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Umbilici 1.10.0 from Scrolls main 50020b3a452eb431f739185e7e725c57f5987671, lines from center lines v2.6.1 (51603382)

3def64b verified 7 days ago

17.1 kB

<section class="scc" id="connect" aria-label="Connect your tool"><style>.scc{--a:var(--scc-accent,#4ea8de);color:inherit;font:inherit;line-height:1.5;max-width:60rem}
.scc h2{font-size:1.15em;margin:.2em 0 .3em}.scc h3{font-size:1em;margin:0 0 .2em}
.scc p{margin:.3em 0}.scc a{color:var(--a)}
.scc .scc-src{border:1px solid color-mix(in srgb,currentColor 18%,transparent);border-radius:10px;padding:.7em .9em;margin:.7em 0;background:color-mix(in srgb,currentColor 4%,transparent)}
.scc .scc-meta{font-size:.85em;opacity:.8}
.scc details{border-top:1px solid color-mix(in srgb,currentColor 12%,transparent);padding:.35em 0}
.scc summary{cursor:pointer;font-weight:600;list-style-position:inside}
.scc .scc-b{font-weight:400;font-size:.75em;padding:.05em .5em;border-radius:99px;margin-left:.5em;border:1px solid currentColor;opacity:.75;white-space:nowrap}
.scc .scc-b.ok{color:#3fb37f}.scc .scc-b.src{color:var(--a)}.scc .scc-b.warn{color:#e0a030}
.scc .scc-code{position:relative;margin:.4em 0 .2em}
.scc pre{margin:0;padding:.7em .8em;border-radius:8px;overflow:auto;font-size:.82em;background:color-mix(in srgb,currentColor 9%,transparent);white-space:pre}
.scc code{font-family:ui-monospace,SFMono-Regular,Menlo,Consolas,monospace}
.scc button.scc-copy{all:unset;box-sizing:border-box;position:absolute;top:.35em;right:.35em;font-size:.75em;line-height:1.4;padding:.1em .6em;border-radius:6px;border:1px solid color-mix(in srgb,currentColor 30%,transparent);background:color-mix(in srgb,currentColor 8%,transparent);color:inherit;cursor:pointer}
.scc button.scc-copy:hover{border-color:var(--a)}
.scc .scc-url{position:relative}.scc .scc-url pre{padding-right:4.5em;white-space:pre-wrap;word-break:break-all}
.scc .scc-go{display:inline-block;margin:.3em 0;padding:.25em .8em;border-radius:6px;border:1px solid var(--a);text-decoration:none}
.scc footer{font-size:.8em;opacity:.75;margin-top:.6em}</style>
<h2>Connect your tool</h2>
<p>Every center line, CT scan and lasagna field on this page reads straight from these URLs, with no account and no download step. Each scan card also has its own OME-Zarr URL and an Open in neuroglancer link.</p>
<div class="scc-src" id="connect-lines"><h3>Center lines (every line, every scan)</h3>
<p class="scc-meta">CC BY-NC 4.0 bundle; each file keeps its own license (MIT, CC BY 4.0 or CC BY-NC 4.0, listed in index.json) · Files under lines/ are in VC3D&#x27;s umbilicus JSON format, level-0 voxels (x, y, z).</p>
<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://huggingface.co/datasets/SharpMeow/vesuvius-center-lines</code></pre></div>
<details><summary>Python (huggingface_hub)<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install huggingface_hub
from huggingface_hub import hf_hub_download, snapshot_download

path = hf_hub_download(&quot;SharpMeow/vesuvius-center-lines&quot;, &quot;index.json&quot;, repo_type=&quot;dataset&quot;)  # one file, cached
folder = snapshot_download(&quot;SharpMeow/vesuvius-center-lines&quot;, repo_type=&quot;dataset&quot;)</code></pre></div></details>
<details><summary>Python (datasets)<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install datasets
from datasets import load_dataset

