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vidjil
vidjil
Commits
b43890ed
Commit
b43890ed
authored
Jul 11, 2016
by
Mathieu Giraud
Browse files
js/segmenter.js: handles both '4', '4a', '4b' keys, highlighting multiple Ds
parent
098e5a85
Changes
1
Hide whitespace changes
Inline
Side-by-side
browser/js/segmenter.js
View file @
b43890ed
...
...
@@ -34,6 +34,8 @@
CGI_ADDRESS
=
""
SEGMENT_KEYS
=
[
"
4
"
,
"
4a
"
,
"
4b
"
]
/** segment
* Segment is a view object to see the sequences of the selected clones in the model <br>
* some function are provided to allow alignement / highlight / imgt request / ...
...
...
@@ -1084,12 +1086,20 @@ Sequence.prototype = {
// We first put the end positions
vdjArrayRev
[
vdjArray
[
"
5
"
][
'
stop
'
]]
=
{
'
type
'
:
'
N
'
,
'
color
'
:
""
};
vdjArrayRev
[
vdjArray
[
"
3
"
][
'
start
'
]]
=
{
'
type
'
:
'
N
'
,
'
color
'
:
""
};
if
(
typeof
vdjArray
[
"
4
"
]
!=
'
undefined
'
&&
typeof
vdjArray
[
"
4
"
][
'
start
'
]
!=
'
undefined
'
&&
typeof
clone
.
seg
[
"
4
"
][
'
stop
'
]
!=
'
undefined
'
){
vdjArrayRev
[
vdjArray
[
"
4
"
][
'
stop
'
]]
=
{
'
type
'
:
'
N
'
,
'
color
'
:
""
};
// We now put the start positions (that may override previous end positions)
vdjArrayRev
[
vdjArray
[
"
4
"
][
'
start
'
]]
=
{
'
type
'
:
'
D
'
,
'
color
'
:
""
};
}
for
(
var
i
in
SEGMENT_KEYS
)
{
var
key
=
SEGMENT_KEYS
[
i
]
if
(
typeof
vdjArray
[
key
]
!=
'
undefined
'
&&
typeof
vdjArray
[
key
][
'
stop
'
]
!=
'
undefined
'
){
vdjArrayRev
[
vdjArray
[
key
][
'
stop
'
]]
=
{
'
type
'
:
'
N
'
,
'
color
'
:
""
};
}}
// We now put the start positions (that may override previous end positions)
for
(
var
i
in
SEGMENT_KEYS
)
{
var
key
=
SEGMENT_KEYS
[
i
]
if
(
typeof
vdjArray
[
key
]
!=
'
undefined
'
&&
typeof
vdjArray
[
key
][
'
start
'
]
!=
'
undefined
'
){
vdjArrayRev
[
vdjArray
[
key
][
'
start
'
]]
=
{
'
type
'
:
'
D
'
,
'
color
'
:
""
};
}}
vdjArrayRev
[
vdjArray
[
"
5
"
][
'
start
'
]]
=
{
'
type
'
:
'
V
'
,
'
color
'
:
this
.
m
.
colorMethod
==
"
V
"
?
clone
.
colorV
:
""
};
vdjArrayRev
[
vdjArray
[
"
3
"
][
'
start
'
]]
=
{
'
type
'
:
'
J
'
,
'
color
'
:
this
.
m
.
colorMethod
==
"
J
"
?
clone
.
colorJ
:
""
};
}
...
...
@@ -1188,10 +1198,16 @@ Sequence.prototype = {
vdjArray
[
"
5
"
][
"
stop
"
]
=
this
.
pos
[
clone
.
seg
[
"
5
"
][
"
stop
"
]]
+
1
;
vdjArray
[
"
3
"
][
"
start
"
]
=
this
.
pos
[
clone
.
seg
[
"
3
"
][
"
start
"
]];
vdjArray
[
"
3
"
][
"
stop
"
]
=
this
.
seq
.
length
;
if
(
typeof
clone
.
seg
[
"
4
"
]
!=
'
undefined
'
&&
typeof
clone
.
seg
[
"
4
"
][
"
start
"
]
!=
'
undefined
'
&&
typeof
clone
.
seg
[
"
4
"
][
"
stop
"
]
!=
'
undefined
'
)
{
vdjArray
[
"
4
"
]
=
{}
vdjArray
[
"
4
"
][
"
start
"
]
=
this
.
pos
[
clone
.
seg
[
"
4
"
][
"
start
"
]];
vdjArray
[
"
4
"
][
"
stop
"
]
=
this
.
pos
[
clone
.
seg
[
"
4
"
][
"
stop
"
]]
+
1
for
(
var
i
in
SEGMENT_KEYS
)
{
var
key
=
SEGMENT_KEYS
[
i
]
vdjArray
[
key
]
=
{}
if
(
typeof
clone
.
seg
[
key
]
!=
'
undefined
'
&&
typeof
clone
.
seg
[
key
][
"
start
"
]
!=
'
undefined
'
&&
typeof
clone
.
seg
[
key
][
"
stop
"
]
!=
'
undefined
'
)
{
vdjArray
[
key
]
=
{}
vdjArray
[
key
][
"
start
"
]
=
this
.
pos
[
clone
.
seg
[
key
][
"
start
"
]];
vdjArray
[
key
][
"
stop
"
]
=
this
.
pos
[
clone
.
seg
[
key
][
"
stop
"
]]
+
1
}
}
return
vdjArray
;
},
...
...
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