run gypsum-after-opus-1
transcript /Users/yue/.claude/projects/-Users-yue-rietx-agent-runs-2026-10-01-wp1504-figure-work-gypsum-after-opus-1/8aa3295d-a460-4d61-befc-ef971031e1cd.jsonl

   #  offset    dur    chars     tool       head
   1     3.8    0.1      857     Bash       ls -la /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1; ca
   2     3.8    0.1       22     Skill      skill
   3     6.4    0.1     7056     Bash       cat /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/.claud
   4    15.6    0.0       33     Skill      skill
   5    17.2    0.7     1920     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/bin/python -c "
   6    23.0    0.8     6670     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/bin/python -c "
   7    34.0    0.7     1075     Bash       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/bin/python -c "
   8    42.2    1.1      362     Bash       mkdir -p scratch && cat > scratch/try.py <<'EOF'
   9    46.2    0.0    59048     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scratch/v_
  10    46.7    0.0    47720     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scratch/v_
  11    77.7    0.1      917 ERR Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python*/site-pac
  12    80.7    0.1    10561     Bash       V=$(echo /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/after/lib/python*/si
  13   133.3    1.0      386     Bash       cat > /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scra
  14   136.6    0.0    80240     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scratch/w_
  15   172.3    1.6      704     Bash       W=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1; sed -i 
  16   177.7    0.0    83916     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scratch/w_
  17   205.9    0.1     3074     Bash       sed -n '1,80p' /Users/yue/.claude/skills/yue-figure-style/presets/matplotlib.md; grep -n
  18   215.5    0.9      546     Bash       cat > /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scra
  19   275.7    0.1      188     Write      /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/make_figur
  20   279.3    1.8      438     Bash       W=/Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1; sed -i 
  21   284.0    0.0   476064     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/figure.png
  22   300.6    0.9      315     Bash       cat >> /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scr
  23   307.3    0.1       36     Bash       rm -r /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/gypsum-after-opus-1/scra

23 tool calls (15 Bash, 5 Read, 2 Skill, 1 Write), 1 errored
21 API calls, 5.3 min wall, 1.17 M cache-read, 75 k cache-write, 29 k output, mean context 60 k
models: claude-opus-5-5 ×21

0 traced interpreter starts, 34 traced calls
refinement 0.0 s in 0 fit calls (0.0% of wall)
per-process floor 0.0 s of 7.5 s (0.0%)
    build                                16      0.1 s [max_atoms, bond_tolerance, centres, disorder, ligands, probability]
    keep                                  7      0.0 s [complete, complete=True]
    render_structure                     11      1.1 s [size, view, path, view=c, axis_labels, up]
