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❇️ Enhance Visualization with Patient ID and Drawing Tools #954

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❇️ Enhance Visualization with Patient ID and Drawing Tools #954

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ff95972
✨ Enhance Visualization with Patient ID and Drawing Tools
atomikkus Sep 12, 2025
4be6c68
Merge pull request #1 from atomikkus/new-main
atomikkus Sep 12, 2025
3bc2c22
Merge branch 'develop' into develop
shaneahmed Oct 3, 2025
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137 changes: 136 additions & 1 deletion tiatoolbox/data/visualization/templates/index.html
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Original file line number Diff line number Diff line change
Expand Up @@ -101,12 +101,59 @@
left: 6pt;
top: 116pt;
}
.patient-id {
position: absolute;
top: 10px;
left: 50%;
transform: translateX(-50%);
z-index: 2000;
background: #fff;
padding: 10px 24px;
border-radius: 8px;
box-shadow: 0 2px 8px rgba(0,0,0,0.10);
font-weight: bold;
font-size: 1.2em;
color: #333;
border: 1px solid #eee;
}
.icon-btn {
background: #fff;
border: 1px solid #eee;
border-radius: 50%;
width: 44px;
height: 44px;
display: flex;
align-items: center;
justify-content: center;
font-size: 1.5em;
color: #333;
box-shadow: 0 2px 8px rgba(0,0,0,0.10);
cursor: pointer;
transition: background 0.2s, color 0.2s;
outline: none;
position: relative;
}
.icon-btn:hover {
background: #f0f0f0;
color: #007bff;
}
.icon-btn:active {
background: #e0e0e0;
}
</style>
<title>{{ title }}</title>
</head>

<body>
{% if patient_id %}
<div class="patient-id">Patient ID: {{ patient_id }}</div>
{% endif %}
<div id="map" class="map" data-layers="{{ layers }}"></div>
<div id="toolbar" style="position:absolute;top:60px;left:50%;transform:translateX(-50%);z-index:2100;display:flex;gap:18px;align-items:center;">
<button id="measure-btn" class="icon-btn" title="Measure Distance"><i class="fas fa-ruler-horizontal"></i></button>
<button id="freehand-btn" class="icon-btn" title="Freehand Annotation"><i class="fas fa-pen"></i></button>
<button id="clear-btn" class="icon-btn" title="Clear Annotations"><i class="fas fa-trash"></i></button>
</div>
<script type="text/javascript">
layersData = JSON.parse(document.getElementById('map').dataset.layers);
var layers = layersData.map(function (layer) {
Expand All @@ -119,7 +166,6 @@
return new ol.layer.Tile({
title: layer.name,
source: source

