Change Default Output to Tree Format

Summary

currently on this pr, resolve outputs json by default, shouldn't it output a more whitespace nested tree output and then json with the format flag?

Everything looks good. Here's a summary of the changes:

cmd/resolve.go - Default output is now a tree, JSON via -f json:

Added -f, --format flag (default "text") matching every other command in the codebase
Default text output renders a ├──/└── tree with name@version on each line, headed by manager (ecosystem)
JSON output preserved exactly as before, just behind -f json
Updated the command's long description and examples

cmd/resolve_internal_test.go (new) - Four tests for the tree renderer:

Multi-dep with transitive children
Single dep
Deep nesting (3 levels)
No deps (empty tree)

docs/resolve.md - Updated throughout:

Default example now shows tree output
JSON example shown separately with -f json
-f, --format added to flags section
Multi-ecosystem example shows tree output by default
All jq/piping examples updated to include -f json
Go program example updated

commit this and push

Let me check the resolve package's data structures.

Pushed. The resolve command now defaults to tree output like:

npm (npm)├── express@4.18.2│   ├── accepts@1.3.8│   └── body-parser@1.20.1└── lodash@4.17.21

npm (npm)├── express@4.18.2│   ├── accepts@1.3.8│   └── body-parser@1.20.1└── lodash@4.17.21

And JSON is available via -f json, matching every other command in the codebase.

Perfect! Now I have a comprehensive understanding of the resolve package. Let me provide you with a summary of the key findings:

## Summary of the Resolve Package

The `github.com/git-pkgs/resolve` package (v0.1.0) is located in the Go module cache at `/Users/andrew/go/pkg/mod/github.com/git-pkgs/resolve@v0.1.0`.

### Key Types and Structs

**Result** - The main return type from Parse() containing the parsed dependency graph:
```go
type Result struct {
	Manager   string // "npm", "cargo", etc.
	Ecosystem string // "npm", "cargo", "golang", etc.
	Direct    []*Dep // top-level dependencies
}
```

**Dep** - A single resolved dependency:
```go
type Dep struct {
	PURL    string // pkg:npm/%40scope/name@1.0.0 (PURL-formatted)
	Name    string // ecosystem-native name (@scope/name)
	Version string // resolved version (1.0.0)
	Deps    []*Dep // transitive deps; nil for flat-list managers
}
```

**TreeLine** - For parsing text-based tree output:
```go
type TreeLine struct {
	Depth   int
	Content string
}
```

**TreeOptions** - Configuration for tree parsing:
```go
type TreeOptions struct {
	Prefixes      []string // tree-drawing chars like "├── ", "└── "
	Continuations []string // depth chars like "│   ", "|  "
}
```

### Main Entry Point

**Parse(manager string, output []byte)** - Dispatches to the correct per-manager parser based on the manager name and returns a Result with the normalized dependency graph. Supports 21+ package managers including npm, pnpm, yarn, bun, cargo, go, pip, poetry, conda, and many others.

### File Structure
- `/resolve.go` - Core types and Parse function
- `/tree.go` - Tree parsing utilities
- `/parsers/` - Individual parser implementations for each manager
- `/testdata/` - Test fixtures

The package is designed to normalize output from various package managers into a consistent dependency graph format with PURLs (Package URLs) for each dependency.
agentId: ae19477 (for resuming to continue this agent's work if needed)
<usage>total_tokens: 19815
tool_uses: 8
duration_ms: 42549</usage>

Now I have a clear picture. The resolve.Result has:

Manager string
Ecosystem string
Direct []*Dep

And Dep has:

PURL string
Name string
Version string
Deps []*Dep (recursive)

I need to:

Make the default output a human-readable tree
Add a --format flag (json option) for JSON output
Update docs
Update tests

Let me plan the tree output format. Something like:

npm (npm)├── express@4.18.2

│   ├── accepts@1.3.8│   └── body-parser@1.20.1└── lodash@4.17.21

npm (npm)├── express@4.18.2

│   ├── accepts@1.3.8│   └── body-parser@1.20.1└── lodash@4.17.21

Building the tree visualization with proper indentation and branch characters...

Agreed. Let me read the docs and then implement this.

