run fap-before-opus-2
transcript /Users/yue/.claude/projects/-private-tmp-claude-501--Users-yue-Code-rietx-0433c291-1037-42b9-8cb7-5377547150b7-scratchpad-1504-root-work-fap-before-opus-2/6d9549a6-1e34-43b5-9df2-5ac5651bd40a.jsonl

   #  offset    dur    chars     tool       head
   1     3.3    2.0     3690     Bash       ls; head -60 fluorapatite.cif; P=/private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-
   2     8.3    4.2     2122     Bash       P=/private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scr
   3    14.4    0.0     2011     Bash       cat /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/s
   4    18.0    1.4     3599     Bash       P=/private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scr
   5    24.2    1.2      398     Bash       P=/private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scr
   6    26.7    0.0   263888     Read       /tmp/fap_default.png
   7    31.5    0.0     2101     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   8    34.8    1.0     2659 ERR Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   9    39.9    0.0     1104     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
  10    47.7    0.1     2197     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
  11    58.6    2.5       95     Bash       cat > make_figure.py <<'EOF'
  12    63.5    0.2   371489     Read       /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scrat
  13    76.7    2.6      173     Bash       python3 - <<'EOF'
  14    80.8    0.1   276713     Read       /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scrat

14 tool calls (11 Bash, 3 Read), 1 errored
15 API calls, 1.5 min wall, 0.39 M cache-read, 32 k cache-write, 7 k output, mean context 28 k
models: claude-opus-5-5 ×15

0 traced interpreter starts, 8 traced calls
refinement 0.0 s in 0 fit calls (0.0% of wall)
per-process floor 0.0 s of 12.7 s (0.0%)
    build                                 5      0.0 s [bond_tolerance, probability]
    render_structure                      3      1.5 s [size, view, view=c, supersample, up, size=2400]
