codex-lv2-may-2025

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Nelle’s Pipeline: Organizing Files and Using Tab Completion

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Now that she understands files and folders, Nelle starts organizing her data from the lab. She wants everything to be tidy and efficient, including how she navigates it.

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Steps

1. Create a folder for her data Nelle creates a folder called:

   north-pacific-gyre
   

   This helps her remember where the samples came from.

2. Name files clearly Each file is named using the sample’s unique ID. For example:

   NENE01729A.txt
   NENE01812A.txt
   

   These .txt files are plain text from the assay machine.

3. List files in the folder To see what’s inside, she runs:

   ls north-pacific-gyre/
   

4. Use tab completion Instead of typing the full name, Nelle can type part of it and press Tab:

   ls nor  [then press Tab]
   

   This auto-completes to:

   ls north-pacific-gyre/
   

5. Use tab completion for files too Inside the folder, she tries:

   ls north-pacific-gyre/goo  [then press Tab twice]
   

   This lists:

   goodiff.sh  goostats.sh
   

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Notes

• Tab completion saves time and avoids typos. Press Tab once to complete. Press Tab twice to show all matching options.

• This feature works with:

  • Commands
  • File names
  • Folder names

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Summary: Key Concepts

• The file system stores data in files, organized in folders (directories).
• Use pwd to print your current location.
• Use ls [path] to list contents of a folder.
• Use cd [path] to change folders.
• Folder names are separated by / (on Unix-like systems).
• / is the root of the file system.
• A relative path starts from where you are.
• An absolute path starts from the root /.
• . means “current directory” .. means “up one level”

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