lines = load_dataset(&quot;SharpMeow/vesuvius-center-lines&quot;, &quot;lines&quot;, split=&quot;train&quot;)
points = load_dataset(&quot;SharpMeow/vesuvius-center-lines&quot;, &quot;points&quot;, split=&quot;train&quot;)</code></pre></div></details>
<details><summary>pandas<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install pandas huggingface_hub
import pandas as pd

df = pd.read_json(&quot;hf://datasets/SharpMeow/vesuvius-center-lines/tables/points.jsonl&quot;, lines=True)</code></pre></div></details>
<details><summary>Command line (hf)<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>pip install -U huggingface_hub
hf download SharpMeow/vesuvius-center-lines index.json --repo-type dataset --local-dir vesuvius-center-lines</code></pre></div></details>
<details><summary>curl<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>curl -L -O https://huggingface.co/datasets/SharpMeow/vesuvius-center-lines/resolve/main/index.json</code></pre></div></details>
</div>
<div class="scc-src" id="connect-ct"><h3>X-ray CT, example PHerc0125 (each scan card has its own URL)</h3>
<p class="scc-meta">CC BY-NC 4.0 (Vesuvius Challenge open data) · Read live from the open-data bucket, never copied here. uint8, 128^3 chunks, no compressor, 6 levels. · <a href="https://scrollprize.org/data_browser/PHerc0125" target="_blank" rel="noopener">browse</a></p>
<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr</code></pre></div>
<details><summary>Python (zarr)<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install &quot;zarr&gt;=3&quot; fsspec aiohttp
import zarr

root = zarr.open_group(&quot;https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr&quot;, mode=&quot;r&quot;)  # OME-Zarr, zarr v2
a = root[&quot;2&quot;]  # level 0 is full resolution; level L is 2**L times coarser
print(a.shape, a.dtype, a.chunks)
block = a[2600:2664, 1000:1064, 1000:1064]  # (z, y, x); reads only the chunks it touches</code></pre></div></details>
<details><summary>villa&#x27;s vesuvius package<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install &quot;vesuvius[volume-only]&quot;
from vesuvius import Volume

v = Volume(type=&quot;zarr&quot;, path=&quot;https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr/2&quot;)  # one pyramid level
block = v[2600:2664, 1000:1064, 1000:1064]</code></pre></div></details>
<details><summary>VC3D<span class="scc-b src">from villa&#x27;s source</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>In VC3D (villa&#x27;s volume-cartographer), open or create a project, then
File &gt; Attach Remote Zarr... and paste:

https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr

It accepts http, https and s3 OME-Zarr roots.</code></pre></div></details>
<details><summary>neuroglancer<span class="scc-b ok">tested 2026-10-24</span></summary>
<a class="scc-go" href="https://neuroglancer-demo.appspot.com/#!%7B%22layers%22%3A%5B%7B%22type%22%3A%22image%22%2C%22source%22%3A%22zarr%3A%2F%2Fhttps%3A%2F%2Fvesuvius-challenge-open-data.s3.us-east-1.amazonaws.com%2FPHerc0125%2Fvolumes%2F20250821151825-9.362um-1.2m-113keV-masked.zarr%2F%22%2C%22name%22%3A%22X-ray%20CT%2C%20example%20PHerc0125%20%28each%20scan%20card%20has%20its%20own%20URL%29%22%7D%5D%2C%22layout%22%3A%224panel%22%7D" target="_blank" rel="noopener">Open in neuroglancer</a>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://neuroglancer-demo.appspot.com/#!%7B%22layers%22%3A%5B%7B%22type%22%3A%22image%22%2C%22source%22%3A%22zarr%3A%2F%2Fhttps%3A%2F%2Fvesuvius-challenge-open-data.s3.us-east-1.amazonaws.com%2FPHerc0125%2Fvolumes%2F20250821151825-9.362um-1.2m-113keV-masked.zarr%2F%22%2C%22name%22%3A%22X-ray%20CT%2C%20example%20PHerc0125%20%28each%20scan%20card%20has%20its%20own%20URL%29%22%7D%5D%2C%22layout%22%3A%224panel%22%7D</code></pre></div></details>
<details><summary>curl<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>curl -s https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr/.zattrs            # OME multiscales metadata
curl -s https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr/2/.zarray     # one level: shape, chunks, dtype, codec</code></pre></div></details>
</div>
<div class="scc-src" id="connect-lasagna"><h3>Lasagna field, PHerc0175A</h3>
<p class="scc-meta">CC BY-NC 4.0 · villa lasagna predict3d output (scrollprize/lasagna); model output, not checked by eye.</p>
<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://huggingface.co/datasets/SharpMeow/pherc0175a-lasagna</code></pre></div>
<details><summary>Python (huggingface_hub)<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install huggingface_hub
from huggingface_hub import hf_hub_download, snapshot_download

path = hf_hub_download(&quot;SharpMeow/pherc0175a-lasagna&quot;, &quot;README.md&quot;, repo_type=&quot;dataset&quot;)  # one file, cached
folder = snapshot_download(&quot;SharpMeow/pherc0175a-lasagna&quot;, repo_type=&quot;dataset&quot;)  # large; allow_patterns=[...] fetches part of it</code></pre></div></details>
<details><summary>Command line (hf)<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>pip install -U huggingface_hub
hf download SharpMeow/pherc0175a-lasagna README.md --repo-type dataset --local-dir pherc0175a-lasagna</code></pre></div></details>
<details><summary>curl<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>curl -L -O https://huggingface.co/datasets/SharpMeow/pherc0175a-lasagna/resolve/main/README.md</code></pre></div></details>
</div>
<div class="scc-src" id="connect-fields"><h3>Lasagna fields, ten scans</h3>
<p class="scc-meta">CC BY-NC 4.0 · villa lasagna predict3d output (model output) for ten scans, public and read live: each scan&#x27;s cos, grad_mag, nx and ny fields as OME-Zarr plus a SCAN.lasagna.json for VC3D&#x27;s Attach Remote Lasagna Manifest. That Space has its own Connect your tool section.</p>
<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://huggingface.co/spaces/SharpMeow/lasagna-fields</code></pre></div>
<details><summary>Links and embed<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>Lasagna Fields: every field&#x27;s OME-Zarr URL, VC3D manifest and tested snippets: https://huggingface.co/spaces/SharpMeow/lasagna-fields</code></pre></div></details>
</div>
<div class="scc-src" id="connect-page"><h3>This page&#x27;s own data and API</h3>
<p class="scc-meta">Page code Apache 2.0; data as above · In a browser or headless Chromium, window.umbilici has scans(), lines(scroll), at(scroll, z), csv(...) and more (Guide, For researchers).</p>
<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://sharpmeow-umbilici.static.hf.space/</code></pre></div>
<details><summary>Links and embed<span class="scc-b ok">tested 2026-10-24</span></summary>
<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>Every line, scan and CT pyramid as one JSON: https://huggingface.co/spaces/SharpMeow/umbilici/resolve/main/data/lines.json
Open a scan in a given mode and height: https://sharpmeow-umbilici.static.hf.space/?mode=scan&amp;scan=PHerc0191&amp;z=10400
Page source and build scripts: https://huggingface.co/spaces/SharpMeow/umbilici/tree/main</code></pre></div></details>
</div>
<footer>Machine-readable: <a href="https://huggingface.co/spaces/SharpMeow/umbilici/blob/main/connect.json" target="_blank" rel="noopener">connect.json</a> and <a href="https://huggingface.co/spaces/SharpMeow/umbilici/blob/main/CONNECT.md" target="_blank" rel="noopener">CONNECT.md</a>. Checked 2026-10-24. "Tested" means the snippet ran against this public data on that date. Scan data keeps its own license (the Vesuvius Challenge open data is CC BY-NC 4.0).</footer></section>

