Skip to content
Projects
Groups
Snippets
Help
Loading...
Help
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
M
Memiscape Purescript
Project
Project
Details
Activity
Releases
Cycle Analytics
Repository
Repository
Files
Commits
Branches
Tags
Contributors
Graph
Compare
Charts
Issues
0
Issues
0
List
Board
Labels
Milestones
Merge Requests
0
Merge Requests
0
CI / CD
CI / CD
Pipelines
Jobs
Schedules
Charts
Wiki
Wiki
Snippets
Snippets
Members
Members
Collapse sidebar
Close sidebar
Activity
Graph
Charts
Create a new issue
Jobs
Commits
Issue Boards
Open sidebar
Ali El Amrani
Memiscape Purescript
Commits
2451c771
Commit
2451c771
authored
Sep 30, 2021
by
Ali El Amrani
Browse files
Options
Browse Files
Download
Email Patches
Plain Diff
Adding Isoline.js and PhyloGraph.js for ffi import
parent
4aa487f4
Changes
2
Hide whitespace changes
Inline
Side-by-side
Showing
2 changed files
with
280 additions
and
0 deletions
+280
-0
Isoline.js
src/Phylo/Components/Isoline.js
+96
-0
PhyloGraph.js
src/Phylo/Components/PhyloGraph.js
+184
-0
No files found.
src/Phylo/Components/Isoline.js
0 → 100644
View file @
2451c771
"use strict"
;
exports
.
drawIsoline
=
function
(
phyloBranches
){
return
function
(
el
){
/* ** draw the isoline ** */
var
branches
=
phyloBranches
.
value0
.
map
(
function
(
b
)
{
return
{
x1
:
b
.
branch_x
,
y
:
b
.
branch_y
,
x2
:
parseFloat
(
b
.
pos
.
split
(
","
)[
0
]),
label
:
b
.
label
,
bId
:
parseInt
(
b
.
bId
),
gvid
:
parseInt
(
b
.
_gvid
)
};
});
d3
.
select
(
el
).
style
(
"background"
,
"#EBE4DD"
);
var
div0
=
d3
.
select
(
el
).
node
().
getBoundingClientRect
(),
m0
=
{
t
:
5
,
r
:
5
,
b
:
5
,
l
:
5
},
w0
=
div0
.
width
,
h0
=
div0
.
height
;
var
svg0
=
d3
.
select
(
el
)
.
append
(
"svg"
)
.
attr
(
"width"
,
w0
)
.
attr
(
"height"
,
h0
)
.
append
(
"g"
);
var
xScale0
=
d3
.
scaleLinear
()
.
domain
([
0
,
Math
.
max
(...
branches
.
map
((
b
)
=>
b
.
x1
))])
.
range
([
2
*
m0
.
l
,
w0
-
2
*
m0
.
l
]),
yScale0
=
d3
.
scaleLinear
()
.
domain
(
d3
.
extent
(
branches
,
(
b
)
=>
b
.
y
))
.
nice
()
.
range
([
2
*
m0
.
t
,
h0
-
2
*
m0
.
t
]);
var
density
=
d3
.
contourDensity
()
.
x
(
function
(
b
)
{
return
xScale0
(
b
.
x1
);
})
.
y
(
function
(
b
)
{
return
yScale0
(
b
.
y
);
})
.
size
([
w0
,
h0
])
.
thresholds
(
Math
.
round
(
branches
.
length
/
2
))(
branches
);
/* shadows and lights */
svg0
.
append
(
"g"
)
.
selectAll
(
"circle"
)
.
data
(
branches
)
.
enter
()
.
append
(
"circle"
)
.
attr
(
"cx"
,
(
b
)
=>
xScale0
(
b
.
x1
))
.
attr
(
"cy"
,
(
b
)
=>
yScale0
(
b
.
y
))
.
attr
(
"r"
,
"55"
)
.
attr
(
"id"
,
(
b
)
=>
"peak-shadow"
+
b
.
bId
)
.
attr
(
"visibility"
,
"visible"
)
.
style
(
"fill"
,
"#f5eee6"
);
svg0
.
selectAll
(
"path"
)
.
data
(
density
)
.
enter
()
.
append
(
"path"
)
.
attr
(
"d"
,
d3
.
geoPath
())
.
attr
(
"fill"
,
"none"
)
.
attr
(
"stroke"
,
"#74B5FF"
)
.
attr
(
"stroke-width"
,
(
d
,
i
)
=>
(
i
%
2
?
