Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261006T150859Z-deck-readme-order-step/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/tools/restructure_figure_order_20261006.py

@@ -0,0 +1,81 @@
+#!/usr/bin/env python3
+"""Order the deck by the six main figures of the Nature-style manuscript plan (2026-10-06; rerun after every plan
+change).
+
+Reads data/figure_plan.json (written by hand) and data/figure_plan_slide_text.json (tools/figure_plan.py) and
+rebuilds the order of data/slides_spec.json from the slides it already holds:
+  title, agenda (6 figures + Supplementary + Appendix + Discussion), the manuscript plan,
+  for each figure: a divider, its plan slide, its panel slides in panel order (section label "Fig. 1a" ...), the
+  slides kept in the section until it is planned ("Fig. 4 candidate") and its details,
+  Supplementary (plan slide + slides), Appendix, Discussion.
+Existing slides keep every field except order and section label; dividers and plan slides are rebuilt each run.
+The text of the plan slides is filled by tools/sync_sec09_text.py.
+"""
+import json
+from pathlib import Path
+
+DECK = Path(__file__).resolve().parents[1]
+SPEC = DECK / "data" / "slides_spec.json"
+PLAN = DECK / "data" / "figure_plan.json"
+TEXT = "data/figure_plan_slide_text.json"
+
+
+def main() -> None:
+    spec = json.loads(SPEC.read_text())
+    plan = json.loads(PLAN.read_text())
+    gen = json.loads((DECK / TEXT).read_text())["slides"]
+    made = {g["title"]: i for i, g in enumerate(gen)}
+    old = {s["title"]: s for s in spec["slides"]
+           if s.get("kind") == "content" and s.get("text_source", {}).get("file") != TEXT}
+    title = next(s for s in spec["slides"] if s.get("kind") == "title")
+    agenda = next(s for s in spec["slides"] if s.get("kind") == "agenda")
+
+    def plan_slide(t, label):
+        i = made[t]
+        g = gen[i]
+        src = "tools/figure_plan.py; data/figure_plan.json"
+        if t == "Overview draft (Nature style)":
+            src = "tools/figure_plan.py; manuscript figures/fig01_architecture_nature.svg"
+        elif t == "Pretraining corpus":
+            src = "tools/figure_plan.py; manuscript figures/fig01_corpus_nature.png, source_data/corpus/"
+        return {"kind": "content", "section": "plan", "section_label": label,
+                "text_source": {"file": TEXT, "index": i}, "title": g["title"], "layout": g["layout"],
+                "figures": [str(Path(f).relative_to(DECK)) for f in g["figures"]], "keywords": [], "footnote": "",
+                "sources": src}
+
+    def take(t, label, section):
+        s = old.pop(t)
+        s["section"], s["section_label"] = section, label
+        return s
+
+    title["subtitle"] = "Paper figure plan (Nature style) · updated 2026-10-06"
+    agenda["items"] = ([f"Fig. {f['n']}  {f['title']}" for f in plan["figures"]]
+                       + ["Supplementary", "Appendix"] + (["Discussion"] if plan.get("discussion") else []))
+    out = [title, agenda, plan_slide("Manuscript plan: six main figures", "Plan")]
+    for f in plan["figures"]:
+        n = f["n"]
+        out.append({"kind": "divider", "title": f"Figure {n}. {f['title']}"})
+        out.append(plan_slide(f"Figure {n} plan: {f['title']}", f"Fig. {n} plan"))
+        for p in f["panels"]:
+            for t in p["evidence"]:
+                out.append(plan_slide(t, f"Fig. {n}{p['p']}") if t in made else take(t, f"Fig. {n}{p['p']}", str(n)))
+        out += [take(t, f"Fig. {n} candidate", str(n)) for t in f.get("candidates", [])]
+        out += [take(t, f"Fig. {n} details", str(n)) for t in f["details"]]
+    out.append({"kind": "divider", "title": "Supplementary"})
+    out.append(plan_slide("Supplementary plan", "Supplementary"))
+    out += [take(t, "Supplementary", "S") for t in plan["supplementary"]["slides"]]
+    out.append({"kind": "divider", "title": "Appendix"})
+    out += [take(t, "Appendix", "A") for t in plan["appendix"]]
+    if plan.get("discussion"):
+        out.append({"kind": "divider", "title": "Discussion"})
+        out += [take(t, "Discussion", "D") for t in plan["discussion"]]
+    if old:
+        raise SystemExit(f"slides not placed: {sorted(old)}")
+    spec["slides"] = out
+    SPEC.write_text(json.dumps(spec, indent=2, ensure_ascii=False) + "\n")
+    for i, s in enumerate(out, 1):
+        print(i, s.get("kind"), s.get("section_label", ""), "|", s.get("title"))
+
+
+if __name__ == "__main__":
+    main()