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leonarski_fandClaude Opus 4.8 d393ec814c Remove residual sample identities missed by the earlier scrub 
The rc.160 sample-identity cleanup left protein names, internal dataset
codes, and a measured cell angle in several source comments and one test.
Most sensitive: a measured monoclinic beta tied to an internal code in
Rugnux.cpp and IndexAndRefine.cpp. Rewrite each to describe the
crystallographic situation only (space group / metric relation), keeping
the technical reasoning intact. Comment- and string-only; no behaviour
change. (rugnux_cli.cpp's remaining name is scrubbed in the following
commit, alongside its other change to that file.)

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
2026-07-15 22:18:32 +02:00
..
ADUHistogram.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ADUHistogram.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
AutoIncrVector.h
v1.0.0-rc.139 (#49)
2026-04-29 09:50:50 +02:00
AzimuthalIntegrationMapping.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
AzimuthalIntegrationMapping.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
AzimuthalIntegrationProfile.cpp
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
AzimuthalIntegrationProfile.h
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
AzimuthalIntegrationSettings.cpp
v1.0.0-rc.152 (#62)
2026-06-17 20:36:24 +02:00
AzimuthalIntegrationSettings.h
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
BraggIntegrationSettings.cpp
rugnux: add opt-in stills partiality (--still-partiality)
2026-07-14 12:03:21 +02:00
BraggIntegrationSettings.h
Remove residual sample identities missed by the earlier scrub
2026-07-15 22:18:32 +02:00
BrokerStatus.h
v1.0.0-rc.129 (#36)
2026-03-05 22:13:12 +01:00
CheckPath.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
CMakeLists.txt
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ColorScale.cpp
v1.0.0-rc.124 (#31)
2026-02-01 13:29:33 +01:00
ColorScale.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
CompressedImage.cpp
v1.0.0-rc.40
2025-05-28 18:49:27 +02:00
CompressedImage.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
Coord.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
Coord.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
CorrelationCoefficient.cpp
v1.0.0-rc.146 (#56)
2026-05-28 18:48:35 +02:00
CorrelationCoefficient.h
v1.0.0-rc.146 (#56)
2026-05-28 18:48:35 +02:00
CrystalLattice.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
CrystalLattice.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
CUDAWrapper.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
CUDAWrapper.cu
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
CUDAWrapper.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
DarkMaskSettings.cpp
v1.0.0-rc.139 (#49)
2026-04-29 09:50:50 +02:00
DarkMaskSettings.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DatasetSettings.cpp
v1.0.0-rc.158 (#68)
2026-07-12 19:42:29 +02:00
DatasetSettings.h
v1.0.0-rc.158 (#68)
2026-07-12 19:42:29 +02:00
Definitions.h
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
DetectorGeometry.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DetectorGeometryFixed.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
DetectorGeometryFixed.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DetectorGeometryModular.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
DetectorGeometryModular.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DetectorModuleGeometry.cpp
v1.0.0-rc.103 (#8)
2025-11-19 09:40:50 +01:00
DetectorModuleGeometry.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DetectorSettings.cpp
v1.0.0-rc.139 (#49)
2026-04-29 09:50:50 +02:00
DetectorSettings.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DetectorSetup.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
DetectorSetup.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
DiffractionExperiment.cpp
rugnux: rotation indexing always uses FFT/FFTW, never FFBIDX
2026-07-14 15:18:58 +02:00
DiffractionExperiment.h
v1.0.0-rc.158 (#68)
2026-07-12 19:42:29 +02:00
DiffractionGeometry.cpp
v1.0.0-rc.158 (#68)
2026-07-12 19:42:29 +02:00
DiffractionGeometry.h
v1.0.0-rc.158 (#68)
2026-07-12 19:42:29 +02:00
DiffractionSpot.cpp
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
DiffractionSpot.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
FileWriterSettings.cpp
writer: remove CBF and TIFF writers; only HDF5 is written
2026-07-15 10:11:39 +02:00
FileWriterSettings.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
GitInfo.cpp.in
version 1.0.0-rc.25
2024-11-22 21:25:20 +01:00
GitInfo.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
GoniometerAxis.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
GoniometerAxis.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
GridScanSettings.cpp
v1.0.0-rc.104 (#9)
