leonarski_fandClaude Opus 4.8
39599bc090
- .gitattributes tracks tests/data/*.h5 via git-LFS for big reference datasets. - tests/TestData.h resolves tests/data files and reports absent / unfetched-LFS-pointer so tests can SKIP() instead of failing; tests/data/README.md documents fetching + the expected lyso_rotation/lyso_serial datasets. - JFJochProcessLargeTest: a Catch start-up listener that prints dataset availability, plus [large] full-analysis runs (rotation indexing + serial) that SKIP when data is absent. Verified against the real 1800-image lyso rotation set (100% indexing, cell 78.2/78.2/37.8) and skips cleanly without it. - jfjoch_process.cpp: drop the ~15 now-unused workflow includes left after the JFJochProcess extraction. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
36 lines
1.4 KiB
Markdown
36 lines
1.4 KiB
Markdown
# Large reference test datasets (git-LFS)
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The `[large]` Catch tests in `tests/` run the full analysis/processing pipeline over real
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JUNGFRAU datasets that are too big to keep as ordinary git blobs. They are tracked with
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**git-LFS** (see the `tests/data/*.h5` rule in the top-level `.gitattributes`).
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These files are **not required** to build or to run the normal test suite: every test that
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needs them resolves the path through `jfjoch_test::LargeDataFile()` (`tests/TestData.h`) and
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`SKIP()`s when the file is absent or is still an unfetched LFS pointer. `jfjoch_test` also
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prints, at start-up, whether this directory is populated.
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## Fetching
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```
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git lfs install
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git lfs pull # or: git lfs pull --include "tests/data/*.h5"
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```
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## Expected files
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Place each dataset's master **and its `_data_NNNNNN.h5` files** in this directory:
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| File | Dataset |
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|-------------------------------|------------------------------------------|
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| `lyso_rotation_master.h5` | lysozyme rotation series (~1800 images) |
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| `lyso_serial_master.h5` | lysozyme serial / jet stills (~5000 images) |
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To point the tests at an existing local dataset without copying, symlink it:
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```
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ln -s /path/to/your_master.h5 tests/data/lyso_rotation_master.h5
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ln -s /path/to/your_data_000001.h5 tests/data/...
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```
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(The master references its data files by relative name, so keep them side by side.)
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