Skip to content
GitLab
Menu
Projects
Groups
Snippets
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Menu
Open sidebar
vidjil
vidjil
Commits
aaeea2c6
Commit
aaeea2c6
authored
Nov 03, 2014
by
Mathieu Giraud
Browse files
tests: testing 'unable to segment' on some germlines when using -c -v -g
parent
a0d13502
Changes
1
Hide whitespace changes
Inline
Side-by-side
algo/tests/segment_simul.should_get
View file @
aaeea2c6
!LAUNCH: ../../vidjil -
G
../../germline
/IGH
-d -c segment ../../data/segment_simul.fa | grep '^
>
'
!LAUNCH: ../../vidjil -
v -g
../../germline -d -c segment ../../data/segment_simul.fa | grep '^
[>#]
'
$ First sequence, easy segmentation (no error, few deletions at the windows, small N)
...
...
@@ -12,5 +12,8 @@ $ First sequence, easy segmentation (no error, few deletions at the windows, sma
# -2/CTTC/-3 -1/GTTA/5
1:^>seq1 \\+ VDJ 0 72 77 89 94 139 IGHV5-10-1.0[1-4] 2/CTTC/3 IGHD1-14.01 1/GTTA/5 IGHJ5.01
$ Do not manage to segment on TRG
2:TRG: unable to segment
$ seq1_polyT is the same as seq1 but starts and ends with 10Ts, the recombination is in the middle. start position should not be 0 and end position should not be length-1
f1:^>seq1_polyT \\+ VDJ 10 82 87 99 104 149 IGHV5-10-1.0[1-4] 2/CTTC/3 IGHD1-14.01 1/GTTA/5 IGHJ5.01
Write
Preview
Supports
Markdown
0%
Try again
or
attach a new file
.
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment