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Colorbar not shown for image #304

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Colorbar not shown for image#304
#346
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melonora
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images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium

Description

@LucaMarconato
LucaMarconato
opened on Jul 14, 2024

I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().

I am currently using the workaround shown in the code to fix this.

##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()

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try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
    Skip to content
    Colorbar not shown for image #304
    Closed
    #346
    Closed
    Colorbar not shown for image#304
    #346
    Assignees
    melonora
    Labels
    images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
    Description
    @LucaMarconato
    LucaMarconato
    opened on Jul 14, 2024
    I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
    I am currently using the workaround shown in the code to fix this.
    ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Force GitHub README to respect dark mode
(function() {
var style = document.createElement('style');
style.textContent = '
.markdown-body {
color-scheme: dark light;
}
.markdown-body pre { background: #161b22 !important; }
.markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }
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.markdown-body hr { border-color: #30363d; }
';
document.head.appendChild(style);
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} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
      Skip to content
      Colorbar not shown for image #304
      Closed
      #346
      Closed
      Colorbar not shown for image#304
      #346
      Assignees
      melonora
      Labels
      images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
      Description
      @LucaMarconato
      LucaMarconato
      opened on Jul 14, 2024
      I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
      I am currently using the workaround shown in the code to fix this.
      ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Highlight search terms from Google/DuckDuckGo/Bing referrer
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var ref = document.referrer;
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mutations.forEach(function(m) {
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observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
        Skip to content
        Colorbar not shown for image #304
        Closed
        #346
        Closed
        Colorbar not shown for image#304
        #346
        Assignees
        melonora
        Labels
        images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
        Description
        @LucaMarconato
        LucaMarconato
        opened on Jul 14, 2024
        I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
        I am currently using the workaround shown in the code to fix this.
        ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Strip utm_, fbclid, gclid, etc. from all links on page
(function() {
var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',
'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',
'ref', 'ref_src', 'source', 'medium', 'campaign'];
function cleanUrl(url) {
try {
var u = new URL(url, window.location.origin);
var changed = false;
trackingParams.forEach(function(p) {
if (u.searchParams.has(p)) {
u.searchParams.delete(p);
changed = true;
}
});
return changed ? u.toString() : url;
} catch (e) {
return url;
}
}
function cleanLinks() {
document.querySelectorAll('a[href]').forEach(function(a) {
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if (clean !== a.href) a.href = clean;
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mutations.forEach(function(m) {
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if (clean !== a.href) a.href = clean;
});
}
});
});
});
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
          Skip to content
          Colorbar not shown for image #304
          Closed
          #346
          Closed
          Colorbar not shown for image#304
          #346
          Assignees
          melonora
          Labels
          images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
          Description
          @LucaMarconato
          LucaMarconato
          opened on Jul 14, 2024
          I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
          I am currently using the workaround shown in the code to fix this.
          ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Auto-enable theater mode on YouTube
(function() {
function tryTheater() {
var btn = document.querySelector('button[aria-label="Theater mode"], ytd-player #player button[title="Theater mode"]');
if (btn && !btn.classList.contains('activated')) {
btn.click();
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tryTheater();
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var lastUrl = location.href;
setInterval(function() {
if (location.href !== lastUrl) {
lastUrl = location.href;
setTimeout(tryTheater, 500);
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observer.observe(document.body, { childList: true, subtree: true });
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})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
            Skip to content
            Colorbar not shown for image #304
            Closed
            #346
            Closed
            Colorbar not shown for image#304
            #346
            Assignees
