This script is designed to process files in multi-FASTA format, extracting individual FASTA content blocks.
Usage: Place this script in the root directory containing your FASTA files and execute it from the command line.
Functionality:
- Line 2: Searches recursively for FASTA files in all directory trees.
- Line 4: Counts the number of sequence headers in each FASTA file.
- Line 5: Process files if they contain more than one sequence (multi-FASTA).
- Line 6-8: Sets up file and directory names for processing.
- Line 9-11: Creates a new directory for each multi-FASTA file if it doesn't exist.
- Line 12: Extracts each sequence from the multi-FASTA file, saving it as an individual FASTA file in the newly created directory.
- Line 13: Outputs the completion status with the path of the processed file.
To give execute permission:
chmod +x multifasta_to_fasta.shRun:
./multifasta_to_fasta.sh