mirror of
https://github.com/slsdetectorgroup/aare.git
synced 2025-06-19 02:37:11 +02:00
Taking v1 as the first release (#92)
- file reading - decoding master file
This commit is contained in:
Erik Fröjdh
240
python/src/file.hpp
Normal file
240
python/src/file.hpp
Normal file
@ -0,0 +1,240 @@
|
||||
#include "aare/CtbRawFile.hpp"
|
||||
#include "aare/RawMasterFile.hpp"
|
||||
#include "aare/File.hpp"
|
||||
#include "aare/Frame.hpp"
|
||||
#include "aare/defs.hpp"
|
||||
// #include "aare/fClusterFileV2.hpp"
|
||||
|
||||
#include <cstdint>
|
||||
#include <filesystem>
|
||||
#include <pybind11/iostream.h>
|
||||
#include <pybind11/numpy.h>
|
||||
#include <pybind11/pybind11.h>
|
||||
#include <pybind11/stl.h>
|
||||
#include <pybind11/stl/filesystem.h>
|
||||
#include <string>
|
||||
|
||||
namespace py = pybind11;
|
||||
using namespace ::aare;
|
||||
|
||||
void define_file_io_bindings(py::module &m) {
|
||||
|
||||
PYBIND11_NUMPY_DTYPE(DetectorHeader, frameNumber, expLength, packetNumber,
|
||||
bunchId, timestamp, modId, row, column, reserved,
|
||||
debug, roundRNumber, detType, version, packetMask);
|
||||
|
||||
py::class_<CtbRawFile>(m, "CtbRawFile")
|
||||
.def(py::init<const std::filesystem::path &>())
|
||||
.def("read_frame",
|
||||
[](CtbRawFile &self) {
|
||||
size_t image_size = self.image_size_in_bytes();
|
||||
py::array image;
|
||||
std::vector<ssize_t> shape;
|
||||
shape.reserve(2);
|
||||
shape.push_back(1);
|
||||
shape.push_back(image_size);
|
||||
|
||||
py::array_t<DetectorHeader> header(1);
|
||||
|
||||
|
||||
// always read bytes
|
||||
image = py::array_t<uint8_t>(shape);
|
||||
|
||||
self.read_into(
|
||||
reinterpret_cast<std::byte *>(image.mutable_data()),
|
||||
header.mutable_data());
|
||||
|
||||
return py::make_tuple(header, image);
|
||||
})
|
||||
.def("seek", &CtbRawFile::seek)
|
||||
.def("tell", &CtbRawFile::tell)
|
||||
.def("master", &CtbRawFile::master)
|
||||
.def_property_readonly("image_size_in_bytes", &CtbRawFile::image_size_in_bytes)
|
||||
.def_property_readonly("frames_in_file", &CtbRawFile::frames_in_file);
|
||||
|
||||
py::class_<File>(m, "File")
|
||||
.def(py::init([](const std::filesystem::path &fname) {
|
||||
return File(fname, "r", {});
|
||||
}))
|
||||
.def(py::init(
|
||||
[](const std::filesystem::path &fname, const std::string &mode) {
|
||||
return File(fname, mode, {});
|
||||
}))
|
||||
.def(py::init<const std::filesystem::path &, const std::string &,
|
||||
const FileConfig &>())
|
||||
|
||||
.def("frame_number", &File::frame_number)
|
||||
.def_property_readonly("bytes_per_frame", &File::bytes_per_frame)
|
||||
.def_property_readonly("pixels_per_frame", &File::pixels_per_frame)
|
||||
.def("seek", &File::seek)
|
||||
.def("tell", &File::tell)
|
||||
.def_property_readonly("total_frames", &File::total_frames)
|
||||
.def_property_readonly("rows", &File::rows)
|
||||
.def_property_readonly("cols", &File::cols)
|
||||
.def_property_readonly("bitdepth", &File::bitdepth)
|
||||
.def_property_readonly("bytes_per_pixel", &File::bytes_per_pixel)
|
||||
.def_property_readonly(
|
||||
"detector_type",
|
||||
[](File &self) { return ToString(self.detector_type()); })
|
||||
.def("read_frame",
|
||||
[](File &self) {
|
||||
const uint8_t item_size = self.bytes_per_pixel();
|
||||
py::array image;
|
||||
std::vector<ssize_t> shape;
|
||||
shape.reserve(2);
|
||||