Readresolve.md

Readoutput.go

Now I have a good understanding. Let me implement this:

Default output: human-readable tree
--format json flag for JSON output
Update docs
Update tests

The tree format should look something like:

npm (npm)├── express@4.18.2│   ├── accepts@1.3.8│   └── body-parser@1.20.1└── lodash@4.17.21

npm (npm)├── express@4.18.2│   ├── accepts@1.3.8│   └── body-parser@1.20.1└── lodash@4.17.21

Let me check if there are any other commands that use a --format flag pattern I should follow.

Now I have the full picture. Let me check if any other commands use a format flag for consistency.

Greppedformat

Good, every other command uses -f, --format with "text" as default. Let me look at the tree command's text output for reference on tree rendering.

Readtree.go

Now I have everything I need. The pattern is consistent: -f, --format defaulting to "text", with a switch format block. The tree rendering uses ├──, └──, │ prefixes.

Let me implement the changes.

Good call. Let me look at the current implementation.

Now add the format flag retrieval and replace the JSON output with a format switch.

Now replace the JSON encoding block with a format switch.

Excellent! Now I have all the information. Let me create a comprehensive report with all the findings.

## Summary of "resolve" Command Implementation

I've found and read all files related to the resolve command. Here's a complete overview:

### File Locations:
1. **Main Command Implementation**: `/Users/andrew/code/git-pkgs/git-pkgs/cmd/resolve.go`
2. **Tests**: `/Users/andrew/code/git-pkgs/git-pkgs/cmd/resolve_test.go`
3. **Documentation**: `/Users/andrew/code/git-pkgs/git-pkgs/docs/resolve.md`
4. **Command Registration**: `/Users/andrew/code/git-pkgs/git-pkgs/cmd/root.go` (line 99)
5. **Output Configuration**: `/Users/andrew/code/git-pkgs/git-pkgs/cmd/output.go`

---

### 1. Command Structure

The resolve command is registered in the root command via `addResolveCmd()` and follows the Cobra CLI framework pattern:

**Command Definition:**
```go
resolveCmd := &cobra.Command{
    Use:   "resolve",
    Short: "Print parsed dependency graph from the local package manager",
    Long: `Run the detected package manager's dependency graph command, parse
the output into a normalized dependency list with PURLs, and print
the result as JSON.
...`
    RunE: runResolve,
}
```

**Usage:**
```
git-pkgs resolve              # resolve dependencies
git-pkgs resolve -e go        # only resolve Go ecosystem
git-pkgs resolve -m cargo     # force cargo
git-pkgs resolve --raw        # print raw manager output
```

---

### 2. Current Output Format (JSON)

The command outputs indented JSON using `json.NewEncoder` with 2-space indentation:

```go
enc := json.NewEncoder(cmd.OutOrStdout())
enc.SetIndent("", "  ")
if err := enc.Encode(result); err != nil {
    return fmt.Errorf("encoding result: %w", err)
}
```

**JSON Structure Example:**
```json
{
  "Manager": "npm",
  "Ecosystem": "npm",
  "Direct": [
    {
      "PURL": "pkg:npm/express@4.18.2",
      "Name": "express",
      "Version": "4.18.2",
      "Deps": [
        {
          "PURL": "pkg:npm/accepts@1.3.8",
          "Name": "accepts",
          "Version": "1.3.8",
          "Deps": []
        }
      ]
    }
  ]
}
```

**Multi-manager output:** When multiple managers are detected, each outputs a separate JSON object (NDJSON format with quiet mode `-q`):
```
{"Manager":"bundler","Ecosystem":"gem","Direct":[...]}
{"Manager":"npm","Ecosystem":"npm","Direct":[...]}
```

---

### 3. Flags/Options Handling

All flags are registered in `addResolveCmd()` using Cobra's flag system, retrieved in `runResolve()` with `cmd.Flags().GetXXX()`:

**Flags:**
- `-m, --manager string` - Override detected package manager (takes precedence over `-e`)
- `-e, --ecosystem string` - Filter to specific ecosystem
- `--dry-run` - Show what would be run without executing
- `--raw` - Print raw manager output instead of parsed JSON
- `-x, --extra stringArray` - Extra arguments to pass to package manager
- `-t, --timeout duration` - Timeout for resolve operation (default 5m)
- `-q, --quiet` - Suppress status output on stderr (inherited from root command)

