmt.Errorf("file %s filtered out", cfg.AbsRoot)
 	}
 
+	commitInfo := git.GetCommitInfo(filepath.Dir(cfg.AbsRoot))
+	var instContent string
+	if cfg.IncludeInstructions {
+		instContent, _ = instructions.Read(filepath.Dir(cfg.AbsRoot))
+	}
+
 	return &Result{
-		Entries:    []Entry{{RelPath: filepath.Base(cfg.AbsRoot), Size: info.Size()}},
-		AbsRoot:    filepath.Dir(cfg.AbsRoot),
-		SingleFile: true,
-		OmitTest:   cfg.OmitTest,
+		Entries:      []Entry{{RelPath: filepath.Base(cfg.AbsRoot), Size: info.Size()}},
+		AbsRoot:      filepath.Dir(cfg.AbsRoot),
+		SingleFile:   true,
+		Cfg:          cfg,
+		Commit:       commitInfo,
+		Instructions: instContent,
 	}, nil
 }
 
@@ -71,7 +84,18 @@ func walkDirectory(cfg *config.Config) (*Result, error) {
 		OmitMd:       cfg.OmitMd,
 	}
 
-	result := &Result{AbsRoot: cfg.AbsRoot, OmitTest: cfg.OmitTest}
+	result := &Result{AbsRoot: cfg.AbsRoot, Cfg: cfg, OmitTest: cfg.OmitTest}
+
+	result.Commit = git.GetCommitInfo(cfg.AbsRoot)
+
+	if cfg.IncludeInstructions {
+		instContent, err := instructions.Read(cfg.AbsRoot)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "warning: could not read .dirmd: %v\n", err)
+		} else {
+			result.Instructions = instContent
+		}
+	}
 
 	err := filepath.WalkDir(cfg.AbsRoot, func(path string, d fs.DirEntry, err error) error {
 		if err != nil {