shape.push_back(self.rows());
|
||||
shape.push_back(self.cols());
|
||||
if (item_size == 1) {
|
||||
image = py::array_t<uint8_t>(shape);
|
||||
} else if (item_size == 2) {
|
||||
image = py::array_t<uint16_t>(shape);
|
||||
} else if (item_size == 4) {
|
||||
image = py::array_t<uint32_t>(shape);
|
||||
}
|
||||
self.read_into(
|
||||
reinterpret_cast<std::byte *>(image.mutable_data()));
|
||||
return image;
|
||||
})
|
||||
.def("read_frame",
|
||||
[](File &self, size_t frame_number) {
|
||||
self.seek(frame_number);
|
||||
const uint8_t item_size = self.bytes_per_pixel();
|
||||
py::array image;
|
||||
std::vector<ssize_t> shape;
|
||||
shape.reserve(2);
|
||||
shape.push_back(self.rows());
|
||||
shape.push_back(self.cols());
|
||||
if (item_size == 1) {
|
||||
image = py::array_t<uint8_t>(shape);
|
||||
} else if (item_size == 2) {
|
||||
image = py::array_t<uint16_t>(shape);
|
||||
} else if (item_size == 4) {
|
||||
image = py::array_t<uint32_t>(shape);
|
||||
}
|
||||
self.read_into(
|
||||
reinterpret_cast<std::byte *>(image.mutable_data()));
|
||||
return image;
|
||||
})
|
||||
.def("read_n", [](File &self, size_t n_frames) {
|
||||
const uint8_t item_size = self.bytes_per_pixel();
|
||||
py::array image;
|
||||
std::vector<ssize_t> shape;
|
||||
shape.reserve(3);
|
||||
shape.push_back(n_frames);
|
||||
shape.push_back(self.rows());
|
||||
shape.push_back(self.cols());
|
||||
if (item_size == 1) {
|
||||
image = py::array_t<uint8_t>(shape);
|
||||
} else if (item_size == 2) {
|
||||
image = py::array_t<uint16_t>(shape);
|
||||
} else if (item_size == 4) {
|
||||
image = py::array_t<uint32_t>(shape);
|
||||
}
|
||||
self.read_into(reinterpret_cast<std::byte *>(image.mutable_data()),
|
||||
n_frames);
|
||||
return image;
|
||||
});
|
||||
|
||||
py::class_<FileConfig>(m, "FileConfig")
|
||||
.def(py::init<>())
|
||||
.def_readwrite("rows", &FileConfig::rows)
|
||||
.def_readwrite("cols", &FileConfig::cols)
|
||||
.def_readwrite("version", &FileConfig::version)
|
||||
.def_readwrite("geometry", &FileConfig::geometry)
|
||||
.def_readwrite("detector_type", &FileConfig::detector_type)
|
||||
.def_readwrite("max_frames_per_file", &FileConfig::max_frames_per_file)
|
||||
.def_readwrite("total_frames", &FileConfig::total_frames)
|
||||
.def_readwrite("dtype", &FileConfig::dtype)
|
||||
.def("__eq__", &FileConfig::operator==)
|
||||
.def("__ne__", &FileConfig::operator!=)
|
||||
.def("__repr__", [](const FileConfig &a) {
|
||||
return "<FileConfig: " + a.to_string() + ">";
|
||||
});
|
||||
|
||||
|
||||
py::class_<RawMasterFile>(m, "RawMasterFile")
|
||||
.def(py::init<const std::filesystem::path &>())
|
||||
.def("data_fname", &RawMasterFile::data_fname)
|
||||
.def_property_readonly("version", &RawMasterFile::version)
|
||||
.def_property_readonly("detector_type", &RawMasterFile::detector_type)
|
||||
.def_property_readonly("timing_mode", &RawMasterFile::timing_mode)
|
||||
.def_property_readonly("image_size_in_bytes",
|
||||
&RawMasterFile::image_size_in_bytes)
|
||||
.def_property_readonly("frames_in_file", &RawMasterFile::frames_in_file)
|
||||
.def_property_readonly("pixels_y", &RawMasterFile::pixels_y)
|
||||
.def_property_readonly("pixels_x", &RawMasterFile::pixels_x)
|
||||
.def_property_readonly("max_frames_per_file",
|
||||
&RawMasterFile::max_frames_per_file)
|
||||
.def_property_readonly("bitdepth", &RawMasterFile::bitdepth)
|
