diff --git a/grpc/jfjoch.proto b/grpc/jfjoch.proto index 6d69c5b3..e4a32d0d 100644 --- a/grpc/jfjoch.proto +++ b/grpc/jfjoch.proto @@ -270,6 +270,7 @@ enum PlotType { message PlotRequest { PlotType type = 1; uint64 binning = 2; + optional uint64 file_number = 3; } message ReceiverDataProcessingPlots { diff --git a/image_analysis/CMakeLists.txt b/image_analysis/CMakeLists.txt index 3e522929..e51c0b95 100644 --- a/image_analysis/CMakeLists.txt +++ b/image_analysis/CMakeLists.txt @@ -4,7 +4,7 @@ ADD_LIBRARY(ImageAnalysis STATIC GPUImageAnalysis.h RadialIntegration.cpp RadialIntegration.h RadialIntegrationMapping.cpp RadialIntegrationMapping.h - StrongPixelSet.cpp StrongPixelSet.h GPUImageAnalysis_Alt.cpp) + StrongPixelSet.cpp StrongPixelSet.h GPUImageAnalysis_Alt.cpp RadialIntegrationProfile.cpp RadialIntegrationProfile.h) TARGET_LINK_LIBRARIES(ImageAnalysis CommonFunctions) diff --git a/image_analysis/RadialIntegrationProfile.cpp b/image_analysis/RadialIntegrationProfile.cpp new file mode 100644 index 00000000..cd81c795 --- /dev/null +++ b/image_analysis/RadialIntegrationProfile.cpp @@ -0,0 +1,37 @@ +// Copyright (2019-2023) Paul Scherrer Institute +// SPDX-License-Identifier: GPL-3.0-or-later + +#include "RadialIntegrationProfile.h" +#include "../common/JFJochException.h" + +RadialIntegrationProfile::RadialIntegrationProfile(RadialIntegrationMapping &mapping) + : bin_to_q(mapping.GetBinToQ()), + sum(mapping.GetBinNumber(), 0), + count(mapping.GetBinNumber(), 0) { + +} + +void RadialIntegrationProfile::Add(const std::vector &in_sum, const std::vector &in_count) { + std::unique_lock ul(m); + + if ((in_sum.size() == sum.size()) && (in_count.size() == count.size())) { + for (int i = 0; i < sum.size(); i++) { + sum[i] += in_sum[i]; + count[i] += in_count[i]; + } + } else if (!in_sum.empty() && !in_count.empty()) + throw JFJochException(JFJochExceptionCategory::InputParameterInvalid, "Mismatch in size of sum/count datasets"); +} + +void RadialIntegrationProfile::GetPlot(JFJochProtoBuf::Plot &plot) const { + std::unique_lock ul(m); + + std::vector rad_int_profile(sum.size()); + for (int i = 0; i < sum.size(); i++) { + if (count[i] > 0) + rad_int_profile[i] = static_cast(sum[i]) / static_cast(count[i]); + } + + *plot.mutable_x() = {bin_to_q.begin(), bin_to_q.end()}; + *plot.mutable_y() = {rad_int_profile.begin(), rad_int_profile.end()}; +} diff --git a/image_analysis/RadialIntegrationProfile.h b/image_analysis/RadialIntegrationProfile.h new file mode 100644 index 00000000..867b2dd5 --- /dev/null +++ b/image_analysis/RadialIntegrationProfile.h @@ -0,0 +1,24 @@ +// Copyright (2019-2023) Paul Scherrer Institute +// SPDX-License-Identifier: GPL-3.0-or-later + +#ifndef JUNGFRAUJOCH_RADIALINTEGRATIONPROFILE_H +#define JUNGFRAUJOCH_RADIALINTEGRATIONPROFILE_H + +#include +#include +#include + +#include "RadialIntegrationMapping.h" + +class RadialIntegrationProfile { + mutable std::mutex m; + std::vector sum; + std::vector count; + std::vector bin_to_q; +public: + explicit RadialIntegrationProfile(RadialIntegrationMapping &mapping); + void Add(const std::vector &sum, const std::vector &count); + void GetPlot(JFJochProtoBuf::Plot &plot) const; +}; + +#endif //JUNGFRAUJOCH_RADIALINTEGRATIONPROFILE_H diff --git a/python/jfjoch_pb2.py b/python/jfjoch_pb2.py index aa085f5e..584362ab 100644 --- a/python/jfjoch_pb2.py +++ b/python/jfjoch_pb2.py @@ -13,7 +13,7 @@ _sym_db = _symbol_database.Default() -DESCRIPTOR = _descriptor_pool.Default().AddSerializedFile(b'\n\x0cjfjoch.proto\x12\x0eJFJochProtoBuf\"\x07\n\x05\x45mpty\"W\n\x08UnitCell\x12\t\n\x01\x61\x18\x01 \x01(\x02\x12\t\n\x01\x62\x18\x02 \x01(\x02\x12\t\n\x01\x63\x18\x03 \x01(\x02\x12\r\n\x05\x61lpha\x18\x04 \x01(\x02\x12\x0c\n\x04\x62\x65ta\x18\x05 \x01(\x02\x12\r\n\x05gamma\x18\x06 \x01(\x02\")\n\x06Vector\x12\t\n\x01x\x18\x01 \x01(\x02\x12\t\n\x01y\x18\x02 \x01(\x02\x12\t\n\x01z\x18\x03 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_builder.BuildMessageAndEnumDescriptors(DESCRIPTOR, globals()) _builder.BuildTopDescriptorsAndMessages(DESCRIPTOR, 'jfjoch_pb2', globals()) @@ -22,18 +22,18 @@ if _descriptor._USE_C_DESCRIPTORS == False: DESCRIPTOR._options = None _FPGASTATUS_FIFOSTATUSENTRY._options = None _FPGASTATUS_FIFOSTATUSENTRY._serialized_options = b'8\001' - _COMPRESSION._serialized_start=8576 - _COMPRESSION._serialized_end=8660 - _DETECTORTYPE._serialized_start=8662 - _DETECTORTYPE._serialized_end=8701 - _DETECTORMODE._serialized_start=8703 - _DETECTORMODE._serialized_end=8793 - _FPGAFIFOSTATUS._serialized_start=8795 - _FPGAFIFOSTATUS._serialized_end=8845 - _STATE._serialized_start=8847 - _STATE._serialized_end=8941 - _PLOTTYPE._serialized_start=8943 - _PLOTTYPE._serialized_end=9019 + _COMPRESSION._serialized_start=8618 + _COMPRESSION._serialized_end=8702 + _DETECTORTYPE._serialized_start=8704 + _DETECTORTYPE._serialized_end=8743 + _DETECTORMODE._serialized_start=8745 + _DETECTORMODE._serialized_end=8835 + _FPGAFIFOSTATUS._serialized_start=8837 + _FPGAFIFOSTATUS._serialized_end=8887 + _STATE._serialized_start=8889 + _STATE._serialized_end=8983 + _PLOTTYPE._serialized_start=8985 + _PLOTTYPE._serialized_end=9061 _EMPTY._serialized_start=32 _EMPTY._serialized_end=39 _UNITCELL._serialized_start=41 @@ -79,59 +79,59 @@ if _descriptor._USE_C_DESCRIPTORS == False: _RECEIVERSTATUS._serialized_start=3910 _RECEIVERSTATUS._serialized_end=4057 _PLOTREQUEST._serialized_start=4059 - _PLOTREQUEST._serialized_end=4129 - _RECEIVERDATAPROCESSINGPLOTS._serialized_start=4132 - _RECEIVERDATAPROCESSINGPLOTS._serialized_end=4342 - _WRITERINPUT._serialized_start=4344 - _WRITERINPUT._serialized_end=4406 - _DATAFILESTATISTICS._serialized_start=4408 - _DATAFILESTATISTICS._serialized_end=4459 - _WRITEROUTPUT._serialized_start=4462 - _WRITEROUTPUT._serialized_end=4603 - _DETECTORMODULECONFIG._serialized_start=4606 - _DETECTORMODULECONFIG._serialized_end=4864 - _DETECTORCONFIG._serialized_start=4866 - 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_MEASUREMENTSTATISTICS._serialized_end=8036 - _BROKERSTATUS._serialized_start=8039 - _BROKERSTATUS._serialized_end=8180 - _BROKERFULLSTATUS._serialized_start=8183 - _BROKERFULLSTATUS._serialized_end=8347 - _DETECTORLISTELEMENT._serialized_start=8349 - _DETECTORLISTELEMENT._serialized_end=8421 - _DETECTORLIST._serialized_start=8423 - _DETECTORLIST._serialized_end=8541 - _DETECTORSELECTION._serialized_start=8543 - _DETECTORSELECTION._serialized_end=8574 - _GRPC_JFJOCHRECEIVER._serialized_start=9022 - _GRPC_JFJOCHRECEIVER._serialized_end=9689 - _GRPC_JFJOCHWRITER._serialized_start=9692 - _GRPC_JFJOCHWRITER._serialized_end=9894 - _GRPC_JFJOCHDETECTOR._serialized_start=9897 - _GRPC_JFJOCHDETECTOR._serialized_end=10283 - _GRPC_JFJOCHBROKER._serialized_start=10286 - _GRPC_JFJOCHBROKER._serialized_end=11875 + _PLOTREQUEST._serialized_end=4171 + _RECEIVERDATAPROCESSINGPLOTS._serialized_start=4174 + _RECEIVERDATAPROCESSINGPLOTS._serialized_end=4384 + _WRITERINPUT._serialized_start=4386 + _WRITERINPUT._serialized_end=4448 + _DATAFILESTATISTICS._serialized_start=4450 + _DATAFILESTATISTICS._serialized_end=4501 + _WRITEROUTPUT._serialized_start=4504 + _WRITEROUTPUT._serialized_end=4645 + _DETECTORMODULECONFIG._serialized_start=4648 + _DETECTORMODULECONFIG._serialized_end=4906 + _DETECTORCONFIG._serialized_start=4908 + _DETECTORCONFIG._serialized_end=5004 + _DETECTORINPUT._serialized_start=5007 + _DETECTORINPUT._serialized_end=5256 + _DETECTOROUTPUT._serialized_start=5258 + _DETECTOROUTPUT._serialized_end=5274 + _DETECTORSTATUS._serialized_start=5276 + _DETECTORSTATUS._serialized_end=5374 + _FPGASTATUS._serialized_start=5377 + _FPGASTATUS._serialized_end=6447 + _FPGASTATUS_FIFOSTATUSENTRY._serialized_start=6366 + _FPGASTATUS_FIFOSTATUSENTRY._serialized_end=6447 + _INDEXERDATAPROCESSINGPLOTS._serialized_start=6449 + _INDEXERDATAPROCESSINGPLOTS._serialized_end=6522 + _DATAPROCESSINGSETTINGS._serialized_start=6525 + _DATAPROCESSINGSETTINGS._serialized_end=6871 + _PREVIEWFRAME._serialized_start=6874 + _PREVIEWFRAME._serialized_end=7143 + _MODULESTATISTICS._serialized_start=7146 + _MODULESTATISTICS._serialized_end=7383 + _IMAGE._serialized_start=7385 + _IMAGE._serialized_end=7458 + _MASKTOLOAD._serialized_start=7460 + _MASKTOLOAD._serialized_end=7506 + _MEASUREMENTSTATISTICS._serialized_start=7509 + _MEASUREMENTSTATISTICS._serialized_end=8078 + _BROKERSTATUS._serialized_start=8081 + _BROKERSTATUS._serialized_end=8222 + _BROKERFULLSTATUS._serialized_start=8225 + _BROKERFULLSTATUS._serialized_end=8389 + _DETECTORLISTELEMENT._serialized_start=8391 + _DETECTORLISTELEMENT._serialized_end=8463 + _DETECTORLIST._serialized_start=8465 + _DETECTORLIST._serialized_end=8583 + _DETECTORSELECTION._serialized_start=8585 + _DETECTORSELECTION._serialized_end=8616 + _GRPC_JFJOCHRECEIVER._serialized_start=9064 + _GRPC_JFJOCHRECEIVER._serialized_end=9731 + _GRPC_JFJOCHWRITER._serialized_start=9734 + _GRPC_JFJOCHWRITER._serialized_end=9936 + _GRPC_JFJOCHDETECTOR._serialized_start=9939 + _GRPC_JFJOCHDETECTOR._serialized_end=10325 + _GRPC_JFJOCHBROKER._serialized_start=10328 + _GRPC_JFJOCHBROKER._serialized_end=11917 # @@protoc_insertion_point(module_scope) diff --git a/receiver/JFJochReceiver.cpp b/receiver/JFJochReceiver.cpp index 59e39474..6201bbce 100644 --- a/receiver/JFJochReceiver.cpp +++ b/receiver/JFJochReceiver.cpp @@ -35,7 +35,6 @@ JFJochReceiver::JFJochReceiver(const JFJochProtoBuf::ReceiverInput &settings, frame_transformation_nthreads((experiment.GetSummation() >= threaded_summation_threshold) ? 