waterloo-femoralvein (renamed from waterloo-largeartery): sync data card, pipeline grid and figures with GitHub

#47

This PR renames the dataset waterloo-largeartery → waterloo-femoralvein. The whole folder moves: the 15 HDF5 acquisitions are copied unchanged (server-side, identical LFS hashes) to waterloo-femoralvein/data/ and waterloo-largeartery/ is removed. After merging, hf://nvidia/OpenH-RF/waterloo-largeartery/... paths no longer resolve; use waterloo-femoralvein/. See the last update below.

Syncs the waterloo-femoralvein (UW-FemVein RF) card, pipeline and figures on the Hub with the reviewed state on GitHub (open-h/OpenH-RF).

The frame counts were wrong. The card said 24,000 frames per acquisition and a 360,000-frame total; the release is 15 acquisitions of 12,000 frames, which is 180,000 frames.

pipeline.yaml gains the explicit grid the reference reconstruction uses, so zea no longer falls back to an aperture-wide, full-depth default.

Adds the two figures the card shows: assets/Acq5.gif, the cine loop the card now leads with, and assets/reconstruct_output.png, the reference reconstruction, which was linked at the folder root and so was broken here. The card also gains the zea process one-liner that renders Acq5.hdf5 straight from the Hub.

One link is dropped: convert.py is not published in either repository, so the LITMUS pipeline paragraph no longer links it.

GitHub PR:

Files changed: 4.

+ waterloo-femoralvein/assets/Acq5.gif
+ waterloo-femoralvein/assets/reconstruct_output.png
~ waterloo-femoralvein/README.md
~ waterloo-femoralvein/pipeline.yaml

Update — common card layout. The card now follows the layout shared by every OpenH-RF dataset: frontmatter with a name, a stand-alone title, the hero image with an italic caption linking the sample it shows, Description, Contributor(s), Creation Date and the standard CC BY 4.0 text, then a new Processing the Dataset section (the zea process command where the pipeline carries the whole reconstruction, and the reconstruct.py link) followed by Dataset Format, which opens with the zea version. Hard line breaks are gone so the Hub wraps paragraphs itself; the longer sections keep their content.

The two overlapping opening paragraphs are merged into one.

GitHub PRs:

Files changed: 1.

~ waterloo-femoralvein/README.md

Update — rename to waterloo-femoralvein + Waterloo team revisions. The dataset is renamed waterloo-femoralvein to match its content (femoral vein, UW-FemVein RF). All files move from waterloo-largeartery/ to waterloo-femoralvein/; the 15 HDF5 files are unchanged. The card's name, sample link, zea process command and reconstruct.py link use the new path.

The team also revised the card and figures. The hero is now a vector-flow cine loop of Acq0.hdf5 (was Acq5.hdf5). The "Shipped Example Acquisitions" section, which described local hdf5/ example files not in this release, is removed, as requested above. Tx/Rx angles gain units. pipeline.yaml extends the depth to 60 mm (zlims 10–60 mm, 381 × 501 grid, still 0.1 mm isotropic). assets/reconstruct_output.png is re-rendered and assets/main.png (release image) is added.

GitHub PRs:

Files changed: 20 + 15 moved.

+ waterloo-femoralvein/README.md
+ waterloo-femoralvein/pipeline.yaml
+ waterloo-femoralvein/assets/Acq0.gif
+ waterloo-femoralvein/assets/main.png
+ waterloo-femoralvein/assets/reconstruct_output.png
- waterloo-largeartery/README.md
- waterloo-largeartery/pipeline.yaml
- waterloo-largeartery/assets/Acq5.gif
- waterloo-largeartery/assets/reconstruct_output.png
R waterloo-largeartery/data/*.hdf5 → waterloo-femoralvein/data/*.hdf5  (15 files, unchanged)
NVIDIA org

I think this section should be removed:

One example acquisition is included under hdf5/ as a representative subset of the full dataset:

File Subject Anatomy View Condition Frames
hdf5/Acq0.hdf5 1 Femoral Vein Longitudinal Contraction 8Kg HUT 40 9000-12000

Each femoral vein acquisition comprises 2 steered plane-wave transmits (n_tx = 2), 2048/3072 axial samples, and 192 receive channels. Note that example provided was convrted with start-frame=9000 to get to the interesting part.

Yes, Waterloo is working on this submission as we speak and has already removed the above segment! Will update this PR once we finalize there.

tristan-deep changed pull request title from waterloo-largeartery: sync data card, pipeline grid and figures with GitHub to waterloo-femoralvein (renamed from waterloo-largeartery): sync data card, pipeline grid and figures with GitHub

nice.

wsimson changed pull request status to merged

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