||||
.def_property_readonly("frame_padding", &RawMasterFile::frame_padding)
|
||||
.def_property_readonly("frame_discard_policy",
|
||||
&RawMasterFile::frame_discard_policy)
|
||||
.def_property_readonly("total_frames_expected", &RawMasterFile::total_frames_expected)
|
||||
.def_property_readonly("geometry", &RawMasterFile::geometry)
|
||||
.def_property_readonly("analog_samples", &RawMasterFile::analog_samples)
|
||||
.def_property_readonly("digital_samples",
|
||||
&RawMasterFile::digital_samples)
|
||||
.def_property_readonly("transceiver_samples", &RawMasterFile::transceiver_samples)
|
||||
.def_property_readonly("number_of_rows", &RawMasterFile::number_of_rows)
|
||||
.def_property_readonly("quad", &RawMasterFile::quad)
|
||||
.def_property_readonly("scan_parameters", &RawMasterFile::scan_parameters);
|
||||
|
||||
|
||||
|
||||
py::class_<ScanParameters>(m, "ScanParameters")
|
||||
.def(py::init<const std::string &>())
|
||||
.def(py::init<const ScanParameters&>())
|
||||
.def_property_readonly("enabled", &ScanParameters::enabled)
|
||||
.def_property_readonly("dac", &ScanParameters::dac)
|
||||
.def_property_readonly("start", &ScanParameters::start)
|
||||
.def_property_readonly("stop", &ScanParameters::stop)
|
||||
.def_property_readonly("step", &ScanParameters::step);
|
||||
// py::class_<ClusterHeader>(m, "ClusterHeader")
|
||||
// .def(py::init<>())
|
||||
// .def_readwrite("frame_number", &ClusterHeader::frame_number)
|
||||
// .def_readwrite("n_clusters", &ClusterHeader::n_clusters)
|
||||
// .def("__repr__", [](const ClusterHeader &a) { return "<ClusterHeader:
|
||||
// " + a.to_string() + ">"; });
|
||||
|
||||
// py::class_<ClusterV2_>(m, "ClusterV2_")
|
||||
// .def(py::init<>())
|
||||
// .def_readwrite("x", &ClusterV2_::x)
|
||||
// .def_readwrite("y", &ClusterV2_::y)
|
||||
// .def_readwrite("data", &ClusterV2_::data)
|
||||
// .def("__repr__", [](const ClusterV2_ &a) { return "<ClusterV2_: " +
|
||||
// a.to_string(false) + ">"; });
|
||||
|
||||
// py::class_<ClusterV2>(m, "ClusterV2")
|
||||
// .def(py::init<>())
|
||||
// .def_readwrite("cluster", &ClusterV2::cluster)
|
||||
// .def_readwrite("frame_number", &ClusterV2::frame_number)
|
||||
// .def("__repr__", [](const ClusterV2 &a) { return "<ClusterV2: " +
|
||||
// a.to_string() + ">"; });
|
||||
|
||||
// py::class_<ClusterFileV2>(m, "ClusterFileV2")
|
||||
// .def(py::init<const std::filesystem::path &, const std::string &>())
|
||||
// .def("read", py::overload_cast<>(&ClusterFileV2::read))
|
||||
// .def("read", py::overload_cast<int>(&ClusterFileV2::read))
|
||||
// .def("frame_number", &ClusterFileV2::frame_number)
|
||||
// .def("write", py::overload_cast<std::vector<ClusterV2> const
|
||||
// &>(&ClusterFileV2::write))
|
||||
|
||||
// .def("close", &ClusterFileV2::close);
|
||||
|
||||
// m.def("to_clustV2", [](std::vector<Cluster> &clusters, const int
|
||||
// frame_number) {
|
||||
// std::vector<ClusterV2> clusters_;
|
||||
// for (auto &c : clusters) {
|
||||
// ClusterV2 cluster;
|
||||
// cluster.cluster.x = c.x;
|
||||
// cluster.cluster.y = c.y;
|
||||
// int i=0;
|
||||
// for(auto &d : cluster.cluster.data) {
|
||||
// d=c.get<double>(i++);
|
||||
// }
|
||||
// cluster.frame_number = frame_number;
|
||||
// clusters_.push_back(cluster);
|
||||
// }
|
||||
// return clusters_;
|
||||
// });
|
||||
}
|
||||
Reference in New Issue
Block a user