	<section class="scc" id="connect" aria-label="Connect your tool"><style>.scc{--a:var(--scc-accent,#4ea8de);color:inherit;font:inherit;line-height:1.5;max-width:60rem}
	.scc h2{font-size:1.15em;margin:.2em 0 .3em}.scc h3{font-size:1em;margin:0 0 .2em}
	.scc p{margin:.3em 0}.scc a{color:var(--a)}
	.scc .scc-src{border:1px solid color-mix(in srgb,currentColor 18%,transparent);border-radius:10px;padding:.7em .9em;margin:.7em 0;background:color-mix(in srgb,currentColor 4%,transparent)}
	.scc .scc-meta{font-size:.85em;opacity:.8}
	.scc details{border-top:1px solid color-mix(in srgb,currentColor 12%,transparent);padding:.35em 0}
	.scc summary{cursor:pointer;font-weight:600;list-style-position:inside}
	.scc .scc-b{font-weight:400;font-size:.75em;padding:.05em .5em;border-radius:99px;margin-left:.5em;border:1px solid currentColor;opacity:.75;white-space:nowrap}
	.scc .scc-b.ok{color:#3fb37f}.scc .scc-b.src{color:var(--a)}.scc .scc-b.warn{color:#e0a030}
	.scc .scc-code{position:relative;margin:.4em 0 .2em}
	.scc pre{margin:0;padding:.7em .8em;border-radius:8px;overflow:auto;font-size:.82em;background:color-mix(in srgb,currentColor 9%,transparent);white-space:pre}
	.scc code{font-family:ui-monospace,SFMono-Regular,Menlo,Consolas,monospace}
	.scc button.scc-copy{all:unset;box-sizing:border-box;position:absolute;top:.35em;right:.35em;font-size:.75em;line-height:1.4;padding:.1em .6em;border-radius:6px;border:1px solid color-mix(in srgb,currentColor 30%,transparent);background:color-mix(in srgb,currentColor 8%,transparent);color:inherit;cursor:pointer}
	.scc button.scc-copy:hover{border-color:var(--a)}
	.scc .scc-url{position:relative}.scc .scc-url pre{padding-right:4.5em;white-space:pre-wrap;word-break:break-all}
	.scc .scc-go{display:inline-block;margin:.3em 0;padding:.25em .8em;border-radius:6px;border:1px solid var(--a);text-decoration:none}
	.scc footer{font-size:.8em;opacity:.75;margin-top:.6em}</style>
	<h2>Connect your tool</h2>
	<p>Every center line, CT scan and lasagna field on this page reads straight from these URLs, with no account and no download step. Each scan card also has its own OME-Zarr URL and an Open in neuroglancer link.</p>
	<div class="scc-src" id="connect-lines"><h3>Center lines (every line, every scan)</h3>
	<p class="scc-meta">CC BY-NC 4.0 bundle; each file keeps its own license (MIT, CC BY 4.0 or CC BY-NC 4.0, listed in index.json) · Files under lines/ are in VC3D's umbilicus JSON format, level-0 voxels (x, y, z).</p>
	<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://huggingface.co/datasets/SharpMeow/vesuvius-center-lines</code></pre></div>
	<details><summary>Python (huggingface_hub)<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install huggingface_hub
	from huggingface_hub import hf_hub_download, snapshot_download

	path = hf_hub_download("SharpMeow/vesuvius-center-lines", "index.json", repo_type="dataset") # one file, cached
	folder = snapshot_download("SharpMeow/vesuvius-center-lines", repo_type="dataset")</code></pre></div></details>
	<details><summary>Python (datasets)<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install datasets
	from datasets import load_dataset

	lines = load_dataset("SharpMeow/vesuvius-center-lines", "lines", split="train")
	points = load_dataset("SharpMeow/vesuvius-center-lines", "points", split="train")</code></pre></div></details>
	<details><summary>pandas<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install pandas huggingface_hub
	import pandas as pd

