From 7ca941adb6915a5f300d05496ee5d157dfa294c9 Mon Sep 17 00:00:00 2001
From: NMarthe <nina.marthe34@gmail.com>
Date: Thu, 12 Oct 2023 15:35:12 +0200
Subject: [PATCH] .
---
Functions_output.py | 6 ------
1 file changed, 6 deletions(-)
diff --git a/Functions_output.py b/Functions_output.py
index 2ddf9ec..d40c840 100644
--- a/Functions_output.py
+++ b/Functions_output.py
@@ -245,12 +245,6 @@ def print_current_var(variation,feat_start,list_segfeat_azu,feat,i):
line=f'{variation.feature_id}\t{variation.feature_type}\t{variation.chr}\t{variation.start_new}\t{variation.stop_new}\t{variation.size_new}\t{variation.inversion}\t{variation.size_diff}\tdeletion\t{variation.ref}\t-\t{len(variation.ref)}\t{pos_old}\t{pos_new}\n'
write_line(line,output_variations,False)
elif variation.type=='substitution':
-
- #Â detect inversions : look for segments common if we dont consider the orientation ?
- # in nb : look for segment_i[1:] in azu. if not found, continue. if nb finished, no inv.
- # if found ! : look for the next one. if not found, just print the inversion of 1 segment.
- # what about inversions with indel/subs inside ??
-
[pos_old,pos_new]=get_old_new_pos_substitution(feat_start,variation,list_segfeat_azu,feat)
if len(variation.ref) == len(variation.alt): # if the substituion is between two segment of the same size, print it
size_subs=len(variation.ref)
--
GitLab