Keep merge inside --optimize

pageindex/flash/README.md

@@ -30,14 +30,15 @@ missing, non-PDF, encrypted, empty, or unreadable file.
             "node_id": str,       # 4-digit, zero-padded
             "start_index": int,
             "end_index": int,
-            "key_items": [str],   # titles of merged-away subsections; absent when none
+            "key_items": [str],   # with --optimize: titles of merged-away subsections
             "nodes": [...],       # absent on leaf nodes
         }
     ],
 }
 ```
 
-Page indexes are 1-based. `nodes` nests the same shape recursively.
+Page indexes are 1-based. `nodes` nests the same shape recursively. Without
+`--optimize` the extracted tree is returned as-is.
 
 ## Benchmark
 

pageindex/flash/api.py

@@ -68,13 +68,6 @@ def _validate_pdf(pdf):
     return pdf
 
 
-def _merge(structure):
-    from ..tree_optimize import merge_tree
-    from ..utils import write_node_id
-    merge_tree(structure)
-    write_node_id(structure)
-
-
 async def _summarize(structure, page_list, model, concurrency=None):
     from ..utils import summarize_tree
     await summarize_tree(structure, page_list, model=model, concurrency=concurrency)
@@ -105,15 +98,13 @@ def _optimize(structure, page_texts, do_expand, model):
 def page_index_flash(pdf, summary=True, summary_model=None,
                      optimize=False, optimize_expand=True,
                      optimize_model=None, summary_concurrency=None) -> dict:
-    """Build a PageIndex tree structure from a PDF using layout statistics, without an LLM. Args: pdf: path to a PDF file (``str`` or ``pathlib.Path``) or an in-memory binary stream (``io.BytesIO``). summary: if True, generate LLM summaries for each node (requires ``summary_model``). summary_model: the LLM model identifier to use for summary generation. optimize: if True, additionally expand oversized sections with an LLM and report search-cost metrics; a deterministic merge always runs, collapsing subtrees whose structure does not beat a linear scan and keeping the removed titles on the parent as ``key_items``. optimize_expand: if False, skip the LLM expansion and only report merge metrics. optimize_model: the LLM model for expand (defaults to the summary model). summary_concurrency: maximum simultaneous summary model calls; None uses the library default. Returns: dict with keys ``doc_name``, ``doc_title``, ``structure`` (a list of nested ``{"title", "start_index", "end_index", "nodes"}`` dicts; page indexes are 1-based) and ``has_abstract_or_references_section`` (True when a top-level entry is an abstract or references heading). With ``optimize`` an ``optimize`` key reports merge/expand counts and before/after search-cost metrics. """
+    """Build a PageIndex tree structure from a PDF using layout statistics, without an LLM. Args: pdf: path to a PDF file (``str`` or ``pathlib.Path``) or an in-memory binary stream (``io.BytesIO``). summary: if True, generate LLM summaries for each node (requires ``summary_model``). summary_model: the LLM model identifier to use for summary generation. optimize: if True, refine the tree for search cost before summaries: a deterministic merge collapses subtrees whose structure does not beat a linear scan, keeping the removed titles on the parent as ``key_items``, then an LLM pass expands oversized sections. Without it the extracted tree is returned unchanged. optimize_expand: if False, run the merge but skip the LLM expansion. optimize_model: the LLM model for expand (defaults to the summary model). summary_concurrency: maximum simultaneous summary model calls; None uses the library default. Returns: dict with keys ``doc_name``, ``doc_title``, ``structure`` (a list of nested ``{"title", "start_index", "end_index", "nodes"}`` dicts; page indexes are 1-based) and ``has_abstract_or_references_section`` (True when a top-level entry is an abstract or references heading). With ``optimize`` an ``optimize`` key reports merge/expand counts and before/after search-cost metrics. """
     result = extract_toc(_validate_pdf(pdf))
     structure = result.get("structure", [])
     if optimize and structure:
         result["optimize"] = _optimize(structure, result.get("page_texts") or [],
                                        optimize_expand,
                                        optimize_model or summary_model)
-    elif structure:
-        _merge(structure)
     if summary and structure:
         import asyncio
         from ..utils import ConfigLoader

run_pageindex.py

@@ -13,9 +13,8 @@
     parser.add_argument('--flash', action='store_true', help='Use PageIndex Flash (with --pdf_path)')
     parser.add_argument('--optimize', nargs='?', const='full', choices=['full', 'merge'],
                       default=None,
-                      help='Refine the tree with an LLM expansion pass and report search-cost '
-                           'metrics; pass `merge` to skip expansion and only report the '
-                           'deterministic merge every run performs (PDF only)')
+                      help='Refine the tree for search cost: a deterministic merge, then an '
+                           'LLM expansion pass; pass `merge` to run the merge alone (PDF only)')
 
     parser.add_argument('--model', type=str, default=None, help='Model to use (overrides config.yaml)')
     parser.add_argument('--summary-model', type=str, default=None,