refactor: restructure mytoolkit with new subcommands and md-to-pdf improvements

- Add new subcommands: convert, preflight, server, templates, webpage
- Migrate config from bin/config.json to ~/.config/mytoolkit
- Fix expand_bookmarks to modify writer objects instead of reader
- Improve md_to_pdf with CJK bookmark support
- Update README and project metadata

bin/commands/pdf.py

@@ -1,11 +1,13 @@
 """PDF utilities."""
 
+import shutil
 from pathlib import Path
 
 import click
 from pypdf import PdfReader, PdfWriter
 from PIL import Image
 
+from bin.md_to_pdf import expand_bookmarks
 from bin.utils import handle_errors, run_command
 
 
@@ -24,9 +26,15 @@ def pdf():
     default="screen",
     help="Compression quality level",
 )
+@click.option(
+    "--bookmark-depth",
+    type=int,
+    default=1,
+    help="Expand PDF bookmarks to this depth after compression (1=no expansion).",
+)
 @click.option("--dry-run", "-n", is_flag=True, help="Show what would be done")
 @handle_errors
-def compress(files, quality, dry_run):
+def compress(files, quality, bookmark_depth, dry_run):
     """Compress PDF files using ghostscript."""
     for pattern in files:
         for pdf_file in Path(".").glob(pattern):
@@ -53,6 +61,8 @@ def compress(files, quality, dry_run):
             click.echo(f"Compressing: {pdf_file}")
             run_command(cmd, check=True)
             output.replace(pdf_file)
+            if bookmark_depth > 1:
+                expand_bookmarks(pdf_file, bookmark_depth)
             click.echo(f"  Done: {pdf_file}")
 
 
@@ -102,9 +112,15 @@ def to_tiff(files, density, dry_run):
 @pdf.command("merge")
 @click.argument("files", nargs=-1, required=True)
 @click.option("--output", "-o", required=True, help="Output PDF file")
+@click.option(
+    "--bookmark-depth",
+    type=int,
+    default=1,
+    help="Expand PDF bookmarks to this depth after merge (1=no expansion).",
+)
 @click.option("--dry-run", "-n", is_flag=True, help="Show what would be done")
 @handle_errors
-def merge_pdfs(files, output, dry_run):
+def merge_pdfs(files, output, bookmark_depth, dry_run):
     """Merge PDFs and/or images into a single PDF."""
     writer = PdfWriter()
     processed = []
@@ -144,4 +160,30 @@ def merge_pdfs(files, output, dry_run):
 
     with open(output, "wb") as f:
         writer.write(f)
+    if bookmark_depth > 1:
+        expand_bookmarks(Path(output), bookmark_depth)
     click.echo(f"Merged {len(processed)} files into {output}")
+
+
+@pdf.command("bookmark")
+@click.argument("input_file", type=click.Path(exists=True, dir_okay=False, path_type=Path))
+@click.option(
+    "--depth",
+    type=int,
+    required=True,
+    help="Bookmark expansion depth. 1=top-level only, 2=expand to second level, etc.",
+)
+@click.option(
+    "-o",
+    "--output",
+    type=click.Path(dir_okay=False, path_type=Path),
+    help="Output PDF path. Defaults to overwriting the input file.",
+)
+@handle_errors
+def bookmark(input_file, depth, output):
+    """Set PDF bookmark outline expansion depth."""
+    target = output if output else input_file
+    if output and output.resolve() != input_file.resolve():
+        shutil.copy2(str(input_file), str(target))
+    expand_bookmarks(target, depth)
+    click.echo(f"Bookmarks expanded to depth {depth}: {target}")