diff --git a/Utilities/For_Assemblies/ProcessAndRenameAssembledData.py b/Utilities/For_Assemblies/ProcessAndRenameAssembledData.py index 7fcf5b2..521e81a 100644 --- a/Utilities/For_Assemblies/ProcessAndRenameAssembledData.py +++ b/Utilities/For_Assemblies/ProcessAndRenameAssembledData.py @@ -4,7 +4,7 @@ Author & Date: Adri K. Grow + ChatGPT, Nov 11th 2024 Motivation: assess and rename assembled transcript or genome files for use in EukPhylo Part 1 Intention: warn if any 'transcripts.fasta' or 'contigs.fasta' files are missing or empty for an LKH, otherwise rename and copy them with their assigned 10-digit code by LKH Input: - - a base directory containing subdirectories for each LKH assembled file, named 'WTA_LKH' or 'WGA_LKH', each containing a 'transcripts.fasta' or 'contigs.fasta' file + - a base directory containing subdirectories for each LKH, named either 'WTA_LKH' or 'WGA_LKH', each containing a 'transcripts.fasta' or 'contigs.fasta' file - a mapping .txt file with LKH#s tab-separated with corresponding 10-digit codes Output: - a folder named 'renamed_transcripts|contigs' with assembled files now named by 10-digit codes; e.g. "Sr_rh_Ro04_assembledTranscripts.fasta" @@ -83,3 +83,4 @@ def main(): if __name__ == "__main__": main() +