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vidjil
vidjil
Commits
50238f19
Commit
50238f19
authored
Mar 07, 2019
by
Mikaël Salson
Browse files
algo/: Separate the sequence name with a tab in all case
This should ease parsing the output.
parent
1f3d1d48
Changes
3
Hide whitespace changes
Inline
Side-by-side
algo/core/segment.cpp
View file @
50238f19
...
...
@@ -361,7 +361,7 @@ string Segmenter::getInfoLine() const
{
string
s
=
""
;
s
+=
(
segmented
?
""
:
"! "
)
+
info
;
s
+=
(
segmented
?
""
:
"
\t
! "
)
+
info
;
s
+=
" "
+
info_extra
;
s
+=
" "
+
segmented_germline
->
code
;
s
+=
" "
+
string
(
segmented_mesg
[
because
])
;
...
...
algo/tests/data/segment-or-not.fa
0 → 100644
View file @
50238f19
>lcl|FLN1FA002RWEZA.1|
ggctggagtgggtttcatacattagtagtaatagtggtgccatatactacgcagactctgtgaagggccgattcaccatc
tccagaaacaatgccaaggactcactgtatctgcaaatgaacagcctgagagccgaggacacggctgtgtattactgtgc
gagagcgatcccccggtattactatgatactagtggcccaaacgactactggggccagggaaccctggtcaccgtctcct
cag
>unsegmented
CGAATGCCTACATAGGGCTGGACGGCGTGCGTATTCCGTTACTACGACGATTCAAGGTAGTACAGCAAGACCACTGACCACTCCCGTGAGATATTTACCGAACGCCATTACGTATTGACACCGCAGTAATGACCTGGGTGGGGCATAGTCAAATTTCTGATGCTGGATAGTTTAATCCGCAGAGATTTTGTACTTGGCGATTGCTACACGATGTGTAGTAAATGATGAATATTCATAATCACCTTTCTGTGCCGATGGCATAGGGGGACCAATACCTCTGTTCGATGAACTAAGCTGGGA
>unexpected-IGHV-TRGJ
ATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAG
CGATCCCCCGGTATTACTATGATACTAGTGGCCCAAAC
atagtagtgattggatcaagacgtttgcaaaagggactaggctcatagtaacttcgcctg
\ No newline at end of file
algo/tests/should-get-tests/tabs-in-output.should-get
0 → 100644
View file @
50238f19
!LAUNCH: $VIDJIL_DIR/$EXEC $VIDJIL_DEFAULT_OPTIONS -2 -c designations -g $VIDJIL_DIR/germline $VIDJIL_DATA/segment-or-not.fa
$ Check that output has one tab for each sequence
3:^>.*\t
\ No newline at end of file
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