leonarski_fandClaude Opus 5
dc16a00271
Most facilities still archive rotation data as a directory of miniCBF frames, which until now had to be converted to HDF5 before rugnux could see it. Nothing in that format needs a CIF parser or a library: it is an ASCII header, four separator bytes, then one byte-offset compressed image, and every value the reader wants sits on a "# " comment line or a MIME line. MiniCBF holds the format itself - header parse and the byte-offset decoder, which is a running value with deltas stored smallest-container-first. Verified byte-exact against dxtbx on PILATUS 6M, 6M-F, 300K, silicon and CdTe sensors, and three sensor thicknesses. JFJochCBFReader is a sibling of JFJochHDF5Reader under the JFJochReader base. NAMING ANY FRAME READS ITS WHOLE SWEEP: the sweep is identified by the template (prefix + digit count) the named frame belongs to, not by "every .cbf in the directory", so a directory holding two sweeps does not splice two crystals together. Naming a directory takes the sweep with the most frames in it. Images decode on demand, one per call, so any number of workers can read at once - there is no global lock as there is on the HDF5 path, HDF5 not being thread-safe. A raw CBF carries no analysis results, so the dataset it builds is the geometry, the mask and nothing else, exactly as a plain DECTRIS file with no /entry/MX gives. Two header quirks are handled because real files have them: the sensor material is written "Silicon" where the rest of the code compares against "CdTe", and the thickness unit is sometimes omitted. Headers are not a fixed size either - one set carries 6335 bytes - so the parse runs to the binary separator rather than over a fixed prefix. Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
28 lines
966 B
CMake
28 lines
966 B
CMake
ADD_LIBRARY(JFJochReader STATIC
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JFJochReader.cpp JFJochReader.h
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JFJochHDF5Reader.cpp
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JFJochHDF5Reader.h
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MiniCBF.cpp
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MiniCBF.h
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JFJochCBFReader.cpp
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JFJochCBFReader.h
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HDF5ImageLocator.cpp
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HDF5ImageLocator.h
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HDF5ImageSource.cpp
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HDF5ImageSource.h
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HDF5MetadataSource.cpp
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HDF5MetadataSource.h
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JFJochReaderImage.cpp
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JFJochReaderImage.h
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JFJochReaderDataset.cpp
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JFJochReaderDataset.h
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JFJochReaderSpots.h
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)
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# NB: JFJochHttpReader (the viewer's live-broker HTTP client) lives in viewer/ and links libcurl;
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# it is deliberately NOT part of this always-built library, so the broker/writer never pull in a
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# TLS/Kerberos stack.
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TARGET_LINK_LIBRARIES(JFJochReader JFJochImageAnalysis JFJochAPI JFJochCommon JFJochZMQ JFJochLogger
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JFJochHDF5Wrappers CBORStream2FrameSerialize
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${CMAKE_DL_LIBS})
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