	df = pd.read_json("hf://datasets/SharpMeow/vesuvius-center-lines/tables/points.jsonl", lines=True)</code></pre></div></details>
	<details><summary>Command line (hf)<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>pip install -U huggingface_hub
	hf download SharpMeow/vesuvius-center-lines index.json --repo-type dataset --local-dir vesuvius-center-lines</code></pre></div></details>
	<details><summary>curl<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>curl -L -O https://huggingface.co/datasets/SharpMeow/vesuvius-center-lines/resolve/main/index.json</code></pre></div></details>
	</div>
	<div class="scc-src" id="connect-ct"><h3>X-ray CT, example PHerc0125 (each scan card has its own URL)</h3>
	<p class="scc-meta">CC BY-NC 4.0 (Vesuvius Challenge open data) · Read live from the open-data bucket, never copied here. uint8, 128^3 chunks, no compressor, 6 levels. · <a href="https://scrollprize.org/data_browser/PHerc0125" target="_blank" rel="noopener">browse</a></p>
	<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr</code></pre></div>
	<details><summary>Python (zarr)<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install "zarr>=3" fsspec aiohttp
	import zarr

	root = zarr.open_group("https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr", mode="r") # OME-Zarr, zarr v2
	a = root["2"] # level 0 is full resolution; level L is 2**L times coarser
	print(a.shape, a.dtype, a.chunks)
	block = a[2600:2664, 1000:1064, 1000:1064] # (z, y, x); reads only the chunks it touches</code></pre></div></details>
	<details><summary>villa's vesuvius package<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install "vesuvius[volume-only]"
	from vesuvius import Volume

	v = Volume(type="zarr", path="https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr/2") # one pyramid level
	block = v[2600:2664, 1000:1064, 1000:1064]</code></pre></div></details>
	<details><summary>VC3D<span class="scc-b src">from villa's source</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>In VC3D (villa's volume-cartographer), open or create a project, then
	File > Attach Remote Zarr... and paste:

	https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr

	It accepts http, https and s3 OME-Zarr roots.</code></pre></div></details>
	<details><summary>neuroglancer<span class="scc-b ok">tested 2026-10-24</span></summary>
	<a class="scc-go" href="https://neuroglancer-demo.appspot.com/#!%7B%22layers%22%3A%5B%7B%22type%22%3A%22image%22%2C%22source%22%3A%22zarr%3A%2F%2Fhttps%3A%2F%2Fvesuvius-challenge-open-data.s3.us-east-1.amazonaws.com%2FPHerc0125%2Fvolumes%2F20250821151825-9.362um-1.2m-113keV-masked.zarr%2F%22%2C%22name%22%3A%22X-ray%20CT%2C%20example%20PHerc0125%20%28each%20scan%20card%20has%20its%20own%20URL%29%22%7D%5D%2C%22layout%22%3A%224panel%22%7D" target="_blank" rel="noopener">Open in neuroglancer</a>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://neuroglancer-demo.appspot.com/#!%7B%22layers%22%3A%5B%7B%22type%22%3A%22image%22%2C%22source%22%3A%22zarr%3A%2F%2Fhttps%3A%2F%2Fvesuvius-challenge-open-data.s3.us-east-1.amazonaws.com%2FPHerc0125%2Fvolumes%2F20250821151825-9.362um-1.2m-113keV-masked.zarr%2F%22%2C%22name%22%3A%22X-ray%20CT%2C%20example%20PHerc0125%20%28each%20scan%20card%20has%20its%20own%20URL%29%22%7D%5D%2C%22layout%22%3A%224panel%22%7D</code></pre></div></details>
	<details><summary>curl<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>curl -s https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr/.zattrs # OME multiscales metadata
	curl -s https://vesuvius-challenge-open-data.s3.us-east-1.amazonaws.com/PHerc0125/volumes/20250821151825-9.362um-1.2m-113keV-masked.zarr/2/.zarray # one level: shape, chunks, dtype, codec</code></pre></div></details>
	</div>
	<div class="scc-src" id="connect-lasagna"><h3>Lasagna field, PHerc0175A</h3>
	<p class="scc-meta">CC BY-NC 4.0 · villa lasagna predict3d output (scrollprize/lasagna); model output, not checked by eye.</p>
	<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://huggingface.co/datasets/SharpMeow/pherc0175a-lasagna</code></pre></div>
	<details><summary>Python (huggingface_hub)<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code># pip install huggingface_hub
	from huggingface_hub import hf_hub_download, snapshot_download

