Merge branch 'developer' of github.com:slsdetectorgroup/aare into developer

docs/src/index.rst

@@ -25,6 +25,16 @@ AARE
     pyVarClusterFinder
 
 
+.. toctree::
+    :caption: Python API
+    :maxdepth: 1
+    
+    pyFile
+    pyCtbRawFile
+    pyRawMasterFile
+    pyVarClusterFinder
+
+
 .. toctree::
     :caption: C++ API
     :maxdepth: 1

include/aare/RawFile.hpp

@@ -64,6 +64,7 @@ class RawFile : public FileInterface {
     void read_into(std::byte *image_buf, DetectorHeader *header);
     void read_into(std::byte *image_buf, size_t n_frames, DetectorHeader *header);
 
+
     size_t frame_number(size_t frame_index) override;
     size_t bytes_per_frame() override;
     size_t pixels_per_frame() override;
@@ -74,13 +75,13 @@ class RawFile : public FileInterface {
     size_t rows() const override;
     size_t cols() const override;
     size_t bitdepth() const override;
-    
     xy geometry();
     size_t n_mod() const;
     
     RawMasterFile master() const;
 
 
+
     DetectorType detector_type() const override;
 
   private:

include/aare/RawMasterFile.hpp

@@ -70,6 +70,7 @@ struct ROI{
   size_t width() const { return xmax - xmin; }
 }__attribute__((packed));
 
+
 /**
  * @brief Class for parsing a master file either in our .json format or the old
  * .raw format

python/examples/play.py

@@ -78,6 +78,8 @@ base = Path('/mnt/sls_det_storage/matterhorn_data/aare_test_data/ci/aare_test_da
 # # cols = 1024-roi.xmin
 # # sf = RawSubFile(base / raw, DetectorType.Jungfrau, rows, cols, 16)
 
+from aare import RawFile
+
 
 
 from aare import RawFile, File
@@ -87,6 +89,7 @@ fname = base / Path('SideBySide/241019_JF_12keV_Si_FF_GaAs_FF_7p88mmFilter_Pedes
 # fname = Path(base / 'jungfrau/jungfrau_single_master_0.json')
 # fname = base / 'Stacked/241024_JF10_m450_m367_KnifeEdge_TestBesom_9keV_750umFilter_PedestalStart_ZPos_-6_master_0.json'
 
+
 f = RawFile(fname)
 h,img = f.read_frame()
 print(f'{h["frameNumber"]}')

python/src/file.hpp

@@ -169,7 +169,7 @@ void define_file_io_bindings(py::module &m) {
         });
 
 
-    
+
     py::class_<ScanParameters>(m, "ScanParameters")
         .def(py::init<const std::string &>())
         .def(py::init<const ScanParameters &>())
@@ -199,6 +199,7 @@ void define_file_io_bindings(py::module &m) {
 
     
 
+
     py::class_<RawSubFile>(m, "RawSubFile")
         .def(py::init<const std::filesystem::path &, DetectorType, size_t,
                       size_t, size_t>())

src/RawFile.cpp

@@ -49,6 +49,7 @@ void RawFile::read_into(std::byte *image_buf) {
 
 
 void RawFile::read_into(std::byte *image_buf, DetectorHeader *header) {
+
     return get_frame_into(m_current_frame++, image_buf, header);
 };
 
@@ -61,6 +62,7 @@ void RawFile::read_into(std::byte *image_buf, size_t n_frames, DetectorHeader *h
         if(header) 
             header+=n_mod();
     }
+
 };
 
 size_t RawFile::n_mod() const { return n_subfile_parts; }
@@ -132,7 +134,6 @@ DetectorHeader RawFile::read_header(const std::filesystem::path &fname) {
     return h;
 }
 
-
 int RawFile::find_number_of_subfiles() {
     int n_files = 0;
     // f0,f1...fn How many files is the data split into?
@@ -223,6 +224,7 @@ void RawFile::update_geometry_with_roi() {
                 } else {
                     if ((roi.ymin > m.y) && (roi.ymin < m.y + m.height)) {
                         m.height -= roi.ymin - m.y;
+
                     }
                     if (roi.ymax < m.y + m.height) {
                         m.height -= m.y + original_height - roi.ymax;