From e9f8e37f28870ee7f6dffb5ba6b9f4f1721836e1 Mon Sep 17 00:00:00 2001
From: LauraU123 <laura.urbanska@stud.unibas.ch>
Date: Wed, 9 Nov 2022 14:22:49 +0100
Subject: [PATCH] removed argparse_example
---
scripts/argparse_example.py | 31 -------------------------------
1 file changed, 31 deletions(-)
delete mode 100644 scripts/argparse_example.py
diff --git a/scripts/argparse_example.py b/scripts/argparse_example.py
deleted file mode 100644
index 7068aaa..0000000
--- 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
--
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