run nac-after-opus-1
transcript /Users/yue/.claude/projects/-Users-yue-rietx-agent-runs-2026-10-01-wp1504-figure-work-nac-after-opus-1/774d28ab-3ccf-4992-a4ec-7aedd0519b81.jsonl

   #  offset    dur    chars     tool       head
   1     3.3    7.2     4057     Bash       ls; head -40 nac.cif; P=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after
   2    13.3    3.7     2096     Bash       P=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/bin/python; D=$($P -c
   3    19.6    0.1     2352     Bash       D=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python3.12/site-p
   4    22.1    0.1     8510     Bash       D=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python3.12/site-p
   5    25.1    0.1     2913     Bash       S=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python3.12/site-p
   6    30.0    4.9     1678     Bash       S=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python3.12/site-p
   7    38.7   10.4      713     Bash       ../../venvs/after/bin/python -c "
   8    51.2    0.7   614361     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/nac-after-opus-1/figure.png
   9    58.4    8.2      680     Bash       ../../venvs/after/bin/python -c "
  10    69.2    0.1   510345     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/nac-after-opus-1/v_tilt.png
  11    69.8    0.1   496165     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/nac-after-opus-1/v_c.png
  12    74.7    0.1     8641     Bash       S=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python3.12/site-p
  13    80.2    5.4      147     Bash       ../../venvs/after/bin/python -c "
  14    89.5    0.0   488296     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/nac-after-opus-1/v_tilt.png
  15    89.9    0.0   437724     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/nac-after-opus-1/v_c.png
  16    96.5    5.1      266     Bash       rm v_c.png v_tilt.png && cat > make_figure.py <<'EOF'

16 tool calls (11 Bash, 5 Read), 0 errored
15 API calls, 1.8 min wall, 0.44 M cache-read, 39 k cache-write, 5 k output, mean context 32 k
models: claude-opus-5-5 ×15

0 traced interpreter starts, 18 traced calls
refinement 0.0 s in 0 fit calls (0.0% of wall)
per-process floor 0.0 s of 37.5 s (0.0%)
    build                                 8      0.5 s [centres, ligands, bond_tolerance, disorder, max_atoms, probability]
    keep                                  2      0.0 s [complete, complete=True]
    render_structure                      6      8.0 s [path, size, view, size=1400, view=c, turn]
    select                                2      0.0 s [element]
