run lab6-fixed-sonnet-1
transcript /Users/yue/.claude/projects/-Users-yue-rietx-agent-runs-2026-10-01-wp1504-figure-work-lab6-fixed-sonnet-1/f9f504cb-fb9c-4ccf-8659-7dea5fe0a093.jsonl

   #  offset    dur    chars     tool       head
   1     2.0    0.0       22     Skill      skill
   2     4.3    0.1     6905     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; cat .c
   3     7.8    0.7     6145     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
   4    13.0    0.6     2150     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
   5    19.7    0.8      219     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
   6    23.9    0.0    69028     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/t.png
   7    30.4    0.6     1679     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
   8    42.2    0.6     1195 ERR Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
   9    46.5    0.0     1758     Bash       sed -n 300,335p /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/venvs/fixed/lib/pyt
  10    49.8    0.6     1281 ERR Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
  11    49.9    0.6      139 ERR Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/figure.png
  12    53.8    0.0      125     Edit       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/make.py
  13    54.6    0.0      125     Edit       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/make.py
  14    55.0    0.0      125     Edit       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/make.py
  15    57.3    0.9      337     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; /Users
  16    60.3    0.0   304796     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/figure.png
  17    66.2    0.9      652     Bash       cd /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1; P=/Use
  18    66.3    0.9   166072     Read       /Users/yue/rietx-agent-runs/2026-10-01-wp1504-figure/work/lab6-fixed-sonnet-1/figure.png

18 tool calls (10 Bash, 4 Read, 3 Edit, 1 Skill), 3 errored
15 API calls, 1.2 min wall, 0.53 M cache-read, 38 k cache-write, 6 k output, mean context 38 k
models: claude-sonnet-5-5 ×15

0 traced interpreter starts, 24 traced calls
refinement 0.0 s in 0 fit calls (0.0% of wall)
per-process floor 0.0 s of 4.8 s (0.0%)
    build                                12      0.1 s [bond_tolerance, centres, disorder, ligands, max_atoms, probability]
    keep                                  6      0.0 s
    render_structure                      6      0.5 s [path, polyhedra, size, view, view=auto, polyhedra=True]