2025-11-19 17:28:10 +01:00
GridScanSettings.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
Histogram.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
hkl_key.h
v1.0.0-rc.124 (#31)
2026-02-01 13:29:33 +01:00
ImageBuffer.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ImageBuffer.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ImageFormatSettings.cpp
v1.0.0-rc.139 (#49)
2026-04-29 09:50:50 +02:00
ImageFormatSettings.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
IndexingSettings.cpp
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
IndexingSettings.h
viewer: expose stills processing settings; rename geom refinement multi -> flex
2026-07-15 11:28:09 +02:00
InstrumentMetadata.cpp
version 1.0.0-rc.27
2024-12-02 21:17:14 +01:00
InstrumentMetadata.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
JFJochException.h
v1.0.0-rc.157 (#67)
2026-07-11 07:19:11 +02:00
JFJochMath.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
JFJochMessages.h
writer: remove CBF and TIFF writers; only HDF5 is written
2026-07-15 10:11:39 +02:00
JFJochReceiverPlots.cpp
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
JFJochReceiverPlots.h
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
JfjochTCP.h
v1.0.0-rc.158 (#68)
2026-07-12 19:42:29 +02:00
Logger.cpp
v1.0.0-rc.82
2025-09-22 19:49:39 +02:00
Logger.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ModuleSummation.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
ModuleSummation.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
MovingAverage.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
MovingAverage.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
MultiLinePlot.cpp
v1.0.0-rc.40
2025-05-28 18:49:27 +02:00
MultiLinePlot.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
NetworkAddressConvert.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
NetworkAddressConvert.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
PixelMask.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
PixelMask.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
Plot.h
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
print_license.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
RawToConvertedGeometry.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
RawToConvertedGeometryCore.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
Reflection.h
v1.0.0-rc.159 (#69)
2026-07-13 13:54:03 +02:00
ResolutionShells.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
ResolutionShells.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ROIAzimuthal.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIAzimuthal.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIBox.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIBox.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROICircle.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROICircle.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIDefinition.cpp
version 1.0.0-rc.29
2024-12-08 13:26:13 +01:00
ROIDefinition.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ROIElement.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIElement.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIMap.cpp
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
ROIMap.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ScalingSettings.cpp
rugnux: add --partiality-uncertainty stills merge term (partiality-model error)
2026-07-14 19:52:46 +02:00
ScalingSettings.h
rugnux: add --partiality-uncertainty stills merge term (partiality-model error)
2026-07-14 19:52:46 +02:00
ScanResult.cpp
v1.0.0-rc.44
2025-06-15 17:46:46 +02:00
ScanResult.h
v1.0.0-rc.156 (#66)
2026-07-03 19:18:56 +02:00
ScanResultGenerator.cpp
v1.0.0-rc.157 (#67)
2026-07-11 07:19:11 +02:00
ScanResultGenerator.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
SpotToSave.cpp
v1.0.0-rc.72
2025-09-08 20:28:59 +02:00
SpotToSave.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
StatusVector.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
StatusVector.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ThreadSafeFIFO.h
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
time_utc.h
v1.0.0-rc.153 (#63)
2026-06-23 20:29:49 +02:00
TopPixels.cpp
v1.0.0-rc.121 (#28)
2025-12-12 21:24:20 +01:00
TopPixels.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
UnitCell.cpp
v1.0.0-rc.146 (#56)
2026-05-28 18:48:35 +02:00
UnitCell.h
v1.0.0-rc.146 (#56)
2026-05-28 18:48:35 +02:00
XrayFluorescenceSpectrum.cpp
v1.0.0-rc.81
2025-09-21 19:27:51 +02:00
XrayFluorescenceSpectrum.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ZeroCopyReturnValue.cpp
v1.0.0-rc.128 (#35)
2026-03-03 22:24:44 +01:00
ZeroCopyReturnValue.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00
ZMQWrappers.cpp
v1.0.0-rc.135 (#44)
2026-04-16 11:59:59 +02:00
ZMQWrappers.h
v1.0.0-rc.148 (#58)
2026-06-08 08:30:35 +02:00