run fap-before-opus-1
transcript /Users/yue/.claude/projects/-Users-yue-rietx-agent-runs-2026-10-01-wp1504-figure-work-fap-before-opus-1/b68bf4ef-a2e4-42be-bc24-da8aff1ac377.jsonl

   #  offset    dur    chars     tool       head
   1     2.9    2.9     5546     Bash       ls; head -60 fluorapatite.cif; P=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/ve
   2     8.0    2.8     1410     Bash       P=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/bin/python; D=$($P -
   3    12.7    0.1    24126     Bash       D=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/lib/python3.12/site-
   4    19.3    2.8     3418     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/bin/python -c "
   5    28.3    4.0       22     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/bin/python -c "
   6    28.5    4.4   344757     Read       /tmp/draft.png
   7    39.9    0.1     5335     Bash       D=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/lib/python3.12/site-
   8    48.3    3.8       36     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/bin/python -c "
   9    48.6    3.6   196664     Read       /tmp/d2.png
  10    77.6    6.8      180     Bash       cat > make_figure.py <<'EOF'
  11    78.1    6.9   375757     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/fap-before-opus-1/figure.png
  12    91.7    1.2      699     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/before/bin/python -c "
  13    91.9    1.0    17296     Read       /tmp/crop.png

13 tool calls (9 Bash, 4 Read), 0 errored
10 API calls, 1.8 min wall, 0.31 M cache-read, 42 k cache-write, 8 k output, mean context 35 k
models: claude-opus-5-5 ×10

0 traced interpreter starts, 7 traced calls
refinement 0.0 s in 0 fit calls (0.0% of wall)
per-process floor 0.0 s of 20.4 s (0.0%)
    build                                 4      0.2 s [bond_tolerance, probability]
    render_structure                      3      3.6 s [size, view, view=c, path, supersample, size=2008]
