CrystFEL test
This test requires recent version of CrystFEL with Xgandalf indexing algorithm. Tested with CrystFEL 0.10.0.
Generate HDF5 file
To generate HDF5 you need first to compile HDFDatasetWriteTest. From main directory:
mkdir build
cd build
cmake3 ..
make HDF5DatasetWriteTest
Go back to main directory and:
cd crystfel
HDF5DATASET_WRITE_TEST_SWMR=1 ../build/tests/HDF5DatasetWriteTest ../tests/test_data/compression_benchmark.h5 100
This will generate HDF5 with lysozyme data measured with JUNGFRAU 4 Mpixel long time ago.
Analyze with CrystFEL
To process the generated file with CrystFEL, you need to run the following command:
indexamajig -g jf4m.geom -i writing_test.lst -o writing_test.stream --indexing=xgandalf
Hopefully you see the following outcome at the end:
Final: 100 images processed, 100 hits (100.0%), 100 indexable (100.0% of hits, 100.0% overall), 100 crystals.
In case of issues, you can also try providing unit cell information:
indexamajig -g jf4m.geom -i writing_test.lst -o writing_test.stream --indexing=xgandalf -p 6G8A.pdb