0.25
:
1
))
.
attr
(
"stroke-linejoin"
,
"round"
);
var
label
=
d3
.
select
(
el
)
.
append
(
"div"
)
.
attr
(
"class"
,
"peak-label"
);
svg0
.
append
(
"g"
)
.
selectAll
(
"text"
)
.
data
(
branches
)
.
enter
()
.
append
(
"text"
)
.
attr
(
"x"
,
(
b
)
=>
xScale0
(
b
.
x1
))
.
attr
(
"y"
,
(
b
)
=>
yScale0
(
b
.
y
)
+
4
)
.
attr
(
"class"
,
"peak"
)
.
attr
(
"id"
,
(
b
)
=>
"peak-"
+
b
.
bId
)
.
style
(
"fill"
,
"#0d1824"
)
.
attr
(
"visibility"
,
"visible"
)
.
text
(
"▲"
);
};
};
\ No newline at end of file
src/Phylo/Components/PhyloGraph.js
0 → 100644
View file @
2451c771
"use strict"
;
exports
.
drawPhyloGraph
=
function
(
graphEl
,
timelineEl
){
var
div1
=
d3
.
select
(
graphEl
).
node
().
getBoundingClientRect
(),
div2
=
d3
.
select
(
timelineEl
).
node
().
getBoundingClientRect
(),
m
=
{
t
:
10
,
b
:
10
,
l
:
10
,
r
:
10
},
w
=
div1
.
width
,
h
=
div1
.
height
;
ydiv
=
div1
.
y
;
const
svg
=
d3
.
select
(
graphEl
)
.
append
(
"svg"
)
.
attr
(
"viewBox"
,
[
0
,
0
,
w
,
h
]);
var
xo
=
div2
.
width
+
m
.
l
,
yo
=
2.5
*
m
.
t
,
wo
=
w
-
xo
-
m
.
r
,
ho
=
h
-
yo
-
m
.
b
;
/* *** draw the graph *** */
var
div3
=
d3
.
select
(
"#phyloGraph"
).
node
().
getBoundingClientRect
();
window
.
svg3
=
d3
.
select
(
"#phyloGraph"
)
.
append
(
"svg"
)
.
attr
(
"width"
,
div3
.
width
)
.
attr
(
"height"
,
div3
.
height
)
.
append
(
"g"
);
/* labels */
var
firstDate
=
Math
.
min
(...
groups
.
map
((
g
)
=>
g
.
from
.
getFullYear
()));
var
yLabels
=
periods
.
map
((
p
)
=>
({
y
:
p
.
y
,
from
:
p
.
from
,
to
:
p
.
to
,
label
:
p
.
from
.
getFullYear
()
}))
.
filter
((
p
)
=>
p
.
label
>=
firstDate
);
var
xLabels
=
toXLabels
(
branches
,
groups
,
frame
[
2
]);
/* weight */
if
(
window
.
weighted
==
true
)
{
var
wInf
=
Math
.
min
(...
groups
.
map
((
g
)
=>
g
.
weight
));
var
wSup
=
Math
.
max
(...
groups
.
map
((
g
)
=>
g
.
weight
));
var
wScale
=
d3
.
scaleLog
().
domain
([
1
,
wSup
]).
range
([
3
,
10
]);
}
/* scales */
var
xScale
=
d3
.
scaleLinear
()
.
domain
([
0
,
frame
[
2
]])
.
range
([
xo
+
m
.
t
,
wo
+
xo
]),
yScale
=
d3
.
scaleTime
()
.
domain
(
setYDomain
(
yLabels
))
.
range
([
m
.
t
+
yo
,
ho
+
yo
]);
/* panel and mask */
var
mask
=
svg
.
append
(
"defs"
)
.
append
(
"svg:clipPath"
)
.
attr
(
"id"
,
"mask"
)
.
append
(
"svg:rect"
)
.
attr
(
"width"
,
wo
)
.
attr
(
"height"
,
ho
)
.
attr
(
"x"
,
xo
)
.
attr
(
"y"
,
yo
);
const
panel
=
svg
.
append
(
"g"
)
.
