plot-structure.md

structure_trnas errors for unknown organism

Code
  structure_trnas("Nonexistent organism")
Condition
  Error in `structure_org_dir()`:
  ! No structure data found for "Nonexistent organism".
  i Use `structure_organisms()` to list available organisms.

plot_tRNA_structure errors for unknown organism

Code
  plot_tRNA_structure("tRNA-Ala-GGC", "Nonexistent organism")
Condition
  Error in `structure_org_dir()`:
  ! No structure data found for "Nonexistent organism".
  i Use `structure_organisms()` to list available organisms.

plot_tRNA_structure errors for unknown tRNA

Code
  plot_tRNA_structure("tRNA-Fake-XXX", org)
Condition
  Error in `plot_tRNA_structure()`:
  ! No structure SVG found for "tRNA-Fake-XXX".
  i Use `structure_trnas()` to list available tRNAs.

structure_to_png errors for missing file

Code
  structure_to_png("nonexistent.svg")
Condition
  Error in `structure_to_png()`:
  ! SVG file not found: 'nonexistent.svg'.

structure_html errors on missing file

Code
  structure_html("nonexistent.svg")
Condition
  Error in `structure_html()`:
  ! SVG file not found: 'nonexistent.svg'.

convert_sprinzl_positions warns on unmatched and drops rows

Code
  result <- convert_sprinzl_positions(df, "pos", trna_coords)
Condition
  Warning:
  Sprinzl position "99" not found; dropping 1 row.

plot_tRNA_structure errors when tRNA not in sprinzl_coords

Code
  plot_tRNA_structure(trna, org, sprinzl_coords = fake_coords)
Condition
  Error in `plot_tRNA_structure()`:
  ! Could not find "tRNA-Ala-GGC" in `sprinzl_coords`.