DOCTOR IMPROVEMENTS: visual improvements/grouping + add comprehensive tests + fix gosec warnings (#656)

* test(doctor): add comprehensive tests for fix and check functions

Add edge case tests, e2e tests, and improve test coverage for:
- database_test.go: database integrity and sync checks
- git_test.go: git hooks, merge driver, sync branch tests
- gitignore_test.go: gitignore validation
- prefix_test.go: ID prefix handling
- fix/fix_test.go: fix operations
- fix/e2e_test.go: end-to-end fix scenarios
- fix/fix_edge_cases_test.go: edge case handling

* docs: add testing philosophy and anti-patterns guide

- Create TESTING_PHILOSOPHY.md covering test pyramid, priority matrix,
  what NOT to test, and 5 anti-patterns with code examples
- Add cross-reference from README_TESTING.md
- Document beads-specific guidance (well-covered areas vs gaps)
- Include target metrics (test-to-code ratio, execution time targets)

* chore: revert .beads/ to upstream/main state

* refactor(doctor): add category grouping and Ayu theme colors

- Add Category field to DoctorCheck for organizing checks by type
- Define category constants: Core, Git, Runtime, Data, Integration, Metadata
- Update thanks command to use shared Ayu color palette from internal/ui
- Simplify test fixtures by removing redundant test cases

* fix(doctor): prevent test fork bomb and fix test failures

- Add ErrTestBinary guard in getBdBinary() to prevent tests from
  recursively executing the test binary when calling bd subcommands
- Update claude_test.go to use new check names (CLI Availability,
  Prime Documentation)
- Fix syncbranch test path comparison by resolving symlinks
  (/var vs /private/var on macOS)
- Fix permissions check to use exact comparison instead of bitmask
- Fix UntrackedJSONL to use git commit --only to preserve staged changes
- Fix MergeDriver edge case test by making both .git dir and config
  read-only
- Add skipIfTestBinary helper for E2E tests that need real bd binary

* test(doctor): skip read-only config test in CI environments

GitHub Actions containers may have CAP_DAC_OVERRIDE or similar
capabilities that allow writing to read-only files, causing
the test to fail. Skip the test when CI=true or GITHUB_ACTIONS=true.

cmd/bd/thanks.go

@@ -6,38 +6,39 @@ import (
 
 	"github.com/charmbracelet/lipgloss"
 	"github.com/spf13/cobra"
+	"github.com/steveyegge/beads/internal/ui"
 )
 
-// lipgloss styles for the thanks page
+// lipgloss styles for the thanks page using Ayu theme
 var (
 	thanksTitleStyle = lipgloss.NewStyle().
 				Bold(true).
-				Foreground(lipgloss.Color("7")) // white, bold
+				Foreground(ui.ColorWarn)
 
 	thanksSubtitleStyle = lipgloss.NewStyle().
-				Faint(true)
+				Foreground(ui.ColorMuted)
 
 	thanksSectionStyle = lipgloss.NewStyle().
-				Foreground(lipgloss.Color("6")). // cyan for section headers
+				Foreground(ui.ColorAccent).
 				Bold(true)
 
 	thanksNameStyle = lipgloss.NewStyle().
-			Foreground(lipgloss.Color("2")) // green
+			Foreground(ui.ColorPass)
 
 	thanksLabelStyle = lipgloss.NewStyle().
-				Foreground(lipgloss.Color("3")) // yellow
+				Foreground(ui.ColorWarn)
 
 	thanksDimStyle = lipgloss.NewStyle().
-			Faint(true)
+			Foreground(ui.ColorMuted)
 )
 
 // thanksBoxStyle returns a box style with dynamic width
 func thanksBoxStyle(width int) lipgloss.Style {
 	return lipgloss.NewStyle().
 		BorderStyle(lipgloss.DoubleBorder()).
-		BorderForeground(lipgloss.Color("7")).
+		BorderForeground(ui.ColorMuted).
 		Padding(1, 4).
-		Width(width - 4). // account for border
+		Width(width - 4).
 		Align(lipgloss.Center)
 }