From 70857a6c139c355545080d42dc47d44a22423e70 Mon Sep 17 00:00:00 2001
From: Jakob Rien <jakobj.rien@stud.unibas.ch>
Date: Thu, 8 Dec 2022 08:03:00 +0000
Subject: [PATCH] Replace transcript_extractor.py
---
scripts/transcript_extractor.py | 6 ++++--
1 file changed, 4 insertions(+), 2 deletions(-)
diff --git a/scripts/transcript_extractor.py b/scripts/transcript_extractor.py
index ff47731..cdc859c 100644
--- a/scripts/transcript_extractor.py
+++ b/scripts/transcript_extractor.py
@@ -274,7 +274,7 @@ def _transcript_extractor (file_name,source_pathway_name,deposit_pathway_name):
def extract_transcript(file_name = "test",source_pathway_name = os.getcwd(),deposit_pathway_name = False,Input_free = False):
- """This it the overall exetutable funtion that will execute the transcript extraction process for a given file with all checks.
+ """ This it the overall exetutable funtion that will execute the transcript extraction process for a given file with all checks.
Expected input:
file_name: str ; default = test #the name of the gft file you want to look at
source_pathway_name: str ; default = current work directory #path of the gtf file
@@ -282,7 +282,9 @@ def extract_transcript(file_name = "test",source_pathway_name = os.getcwd(),depo
Outputs:
file_name: str
source_pathway_name: str
- deposit_pathway_name: str """
+ deposit_pathway_name: str
+ """
+
if deposit_pathway_name == False:
deposit_pathway_name = source_pathway_name
--
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