internal/walker/walker_test.go

@@ -0,0 +1,358 @@
+package walker
+
+import (
+	"os"
+	"path/filepath"
+	"runtime"
+	"testing"
+
+	"git.flo.fo/FLO/dirmd/internal/config"
+)
+
+func writeFile(t *testing.T, dir, name, content string) {
+	t.Helper()
+	path := filepath.Join(dir, name)
+	if err := os.MkdirAll(filepath.Dir(path), 0755); err != nil {
+		t.Fatalf("mkdir for %s: %v", name, err)
+	}
+	if err := os.WriteFile(path, []byte(content), 0644); err != nil {
+		t.Fatalf("write %s: %v", name, err)
+	}
+}
+
+func baseCfg(absRoot string) *config.Config {
+	return &config.Config{
+		AbsRoot:    absRoot,
+		InputPath:  absRoot,
+		MaxSize:    1024 * 1024,
+		MaxDepth:   20,
+		Ignores:    config.DefaultIgnores,
+		Extensions: config.DefaultExts,
+	}
+}
+
+func relPaths(entries []Entry) []string {
+	paths := make([]string, 0, len(entries))
+	for _, e := range entries {
+		paths = append(paths, e.RelPath)
+	}
+	return paths
+}
+
+func containsPath(paths []string, target string) bool {
+	for _, p := range paths {
+		if p == target {
+			return true
+		}
+	}
+	return false
+}
+
+func TestWalkDirectory_happy(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "main.go", "package main\n")
+	writeFile(t, root, "cmd/tool/main.go", "package main\n")
+	writeFile(t, root, "cmd/tool/util.go", "package tool\n")
+	writeFile(t, root, "internal/x/y/deep.go", "package y\n")
+
+	result, err := Run(baseCfg(root))
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+
+	got := relPaths(result.Entries)
+	want := []string{"main.go", "cmd/tool/main.go", "cmd/tool/util.go", "internal/x/y/deep.go"}
+	if len(got) != len(want) {
+		t.Fatalf("entries = %v; want %v", got, want)
+	}
+	for _, w := range want {
+		if !containsPath(got, w) {
+			t.Errorf("missing entry %q in %v", w, got)
+		}
+	}
+	if result.AbsRoot != root {
+		t.Errorf("AbsRoot = %q; want %q", result.AbsRoot, root)
+	}
+	if result.Cfg == nil {
+		t.Error("Cfg not attached to result")
+	}
+}
+
+func TestWalkDirectory_respects_filters(t *testing.T) {
+	tests := []struct {
+		name  string
+		setup func(t *testing.T) string
+		must  []string
+		musts []string
+	}{
+		{
+			name: "default_ignores_skip_dirs_and_files",
+			setup: func(t *testing.T) string {
+				root := t.TempDir()
+				writeFile(t, root, "main.go", "x\n")
+				writeFile(t, root, ".git/config", "x\n")
+				writeFile(t, root, "node_modules/pkg/index.js", "x\n")
+				writeFile(t, root, "go.mod", "module x\n")
+				writeFile(t, root, "docs/readme.txt", "x\n")
+				return root
+			},
+			must:  []string{"main.go", "docs/readme.txt"},
+			musts: []string{".git/config", "node_modules/pkg/index.js", "go.mod"},
+		},
+		{
+			name: "default_exts_skip_binary_types",
+			setup: func(t *testing.T) string {
+				root := t.TempDir()
+				writeFile(t, root, "keep.go", "x\n")
+				writeFile(t, root, "img.png", "x\n")
+				writeFile(t, root, "arch.zip", "x\n")
+				return root
+			},
+			must:  []string{"keep.go"},
+			musts: []string{"img.png", "arch.zip"},
+		},
+		{
+			name: "hidden_files_and_dirs_skipped",
+			setup: func(t *testing.T) string {
+				root := t.TempDir()
+				writeFile(t, root, "visible.go", "x\n")
+				writeFile(t, root, ".hidden.go", "x\n")
+				writeFile(t, root, ".github/workflows/ci.yml", "x\n")
+				return root
+			},
+			must:  []string{"visible.go"},
+			musts: []string{".hidden.go", ".github/workflows/ci.yml"},
+		},
+		{
+			name: "max_size_skips_large_files",
+			setup: func(t *testing.T) string {
+				root := t.TempDir()
+				writeFile(t, root, "small.go", "x\n")
+				writeFile(t, root, "large.go", "this content exceeds ten bytes\n")
+				return root
+			},
+			must:  []string{"small.go"},
+			musts: []string{"large.go"},
+		},
+		{
+			name: "omit_test_skips_go_tests",
+			setup: func(t *testing.T) string {
+				root := t.TempDir()
+				writeFile(t, root, "main.go", "x\n")
+				writeFile(t, root, "main_test.go", "x\n")
+				writeFile(t, root, "tests/helper.py", "x\n")
+				return root
+			},
+			must:  []string{"main.go"},
+			musts: []string{"main_test.go", "tests/helper.py"},
+		},
+		{
+			name: "omit_md_keeps_readme_only",
+			setup: func(t *testing.T) string {
+				root := t.TempDir()
+				writeFile(t, root, "README.md", "x\n")
+				writeFile(t, root, "NOTES.md", "x\n")
+				writeFile(t, root, "src/notes.md", "x\n")
+				return root
+			},
+			must:  []string{"README.md"},
+			musts: []string{"NOTES.md", "src/notes.md"},
+		},
+	}
+	for _, tt := range tests {
+		t.Run(tt.name, func(t *testing.T) {
+			root := tt.setup(t)
+			cfg := baseCfg(root)
+			switch tt.name {
+			case "max_size_skips_large_files":
+				cfg.MaxSize = 10
+			case "omit_test_skips_go_tests":
+				cfg.OmitTest = true