	path = hf_hub_download("SharpMeow/pherc0175a-lasagna", "README.md", repo_type="dataset") # one file, cached
	folder = snapshot_download("SharpMeow/pherc0175a-lasagna", repo_type="dataset") # large; allow_patterns=[...] fetches part of it</code></pre></div></details>
	<details><summary>Command line (hf)<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>pip install -U huggingface_hub
	hf download SharpMeow/pherc0175a-lasagna README.md --repo-type dataset --local-dir pherc0175a-lasagna</code></pre></div></details>
	<details><summary>curl<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>curl -L -O https://huggingface.co/datasets/SharpMeow/pherc0175a-lasagna/resolve/main/README.md</code></pre></div></details>
	</div>
	<div class="scc-src" id="connect-fields"><h3>Lasagna fields, ten scans</h3>
	<p class="scc-meta">CC BY-NC 4.0 · villa lasagna predict3d output (model output) for ten scans, public and read live: each scan's cos, grad_mag, nx and ny fields as OME-Zarr plus a SCAN.lasagna.json for VC3D's Attach Remote Lasagna Manifest. That Space has its own Connect your tool section.</p>
	<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://huggingface.co/spaces/SharpMeow/lasagna-fields</code></pre></div>
	<details><summary>Links and embed<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>Lasagna Fields: every field's OME-Zarr URL, VC3D manifest and tested snippets: https://huggingface.co/spaces/SharpMeow/lasagna-fields</code></pre></div></details>
	</div>
	<div class="scc-src" id="connect-page"><h3>This page's own data and API</h3>
	<p class="scc-meta">Page code Apache 2.0; data as above · In a browser or headless Chromium, window.umbilici has scans(), lines(scroll), at(scroll, z), csv(...) and more (Guide, For researchers).</p>
	<div class="scc-url"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>https://sharpmeow-umbilici.static.hf.space/</code></pre></div>
	<details><summary>Links and embed<span class="scc-b ok">tested 2026-10-24</span></summary>
	<div class="scc-code"><button type="button" class="scc-copy" data-testid="connect-copy" onclick="navigator.clipboard&&navigator.clipboard.writeText(this.parentNode.querySelector('code').innerText).then(()=>{this.textContent='Copied';setTimeout(()=>this.textContent='Copy',1200)})">Copy</button><pre><code>Every line, scan and CT pyramid as one JSON: https://huggingface.co/spaces/SharpMeow/umbilici/resolve/main/data/lines.json
	Open a scan in a given mode and height: https://sharpmeow-umbilici.static.hf.space/?mode=scan&scan=PHerc0191&z=10400
	Page source and build scripts: https://huggingface.co/spaces/SharpMeow/umbilici/tree/main</code></pre></div></details>
	</div>
	<footer>Machine-readable: <a href="https://huggingface.co/spaces/SharpMeow/umbilici/blob/main/connect.json" target="_blank" rel="noopener">connect.json</a> and <a href="https://huggingface.co/spaces/SharpMeow/umbilici/blob/main/CONNECT.md" target="_blank" rel="noopener">CONNECT.md</a>. Checked 2026-10-24. "Tested" means the snippet ran against this public data on that date. Scan data keeps its own license (the Vesuvius Challenge open data is CC BY-NC 4.0).</footer></section>