run nac-fixed-opus-3
transcript /Users/yue/.claude/projects/-private-tmp-claude-501--Users-yue-Code-rietx-0433c291-1037-42b9-8cb7-5377547150b7-scratchpad-1504-root-work-nac-fixed-opus-3/b21758a7-5b41-4f68-bdbc-c78297df36ac.jsonl

   #  offset    dur    chars     tool       head
   1     1.9    0.0       22     Skill      skill
   2     4.0    0.1     7475     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   3     7.1    1.2     4253     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   4    13.0    1.6      950     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   5    16.8    0.0   208696     Read       /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scrat
   6    23.7    0.9      284     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   7    28.8    1.5      165     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
   8    33.1    0.0    61176     Read       /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scrat
   9    33.7    0.0    79140     Read       /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scrat
  10    38.1    1.3      302     Bash       cd /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/sc
  11    41.4    0.0   227920     Read       /private/tmp/claude-501/-Users-yue-Code-rietx/0433c291-1037-42b9-8cb7-5377547150b7/scrat

11 tool calls (6 Bash, 4 Read, 1 Skill), 0 errored
11 API calls, 0.8 min wall, 0.33 M cache-read, 29 k cache-write, 4 k output, mean context 33 k
models: claude-opus-5-5 ×11

0 traced interpreter starts, 19 traced calls
refinement 0.0 s in 0 fit calls (0.0% of wall)
per-process floor 0.0 s of 5.7 s (0.0%)
    build                                 8      0.1 s [centres, ligands, max_atoms, bond_tolerance, disorder, probability]
    keep                                  3      0.0 s
    render_structure                      5      1.4 s [path, size, view, size=400, view=auto, view=opening]
    select                                3      0.0 s [element]