2 : in_forward_and_sum_nthreads), preview_publisher(in_preview_publisher), - rad_int_profile_window(experiment.GetSpotFindingBin()), ndatastreams(experiment.GetDataStreamsNum()), data_acquisition_ready(ndatastreams), frame_transformation_ready((experiment.GetImageNum() > 0) ? frame_transformation_nthreads : 0) @@ -76,6 +75,11 @@ JFJochReceiver::JFJochReceiver(const JFJochProtoBuf::ReceiverInput &settings, logger.Info("GPU support missing"); rad_int_mapping = std::make_unique(experiment, one_byte_mask.data()); + rad_int_profile = std::make_unique(*rad_int_mapping); + + for (int i = 0; i < experiment.GetDataFileCount(); i++) + rad_int_profile_per_file.emplace_back(std::make_unique(*rad_int_mapping)); + spot_finder_mask = calib->CalculateOneByteMask(experiment); } @@ -446,7 +450,13 @@ int64_t JFJochReceiver::FrameTransformationThread() { bkg_estimate.AddElement(image_number, bkg_estimate_val); spot_finder->GetRadialIntegrationProfile(message.rad_int_profile); - AddRadialIntegrationProfile(message.rad_int_profile); + rad_int_profile->Add(spot_finder->GetRadialIntegrationSum(), + spot_finder->GetRadialIntegrationCount()); + + if (image_number % experiment.GetDataFileCount() < rad_int_profile_per_file.size()) + rad_int_profile_per_file[image_number % experiment.GetDataFileCount()] + ->Add(spot_finder->GetRadialIntegrationSum(), + spot_finder->GetRadialIntegrationCount()); } if (push_images_to_writer) { @@ -636,29 +646,6 @@ JFJochProtoBuf::DataProcessingSettings JFJochReceiver::GetDataProcessingSettings return data_processing_settings; } -void JFJochReceiver::AddRadialIntegrationProfile(const std::vector &result) { - std::unique_lock ul(rad_int_profile_mutex); - if (rad_int_profile.empty()) - rad_int_profile = result; - else if (rad_int_profile.size() == result.size()) { - for (int i = 0; i < rad_int_profile.size(); i++) - rad_int_profile[i] += (result[i] - rad_int_profile[i]) / rad_int_profile_window; - } else { - // Throw exception? - Abort(); - } -} - -void JFJochReceiver::GetRadialIntegrationProfile(JFJochProtoBuf::Plot &plot) { - std::unique_lock ul(rad_int_profile_mutex); - - const auto &bin_to_q = rad_int_mapping->GetBinToQ(); - if (!rad_int_profile.empty()) { - *plot.mutable_x() = {bin_to_q.begin(), bin_to_q.end()}; - *plot.mutable_y() = {rad_int_profile.begin(), rad_int_profile.end()}; - } -} - JFJochProtoBuf::Plot JFJochReceiver::GetPlots(const JFJochProtoBuf::PlotRequest &request) { JFJochProtoBuf::Plot ret; auto nbins = experiment.GetSpotFindingBin(); @@ -667,7 +654,13 @@ JFJochProtoBuf::Plot JFJochReceiver::GetPlots(const JFJochProtoBuf::PlotRequest switch (request.type()) { case JFJochProtoBuf::RAD_INT: - GetRadialIntegrationProfile(ret); + if (request.has_file_number()) { + if (request.file_number() < rad_int_profile_per_file.size()) + rad_int_profile_per_file[request.file_number()]->GetPlot(ret); + } else { + if (rad_int_profile) + rad_int_profile->GetPlot(ret); + } break; case JFJochProtoBuf::SPOT_COUNT: spot_count.GetPlot(ret, nbins); diff --git a/receiver/JFJochReceiver.h b/receiver/JFJochReceiver.h index 0d92536b..6ed6a225 100644 --- a/receiver/JFJochReceiver.h +++ b/receiver/JFJochReceiver.h @@ -23,7 +23,8 @@ #include "../common/ThreadSafeFIFO.h" #include "../common/ZMQPreviewPublisher.h" -#include "../image_analysis/RadialIntegration.h" +#include "../image_analysis/RadialIntegrationMapping.h" +#include "../image_analysis/RadialIntegrationProfile.h" #include "../common/StatusVector.h" #include "../jungfrau/JFConversionFixedPoint.h" @@ -41,10 +42,8 @@ class JFJochReceiver { std::vector> data_acquisition_futures; std::unique_ptr rad_int_mapping; - - std::vector rad_int_profile; - const size_t rad_int_profile_window; - std::mutex rad_int_profile_mutex; + std::unique_ptr rad_int_profile; + std::vector> rad_int_profile_per_file; std::vector spot_finder_mask; @@ -99,10 +98,7 @@ class JFJochReceiver { FrameTransformation &transformation, DataMessage &message); void Abort(const JFJochException &e); void FinalizeMeasurement(); - JFJochProtoBuf::DataProcessingSettings GetDataProcessingSettings(); - - void AddRadialIntegrationProfile(const std::vector &result); - void GetRadialIntegrationProfile(JFJochProtoBuf::Plot &plots); + JFJochProtoBuf::DataProcessingSettings GetDataProcessingSettings(); void UpdateMaxImage(int64_t image_number); public: diff --git a/tests/RadialIntegrationTest.cpp b/tests/RadialIntegrationTest.cpp index f125cc74..f3189756 100644 --- a/tests/RadialIntegrationTest.cpp +++ b/tests/RadialIntegrationTest.cpp @@ -2,6 +2,9 @@ // SPDX-License-Identifier: GPL-3.0-or-later #include + +#include "../image_analysis/RadialIntegrationProfile.h" +#include "../image_analysis/RadialIntegrationMapping.h" #include "../image_analysis/RadialIntegration.h" TEST_CASE("RadialIntegrationMapping_Constructor","[RadialIntegration]") { @@ -75,6 +78,38 @@ TEST_CASE("RadialIntegrationMapping_QToBin","[RadialIntegration]") { REQUIRE(mapping.QToBin(50.0) == Approx(38)); } +TEST_CASE("RadialIntegrationProfile","[RadialIntegration]") { + DiffractionExperiment x(DetectorGeometry(8, 2, 8, 36)); + x.DetectorDistance_mm(50).BeamX_pxl(1000).BeamY_pxl(1000); + x.QSpacingForRadialInt_recipA(0.1).LowQForRadialInt_recipA(0.1).HighQForRadialInt_recipA(4); + + RadialIntegrationMapping mapping(x); + + RadialIntegrationProfile profile(mapping); + + std::vector sum(mapping.GetBinNumber()); + std::vector count(mapping.GetBinNumber()); + + for (int i = 0; i < mapping.GetBinNumber(); i++) { + sum[i] = i * i * 4; + count[i] = i; + } + REQUIRE_NOTHROW(profile.Add(sum, count)); + + std::vector sum_wr(mapping.GetBinNumber() - 1); + REQUIRE_THROWS(profile.Add(sum_wr, count)); + + JFJochProtoBuf::Plot plot; + profile.GetPlot(plot); + + REQUIRE(plot.x_size() == mapping.GetBinNumber()); + REQUIRE(plot.y_size() == mapping.GetBinNumber()); + for (int i = 0; i < mapping.GetBinNumber(); i++) { + REQUIRE(plot.x(i) == Approx(mapping.GetBinToQ()[i])); + REQUIRE(plot.y(i) == Approx(i * 4)); + } +} + TEST_CASE("RadialIntegration_Process","[RadialIntegration]") { std::vector pixel_to_bin = {0,1,2,4,3,1,2,3}; std::vector test_image = {7,6,5,4,3,2,1,0};