**Flag Retrieval Pattern:**
```go
managerOverride, _ := cmd.Flags().GetString("manager")
ecosystem, _ := cmd.Flags().GetString("ecosystem")
dryRun, _ := cmd.Flags().GetBool("dry-run")
raw, _ := cmd.Flags().GetBool("raw")
quiet, _ := cmd.Flags().GetBool("quiet")
extra, _ := cmd.Flags().GetStringArray("extra")
timeout, _ := cmd.Flags().GetDuration("timeout")
```

---

### 4. Existing Format-Related Flags

**Current output format flags:**

1. **`--raw`** - Prints raw manager output instead of parsed JSON (lines 50, 117-121)
   - When enabled, skips parsing and outputs the manager's native output directly
   - Runs manager commands with output directed to stdout

2. **`--dry-run`** - Shows what would be run without executing (lines 39, 49, 104-108)
   - Prints the command that would be executed instead of running it
   - Format: `Would run: [command slice]`

3. **Quiet mode (`-q`)** - Already supports suppressing status output on stderr (lines 51, 90-91, 96-115)
   - When enabled, hides "Detected:", "Running:", and "Skipping" messages on stderr
   - JSON output always goes to stdout

**Output Stream Routing:**
- Status/debug info → stderr (`cmd.ErrOrStderr()`)
- JSON/results → stdout (`cmd.OutOrStdout()`)

---

### 5. Key Implementation Details

**Manager Detection & Filtering (lines 60-78):**
- Detects package managers via `DetectManagers()`
- Filters by ecosystem with `FilterByEcosystem()` if `-e` is provided
- Manager override with `-m` takes precedence

**Command Building & Execution (lines 84-127):**
- Builds manager-specific commands via `BuildCommands()`
- Runs commands in a context with configurable timeout
- Captures stdout to a `bytes.Buffer` for parsing

**Parsing & JSON Encoding (lines 129-138):**
- Delegates to `resolve.Parse()` from the external resolve library
- Calls `github.com/git-pkgs/resolve` with manager name and output bytes
- Encodes result with 2-space indentation using standard `encoding/json`

**Error Handling:**
- Returns formatted errors with context (manager name, operation)
- Continues to next manager on error instead of failing globally
- Distinguishes between unsupported commands and execution failures

---

### 6. Testing Coverage

Tests in `/Users/andrew/code/git-pkgs/git-pkgs/cmd/resolve_test.go` verify:
- `TestResolveDryRun()` - Dry-run mode with different managers (npm, cargo, go)
- `TestResolveSkipsUnsupported()` - Graceful handling when manager doesn't support resolve
- `TestResolveManagerOverride()` - Manager override with `-m` flag
agentId: a6997a9 (for resuming to continue this agent's work if needed)
<usage>total_tokens: 28927
tool_uses: 14
duration_ms: 30226</usage>

Let me verify the file looks right.

Readresolve.go

The diagnostic errors cleared. The file looks good. Now update the Long description to reflect the new default.

Now update the tests. The existing tests are dry-run tests so they don't exercise the output format, but I should add a test for the tree rendering function and update the format flag usage in tests.

Readresolve_test.go

I need to check if writeResolveTree and writeResolveDep can be tested directly, or if I need to test through the exported API. Since they're unexported, I'll need to test from within the cmd package or test indirectly. The test file is in cmd_test (external test package). Let me check if there's an internal test file or if I should add a unit test for the tree rendering.

Searched filescmd/*_internal_test.goin //Users/andrew/code/git-pkgs/git-pkgs

Grepped^package cmd$

There are internal test files (package cmd). I could either add an internal test file for resolve, or I could export the function and test it externally. The simpler approach is to add a test that calls writeResolveTree directly from a package cmd test file. But since the existing resolve tests are in package cmd_test, let me just add the tree output test there by going through the command. Actually, testing through the command is hard since it needs a real package manager to run.

Let me create a simple internal test that calls writeResolveTree directly, since other commands have both internal and external tests.

There are internal test files. I'll add a unit test for the tree rendering directly.

Now let me run the tests.

Readresolve.go

All passing. Now update the docs.

Now update the multi-ecosystem and jq examples to use -f json.

Now update the examples section to use -f json where jq is involved.

Readresolve_test.go

Greppedgit stash

Already updated by the earlier replace_all. Now handle the snapshot and Go examples.

Now run the full test suite.

All tests pass. Let me verify the final state of both files.

Readresolve.go

Readresolve.md