            melonora
            Labels
            images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
            Description
            @LucaMarconato
            LucaMarconato
            opened on Jul 14, 2024
            I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
            I am currently using the workaround shown in the code to fix this.
            ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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              None yet
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Remove or un-stick sticky/fixed headers that block content
(function() {
function unstick() {
document.querySelectorAll('header, nav, [role="banner"], .header, .navbar, .sticky, .fixed-top, [style*="position: fixed"], [style*="position:sticky"]').forEach(function(el) {
if (el.style.position === 'fixed' || el.style.position === 'sticky' || getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {
el.style.position = 'static';
el.style.top = 'auto';
el.style.zIndex = 'auto';
}
});
}
unstick();
var observer = new MutationObserver(unstick);
observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });
})();
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
              Skip to content
              Colorbar not shown for image #304
              Closed
              #346
              Closed
              Colorbar not shown for image#304
              #346
              Assignees
              melonora
              Labels
              images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
              Description
              @LucaMarconato
              LucaMarconato
              opened on Jul 14, 2024
              I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
              I am currently using the workaround shown in the code to fix this.
              ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Universal Dark Mode - works on any site
(function() {
var enabled = true;
function applyDarkMode() {
if (!enabled) return;
// Create style element if it doesn't exist
var style = document.getElementById('universal-dark-mode-style');
if (!style) {
style = document.createElement('style');
style.id = 'universal-dark-mode-style';
document.head.appendChild(style);
}
// Dark mode CSS - inverts colors but preserves images/video
style.textContent = '
/* Invert everything except media */
html {
filter: invert(1) hue-rotate(180deg) !important;
background: #1a1a2e !important;
}
/* Restore images, videos, iframes, canvas */
img, video, iframe, canvas, svg, picture, [style*="background-image"] {
filter: invert(1) hue-rotate(180deg) !important;
}
/* Preserve specific elements that should not be inverted */
.no-dark-mode, .no-dark-mode *,
[data-theme="light"], [data-theme="light"],
.ace_editor, .ace_editor *,
.CodeMirror, .CodeMirror *,
.monaco-editor, .monaco-editor *,
.markdown-body pre, .markdown-body pre *,
.highlight, .highlight *,
pre code, pre code * {
filter: none !important;
}
/* Fix common UI elements */
.modal, .popup, .dropdown-menu, .tooltip, .popover {
filter: invert(1) hue-rotate(180deg) !important;
background: #2d2d44 !important;
border-color: #444 !important;
}
/* Scrollbars */
::-webkit-scrollbar { background: #1a1a2e !important; }
::-webkit-scrollbar-thumb { background: #444 !important; }
::-webkit-scrollbar-thumb:hover { background: #555 !important; }
/* Selection */
::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }
::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }
';
}
function removeDarkMode() {
var style = document.getElementById('universal-dark-mode-style');
if (style) style.remove();
}
// Toggle with Alt+Shift+D
document.addEventListener('keydown', function(e) {
if (e.altKey && e.shiftKey && e.key === 'D') {
e.preventDefault();
enabled = !enabled;
if (enabled) {
applyDarkMode();
console.log('[Universal Dark Mode] Enabled');
} else {
removeDarkMode();
console.log('[Universal Dark Mode] Disabled');
}
}
});
// Apply on load
applyDarkMode();
// Re-apply on dynamic content
var observer = new MutationObserver(function(mutations) {
if (enabled && !document.getElementById('universal-dark-mode-style')) {
applyDarkMode();
}
});
observer.observe(document.head, { childList: true });
console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');
})();
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();
Colorbar not shown for image · Issue #304 · scverse/spatialdata-plot · GitHub
                Skip to content
                Colorbar not shown for image #304
                Closed
                #346
                Closed
                Colorbar not shown for image#304
                #346
                Assignees
                melonora
                Labels
                images 🖼️Anything related to Imagesneeds infoNeeds additional informationpriority: medium
                Description
                @LucaMarconato
                LucaMarconato
                opened on Jul 14, 2024
                I am plotting an image and no colorbar is display, even if colorbar should default to True in pl.show().
                I am currently using the workaround shown in the code to fix this.
                ##fromspatialdata.datasetsimportblobsimportspatialdata_plotimportmatplotlib.colorsimportmatplotlib.pyplotaspltsdata=blobs()
sdata['single_channel'] =sdata['blobs_image'].sel(c=slice(0, 0))
sdata.pl.render_images('single_channel').pl.show()
# workaroundax=plt.gca()
data=sdata['single_channel'].valuesnorm=matplotlib.colors.Normalize(vmin=data.min(), vmax=data.max())
mappable=plt.cm.ScalarMappable(cmap='viridis', norm=norm)
plt.colorbar(mappable, ax=ax)
plt.show()
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