});
});
var resolutions = layers[0].getSource().getTileGrid().getResolutions();
Expand Down Expand Up @@ -301,6 +347,95 @@
},
});
map.addControl(screenSpaceGraticuleToggle);
// --- Drawing Tools ---
var measureBtn = document.getElementById('measure-btn');
var freehandBtn = document.getElementById('freehand-btn');
var clearBtn = document.getElementById('clear-btn');
var drawLayer = new ol.layer.Vector({
source: new ol.source.Vector(),
style: function(feature) {
var styles = [
new ol.style.Style({
stroke: new ol.style.Stroke({
color: '#ff0000', width: 2
}),
image: new ol.style.Circle({
radius: 5,
fill: new ol.style.Fill({color: '#ff0000'})
}),
fill: new ol.style.Fill({color: 'rgba(255,0,0,0.1)'})
})
];
var geom = feature.getGeometry();
if (geom.getType() === 'LineString') {
var coords = geom.getCoordinates();
if (coords.length === 2) {
var dx = coords[1][0] - coords[0][0];
var dy = coords[1][1] - coords[0][1];
var pxDist = Math.sqrt(dx*dx + dy*dy);
var mpp = layersData[0].mpp; // microns per pixel
var mmDist = pxDist * mpp / 1000.0;
var label = mmDist.toFixed(2) + ' mm';
styles.push(new ol.style.Style({
text: new ol.style.Text({
text: label,
font: 'bold 16px Calibri,sans-serif',
fill: new ol.style.Fill({color: '#ff0000'}),
stroke: new ol.style.Stroke({color: '#fff', width: 3}),
offsetY: -10,
placement: 'line',
})
}));
}
}
return styles;
}
});
map.addLayer(drawLayer);
var measureDraw = null;
var freehandDraw = null;
function activateMeasure() {
if (measureDraw) map.removeInteraction(measureDraw);
measureDraw = new ol.interaction.Draw({
source: drawLayer.getSource(),
type: 'LineString',
maxPoints: 2
});
map.addInteraction(measureDraw);
measureDraw.on('drawend', function(evt) {
// allow multiple lines
setTimeout(function() {
map.removeInteraction(measureDraw);
measureDraw = null;
}, 100);
});
}
function activateFreehand() {
if (freehandDraw) map.removeInteraction(freehandDraw);
freehandDraw = new ol.interaction.Draw({
source: drawLayer.getSource(),
type: 'Polygon',
freehand: true
});
map.addInteraction(freehandDraw);
freehandDraw.on('drawend', function(evt) {
// allow multiple polygons
setTimeout(function() {
map.removeInteraction(freehandDraw);
freehandDraw = null;
}, 100);
});
}
measureBtn.addEventListener('click', function() {
activateMeasure();
});
freehandBtn.addEventListener('click', function() {
activateFreehand();
});
clearBtn.addEventListener('click', function() {
drawLayer.getSource().clear();
});
// --- End Drawing Tools ---
map.getView().fit(extent);
</script>
</body>
Expand Down
20 changes: 16 additions & 4 deletions tiatoolbox/visualization/bokeh_app/templates/index.html
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Original file line number Diff line number Diff line change
Expand Up @@ -33,7 +33,19 @@
.hidden {
display: none;
}

.patient-id {
position: absolute;
top: 10px;
left: 10px;
z-index: 1000;
background: #fff;
padding: 8px 16px;
border-radius: 6px;
box-shadow: 0 2px 8px rgba(0,0,0,0.08);
font-weight: bold;
font-size: 1.1em;
color: #333;
}
.popup {
position: absolute;
top: 30%;
Expand All @@ -45,7 +57,6 @@
justify-content: center;
align-items: center;
}

.popup-content {
background-color: white;
padding: 10px;
Expand All @@ -59,20 +70,21 @@
height: 75%;
overflow: auto;
}

.popup-header {
cursor: move;
user-select: none;
-webkit-user-select: none;
-moz-user-select: none;
-ms-user-select: none;
}

</style>
{% endblock %}

<!-- goes in body -->
{% block contents %}
{% if patient_id %}
<div class="patient-id">Patient ID: {{ patient_id }}</div>
{% endif %}
<div id="popup" class="popup">
<div class="popup-content hidden">
<div class="popup-header">
Expand Down
3 changes: 3 additions & 0 deletions tiatoolbox/visualization/tileserver.py
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Original file line number Diff line number Diff line change
Expand Up @@ -74,6 +74,7 @@ def __init__( # noqa: PLR0915
title: str,
layers: dict[str, WSIReader | str] | list[WSIReader | str],
renderer: AnnotationRenderer | None = None,
patient_id: str = None, # <-- add patient_id argument
) -> None:
"""Initialize :class:`TileServer`."""
super().__init__(
Expand All @@ -87,6 +88,7 @@ def __init__( # noqa: PLR0915
),
)
self.title = title
self.patient_id = patient_id # <-- store patient_id
self.layers = {}
self.pyramids = {}
self.renderer = renderer
Expand Down Expand Up @@ -370,6 +372,7 @@ def index(self: TileServer) -> str:
"index.html",
title=self.title,
layers=json.dumps(layers),
patient_id=self.patient_id, # <-- pass patient_id to template
)

def change_prop(self: TileServer) -> str:
Expand Down
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