Skip to content
GitLab
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
89ba89a6
Commit
89ba89a6
authored
May 30, 2020
by
Mathieu Giraud
Browse files
tests: these sequences should be productive
parent
825730c2
Changes
3
Hide whitespace changes
Inline
Side-by-side
algo/tests/data/productive_stop_after_J.fa
View file @
89ba89a6
...
...
@@ -2,8 +2,8 @@
# This synthetic sequence ends after the end of the J gene,
# including a stop codon in all frames in that zone
# end of the J gene @9
0
>TRGV9*01 0/CA
T
/0 TRGJP*01 0/17
acctactactgtgccttgtgggaggtgCA
T
# end of the J gene @
8
9
>TRGV9*01 0/CA/0 TRGJP*01 0/17
acctactactgtgccttgtgggaggtgCA
tgggcaagagttgggcaaaaaaatcaaggtatttggtcccggaacaaagcttatcattacag
cccTAGcTAGcTAGccc
algo/tests/should-get-tests/productive_stop_after_J.should
View file @
89ba89a6
...
...
@@ -5,12 +5,15 @@
!LAUNCH: $VIDJIL_DIR/$EXEC -c designations -3 -V $VIDJIL_DIR/germline/homo-sapiens/TRGV.fa -J $VIDJIL_DIR/germline/homo-sapiens/TRGJ.fa $VIDJIL_DATA/productive_stop_after_J.fa
!OUTPUT_FILE: out/productive_stop_after_J.vidjil
$ Clone name
1: "TRGV9.01 0/CA/0 TRGJP.01"
$ Correct number of start positions (no V, but J, cdr3 and junction))
3: "start"
$ Correct stop position of TRGJP*01
1: "stop": 9
2
1: "stop": 9
1
$ The sequence is productive
f
1: "productive": true
1: "productive": true
algo/tests/should-get-tests/productive_stop_before_V.should
View file @
89ba89a6
...
...
@@ -24,5 +24,5 @@ $ Correct number of stop positions (10-1, no stop positions for J on the second
9: "stop"
$ The two sequences are productive
f
2: "productive": true
2: "productive": true
Write
Preview
Supports
Markdown
0%
Try again
or
attach a new 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