attr
(
"clip-path"
,
"url(#mask)"
)
.
attr
(
"id"
,
"panel"
);
/* highlight */
xLabels
.
forEach
((
b
)
=>
panel
.
append
(
"rect"
)
.
attr
(
"class"
,
"branch-hover"
)
.
attr
(
"x"
,
xScale
(
b
.
inf
))
.
attr
(
"y"
,
-
10000
)
.
attr
(
"width"
,
xScale
(
b
.
sup
)
-
xScale
(
b
.
inf
))
.
attr
(
"height"
,
20000
)
.
attr
(
"id"
,
"hover-"
+
b
.
bId
)
.
style
(
"visibility"
,
"hidden"
)
);
yLabels
.
forEach
((
l
)
=>
panel
.
append
(
"line"
)
.
attr
(
"class"
,
"y-highlight"
)
.
attr
(
"id"
,
"y-highlight-"
+
l
.
label
)
.
attr
(
"x1"
,
-
10000
)
.
attr
(
"y1"
,
yScale
(
l
.
from
))
.
attr
(
"x2"
,
10000
)
.
attr
(
"y2"
,
yScale
(
l
.
from
))
.
style
(
"visibility"
,
"hidden"
)
);
/* links */
function
findGroup
(
id
,
xsc
,
ysc
)
{
var
group
=
groups
.
find
((
g
)
=>
g
.
gId
==
id
),
x
=
xsc
(
group
.
x
);
y
=
ysc
(
group
.
to
);
return
[
x
,
y
];
}
var
linkGen
=
d3
.
linkVertical
();
var
groupLinks
=
links
.
map
((
l
)
=>
({
source
:
findGroup
(
l
.
from
,
xScale
,
yScale
),
target
:
findGroup
(
l
.
to
,
xScale
,
yScale
),
from
:
l
.
from
,
to
:
l
.
to
,
label
:
l
.
label
}));
var
groupAncestors
=
aLinks
.
map
((
l
)
=>
({
source
:
findGroup
(
l
.
from
,
xScale
,
yScale
),
target
:
findGroup
(
l
.
to
,
xScale
,
yScale
),
from
:
l
.
from
,
to
:
l
.
to
,
label
:
l
.
label
}));
panel
.
selectAll
(
"path"
)
.
data
(
groupLinks
.
concat
(
groupAncestors
))
.
join
(
"path"
)
.
attr
(
"d"
,
linkGen
)
.
attr
(
"fill"
,
"none"
)
.
attr
(
"stroke"
,
"#0d1824"
)
.
attr
(
"class"
,
"group-path"
)
.
attr
(
"source"
,
(
d
)
=>
d
.
from
)
.
attr
(
"target"
,
(
d
)
=>
d
.
to
)
.
attr
(
"label"
,
(
d
)
=>
d
.
label
);
// .on("click", function(){
// // console.log(this)
// })
var
colors
=
[
"#F0684D"
,
"#aa8c58"
,
"#74b5ff"
,
"#0d1824"
];
/* groups */
groups
.
forEach
((
g
)
=>
setGroup
(
g
));
/* axis */
var
xAxis
=
svg
.
append
(
"g"
)
.
attr
(
"class"
,
"x-axis"
)
.
attr
(
"transform"
,
"translate(0,"
+
yo
+
")"
),
yAxis
=
svg
.
append
(
"g"
)
.
attr
(
"class"
,
"y-axis"
)
.
attr
(
"transform"
,
"translate("
+
xo
+
",0)"
);
setAxisX
(
xScale
,
xLabels
);
setAxisY
(
yScale
,
yLabels
);
/* zoom */
var
zoom
=
d3
.
zoom
()
.
scaleExtent
([
1
,
50
])
.
extent
([
[
xo
,
yo
],
[
wo
,
ho
]
])
.
on
(
"zoom"
,
onZoom
);
svg
.
call
(
zoom
).
on
(
"dblclick.zoom"
,
null
).
on
(
"dblclick"
,
doubleClick
);
d3
.
select
(
"#reset"
).
on
(
"click"
,
reset
);
function
reset
()
{
svg
.
transition
().
duration
(
750
).
call
(
zoom
.
transform
,
d3
.
zoomIdentity
);
}
}
\ No newline at end of file
Write
Preview
Markdown
is supported
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