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Refactors to support Spacewalk #400

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Merged
turner merged 15 commits into from
Nov 7, 2025
Merged

Refactors to support Spacewalk #400

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2606601
live map refactors
turner Nov 4, 2025
4cc6a8b
Spacewalk files updated
turner Nov 4, 2025
c957a97
bug fixes
turner Nov 4, 2025
81420ec
updates
turner Nov 4, 2025
0609e68
bug fix
turner Nov 4, 2025
497c687
Bug fixes
turner Nov 5, 2025
c2d4b07
bug fix
turner Nov 5, 2025
c7722dc
debug
turner Nov 5, 2025
c996392
Refactor: Modernize build process: Use Vite.js
turner Nov 6, 2025
30b74ee
ongoing modernization
turner Nov 6, 2025
682709c
update tests
turner Nov 6, 2025
af3499e
npm futzing
turner Nov 6, 2025
6850bf2
Missing locus bug fix
turner Nov 6, 2025
ede48cc
Update js/hicBrowser.js
turner Nov 7, 2025
5fac520
Update js/liveMapDataset.js
turner Nov 7, 2025
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13 changes: 0 additions & 13 deletions .babelrc.json
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This file was deleted.

1 change: 1 addition & 0 deletions .gitignore
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Original file line number Diff line number Diff line change
Expand Up @@ -13,3 +13,4 @@ node_modules
/dev/Figure_S20_geo.json
/dev/issue_360.html
/package-lock.json
dist/
5 changes: 5 additions & 0 deletions css/_igv-menu-popup.scss
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Original file line number Diff line number Diff line change
@@ -1,3 +1,8 @@
// Variables with defaults - can be overridden via @use ... with
$igv-trackgear-grey-color: #7F7F7F !default;
$igv-trackgear-popover-border-radius: 4px !default;
$igv-trackgear-font-color: #4b4b4b !default;
$igv-trackgear-default-font-face: 'Open Sans', sans-serif !default;

.jb-igv-menu-popup {
position: absolute;
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49 changes: 33 additions & 16 deletions css/juicebox.css
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Original file line number Diff line number Diff line change
@@ -1,16 +1,3 @@
:root {
--nav-bar-label-height: 36px;
--nav-bar-widget-container-height: 36px;
--nav-bar-widget-container-margin: 4px;
--hic-scrollbar-height: 20px;
--hic-axis-height: 40px;
--track-margin: 2px;
--track-height: 36px;
--hic-viewport-width: 640px;
--hic-viewport-height: 640px;
--hic-viewport-spinner-size: 120px;
}

.jb-igv-menu-popup {
position: absolute;
top: 0;
Expand Down Expand Up @@ -146,6 +133,19 @@
background-color: rgb(209, 113, 5);
}

:root {
--nav-bar-label-height: 36px;
--nav-bar-widget-container-height: 36px;
--nav-bar-widget-container-margin: 4px;
--hic-scrollbar-height: 20px;
--hic-axis-height: 40px;
--track-margin: 2px;
--track-height: 36px;
--hic-viewport-width: 640px;
--hic-viewport-height: 640px;
--hic-viewport-spinner-size: 120px;
}

.hic-igv-right-hand-gutter {
position: absolute;
top: 0;
Expand Down Expand Up @@ -1103,6 +1103,25 @@ div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$
overflow-x: hidden;
overflow-y: hidden;
}
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=contact-map-canvas-container],
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=live-contact-map-canvas-container],
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=live-distance-map-canvas-container] {
position: absolute;
top: 0;
left: 0;
width: 100%;
height: 100%;
}
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=contact-map-canvas-container] canvas,
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=live-contact-map-canvas-container] canvas,
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=live-distance-map-canvas-container] canvas {
width: 100%;
height: 100%;
}
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=live-contact-map-canvas-container],
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=live-distance-map-canvas-container] {
display: none;
}
div[id$=content-container] div[id$=y-tracks-y-axis-viewport-y-scrollbar] div[id$=viewport] div[id$=viewport-spinner-container] {
display: table-cell;
margin: auto;
Expand Down Expand Up @@ -1265,6 +1284,4 @@ div[id$=content-container] div[id$=x-scrollbar-container] div[id$=x-axis-scrollb
.igv-trackgear-container:hover {
cursor: pointer;
color: #444;
}

/*# sourceMappingURL=juicebox.css.map */
}
2 changes: 1 addition & 1 deletion css/juicebox.css.map
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31 changes: 24 additions & 7 deletions css/juicebox.scss
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Original file line number Diff line number Diff line change
@@ -1,3 +1,10 @@
@use "igv-menu-popup" as * with (
$igv-trackgear-grey-color: #7F7F7F,
$igv-trackgear-popover-border-radius: 4px,
$igv-trackgear-font-color: #4b4b4b,
$igv-trackgear-default-font-face: ('Open Sans', sans-serif)
);

:root {
--nav-bar-label-height: 36px;
--nav-bar-widget-container-height: 36px;
Expand All @@ -23,11 +30,6 @@ $track-height: var(--track-height);
//
$hic-color-swatch-size: 24px;

$igv-trackgear-grey-color: #7F7F7F;
$igv-trackgear-popover-border-radius: 4px;
$igv-trackgear-font-color: #4b4b4b;
$igv-trackgear-default-font-face: 'Open Sans', sans-serif;

$nav-bar-widget-height: 24px;

// ::::::::::::::: Used by layoutController.js :::::::::::::::
Expand Down Expand Up @@ -76,8 +78,6 @@ $scrollbar-color: #efefef;

$default-font-family: 'Open Sans', sans-serif;

@import "igv-menu-popup";

@mixin x-scrollbar-label {
div {
display: inline-block;
Expand Down Expand Up @@ -1009,6 +1009,23 @@ div[id$="content-container"] {
height: 100%;
overflow-x: hidden;
overflow-y: hidden;
div[id$="contact-map-canvas-container"],
div[id$="live-contact-map-canvas-container"],
div[id$="live-distance-map-canvas-container"] {
position: absolute;
top: 0;
left: 0;
width: 100%;
height: 100%;
canvas {
width: 100%;
height: 100%;
}
}
div[id$="live-contact-map-canvas-container"],
div[id$="live-distance-map-canvas-container"] {
display: none;
}
div[id$="viewport-spinner-container"] {
display: table-cell;
margin: auto;
Expand Down
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