+			case "omit_md_keeps_readme_only":
+				cfg.OmitMd = true
+			}
+
+			result, err := Run(cfg)
+			if err != nil {
+				t.Fatalf("Run: %v", err)
+			}
+
+			got := relPaths(result.Entries)
+			for _, w := range tt.must {
+				if !containsPath(got, w) {
+					t.Errorf("missing %q in %v", w, got)
+				}
+			}
+			for _, w := range tt.musts {
+				if containsPath(got, w) {
+					t.Errorf("unexpected %q in %v", w, got)
+				}
+			}
+		})
+	}
+}
+
+func TestWalkDirectory_custom_ignore(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "main.go", "x\n")
+	writeFile(t, root, "scratch/notes.txt", "x\n")
+
+	cfg := baseCfg(root)
+	cfg.Ignores = append([]string{}, config.DefaultIgnores...)
+	cfg.Ignores = append(cfg.Ignores, "scratch")
+
+	result, err := Run(cfg)
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	got := relPaths(result.Entries)
+	if containsPath(got, "scratch/notes.txt") {
+		t.Errorf("custom-ignored dir walked: %v", got)
+	}
+	if !containsPath(got, "main.go") {
+		t.Errorf("missing main.go in %v", got)
+	}
+}
+
+func TestWalkDirectory_max_depth(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "a/b/c/d/e/deep.go", "x\n")
+	writeFile(t, root, "a/shallow.go", "x\n")
+
+	cfg := baseCfg(root)
+	cfg.MaxDepth = 3
+
+	result, err := Run(cfg)
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	got := relPaths(result.Entries)
+	if containsPath(got, "a/b/c/d/e/deep.go") {
+		t.Errorf("file beyond max depth included: %v", got)
+	}
+	if !containsPath(got, "a/shallow.go") {
+		t.Errorf("missing shallow file in %v", got)
+	}
+}
+
+func TestWalkDirectory_symlink_skipped(t *testing.T) {
+	if runtime.GOOS == "windows" {
+		t.Skip("symlinks unreliable on windows")
+	}
+
+	root := t.TempDir()
+	target := filepath.Join(root, "real", "file.go")
+	if err := os.MkdirAll(filepath.Dir(target), 0755); err != nil {
+		t.Fatal(err)
+	}
+	if err := os.WriteFile(target, []byte("x\n"), 0644); err != nil {
+		t.Fatal(err)
+	}
+	if err := os.Symlink(filepath.Join(root, "real"), filepath.Join(root, "linkdir")); err != nil {
+		t.Skipf("cannot create symlink: %v", err)
+	}
+
+	result, err := Run(baseCfg(root))
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	got := relPaths(result.Entries)
+	if containsPath(got, "linkdir/file.go") {
+		t.Errorf("symlinked dir walked: %v", got)
+	}
+	if !containsPath(got, "real/file.go") {
+		t.Errorf("missing real entry in %v", got)
+	}
+}
+
+func TestWalkDirectory_instructions_read(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "main.go", "x\n")
+	writeFile(t, root, ".dirmd", "be helpful\n")
+
+	cfg := baseCfg(root)
+	cfg.IncludeInstructions = true
+
+	result, err := Run(cfg)
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	if result.Instructions != "be helpful\n" {
+		t.Errorf("Instructions = %q; want %q", result.Instructions, "be helpful\n")
+	}
+}
+
+func TestWalkDirectory_instructions_not_read_by_default(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "main.go", "x\n")
+	writeFile(t, root, ".dirmd", "be helpful\n")
+
+	result, err := Run(baseCfg(root))
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	if result.Instructions != "" {
+		t.Errorf("Instructions = %q; want empty", result.Instructions)
+	}
+}
+
+func TestWalkDirectory_git_commit_outside_repo(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "main.go", "x\n")
+
+	result, err := Run(baseCfg(root))
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	if result.Commit != nil {
+		t.Errorf("Commit = %v; want nil outside a git repo", result.Commit)
+	}
+}
+
+func TestProcessSingleFile(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "main.go", "package main\n")
+
+	cfg := baseCfg(filepath.Join(root, "main.go"))
+	cfg.SingleFile = true
+
+	result, err := Run(cfg)
+	if err != nil {
+		t.Fatalf("Run: %v", err)
+	}
+	if len(result.Entries) != 1 {
+		t.Fatalf("entries = %v; want single entry", result.Entries)
+	}
+	if result.Entries[0].RelPath != "main.go" {
+		t.Errorf("RelPath = %q; want %q", result.Entries[0].RelPath, "main.go")
+	}
+	if result.AbsRoot != root {
+		t.Errorf("AbsRoot = %q; want %q", result.AbsRoot, root)
+	}
+	if !result.SingleFile {
+		t.Error("SingleFile not set")
+	}
+}
+
+func TestProcessSingleFile_filtered_out(t *testing.T) {
+	root := t.TempDir()
+	writeFile(t, root, "image.png", "x\n")
+
+	cfg := baseCfg(filepath.Join(root, "image.png"))
+	cfg.SingleFile = true
+
+	_, err := Run(cfg)
+	if err == nil {
+		t.Fatal("expected error for filtered single file")
+	}
+}
+
+func TestProcessSingleFile_missing(t *testing.T) {
+	cfg := baseCfg("/nonexistent/path/file.go")
+	cfg.SingleFile = true
+
+	_, err := Run(cfg)
+	if err == nil {
+		t.Fatal("expected error for missing file")
+	}
+}