diff --git a/scripts/argparse_example.py b/scripts/argparse_example.py deleted file mode 100644 index 7068aaa74053f54baef7e06a8c7aeb1bb5a898cc..0000000000000000000000000000000000000000 --- a/scripts/argparse_example.py +++ /dev/null @@ -1,31 +0,0 @@ -import argparse - -if __name__ == '__main__': - parser = argparse.ArgumentParser( - description="transcript sampler", - formatter_class=argparse.ArgumentDefaultsHelpFormatter - ) - parser.add_argument("--annotation", required=True, help="gtf file with genome annotation") - parser.add_argument("--expression_level", required=True, help="csv file with expression level") - parser.add_argument("--output_csv", required=True, help="output csv file") - parser.add_argument("--output_gtf", required=True, help="output gtf file") - parser.add_argument("--transcript_number", required=True, help="total number of transcripts to sample") - args = parser.parse_args() - - - -# script name being whatever we call our workflow class/function that takes the inputs - script_name(args.annotation, args.expression_level, args.output_csv, args.output_gtf, args.transcript_number) - - -"""note: -so to run our entire workflow, it will suffice to type the following into the command line: - python filename.py \ - --annotation filename1.gtf \ - --expression_level filename2.gtf \ - --output_csv output1.csv \ - --output_gtf output2.gtf \ - --transcript_number 100 (some number) - - -""" \ No newline at end of file