leonarski_f
c916cf8b2d
Only the ~1800-image rotation dataset is kept in LFS; a separate ~5000-image serial set is too large to ship, and the serial path can be exercised by running the rotation series in serial mode if needed. Removes JFJochProcess_LysoSerial and the serial entry from the start-up listener and README. The rotation [large] test now runs against the committed data and passes. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
Large reference test datasets (git-LFS)
The [large] Catch tests in tests/ run the full analysis/processing pipeline over real
JUNGFRAU datasets that are too big to keep as ordinary git blobs. They are tracked with
git-LFS (see the tests/data/*.h5 rule in the top-level .gitattributes).
These files are not required to build or to run the normal test suite: every test that
needs them resolves the path through jfjoch_test::LargeDataFile() (tests/TestData.h) and
SKIP()s when the file is absent or is still an unfetched LFS pointer. jfjoch_test also
prints, at start-up, whether this directory is populated.
Fetching
git lfs install
git lfs pull # or: git lfs pull --include "tests/data/*.h5"
Datasets
| File | Dataset | Shipped |
|---|---|---|
lyso_rotation_master.h5 |
lysozyme rotation series (~1800 images) | yes (LFS) |
lyso_rotation_master.h5 (plus its _data_NNNNNN.h5 files) is fetched by git lfs pull and
drives JFJochProcess_LysoRotation. A separate serial dataset is intentionally not shipped
to keep the repository small — the rotation series can be run in serial mode (full analysis
without rotation indexing) to exercise that path. To add your own dataset, drop the master + its
data files here as real files (not symlinks, if you intend to commit them via LFS); the master
references its data files by relative name, so keep them side by side.