ls

atb osf ls

List files and projects in the ATB index

Synopsis

List files from the AllTheBacteria OSF index.

Without arguments, shows project categories with file counts and total sizes. With a positional argument, shows files in projects matching that substring.

atb osf ls [filter] [flags]

Examples

  # List all project categories
  atb osf ls

  # Show files in projects matching "AMR"
  atb osf ls AMR

  # Show files in an exact project
  atb osf ls --project AllTheBacteria/Assembly

  # Regex search across project and filename
  atb osf ls --grep "bakta.*batch"

  # Sort by size descending
  atb osf ls AMR --sort size

  # JSON output
  atb osf ls AMR --format json

  # Force refresh of the cached index
  atb osf ls --refresh

Options

      --format string    output format: tsv, csv, json, table (default: table in terminal, tsv in pipe)
      --grep string      regex filter across project+filename
  -h, --help             help for ls
      --project string   filter by exact project prefix
      --refresh          re-download the index even if cached
      --sort string      sort order: name (default) or size

Options inherited from parent commands

      --config string     config file (default $HOME/.atb/config.toml)
      --data-dir string   directory for the local metadata index (default ~/.local/share/atb/data; override with $ATB_DATA_DIR)

SEE ALSO

• atb osf - Browse and download files from the AllTheBacteria OSF repository