FastPedestal + optimizations in the cluster finder (#341)

Optimized pedestal tracking with FastPedestal and performance improvements to the cluster finder. 
- ~2x faster hitting 14k FPS on benchmark dataset on 16 core threadripper pro


**Changes**
- No bounds check on interior of frame. (only within half of a cluster)
(~15% improvement)
- Cache threshold (std*n_rms) Biggest improvement comes from not
computing std for each access
- Cache pedestal subtracted frame
- Switched to FastPedestal which assumes we reached steady state

**Things tried but rejected:**
- Always store cluster values, commit on val==max (~15% drop in frame
rate)

**Options**
- using 16 bit clusters and 16 bit pedestal. (slows down the single
threaded case but allow us to reach 12k with multi threading)

**Other notes on performance**
- Passing in memory frames from python and doing nothing: 0.8us/frame
- Passing + pedestal subtraction: 28us/frame
- Passing + pedestal + cluster finding (no store): 652us/frame
- Passing + pedestal + cluster finding: 886 us/frame

python/src/module.cpp

@@ -1,6 +1,8 @@
 // SPDX-License-Identifier: MPL-2.0
 // Files with bindings to the different classes
 
+#include "module_config.hpp"
+
 // New style file naming
 #include "bind_Cluster.hpp"
 #include "bind_ClusterCollector.hpp"
@@ -11,6 +13,7 @@
 #include "bind_ClusterVector.hpp"
 #include "bind_Defs.hpp"
 #include "bind_Eta.hpp"
+#include "bind_FastPedestal.hpp"
 #include "bind_Interpolator.hpp"
 #include "bind_MultiThreadedFileReader.hpp"
 #include "bind_PedestalTrackingPixelHistogram.hpp"
@@ -30,6 +33,7 @@
 #include "var_cluster.hpp"
 
 // Pybind stuff
+#include <cstdint>
 #include <pybind11/pybind11.h>
 #include <pybind11/stl.h>
 
@@ -75,6 +79,10 @@ PYBIND11_MODULE(_aare, m) {
     define_pedestal_tracking_pixel_histogram_bindings(m);
     define_pedestal_bindings<double>(m, "Pedestal_d");
     define_pedestal_bindings<float>(m, "Pedestal_f");
+    define_pedestal_bindings<int16_t>(m, "Pedestal_i16");
+    define_fast_pedestal_bindings<double>(m, "FastPedestal_d");
+    define_fast_pedestal_bindings<float>(m, "FastPedestal_f");
+    define_fast_pedestal_bindings<int16_t>(m, "FastPedestal_i16");
     define_fit_bindings(m);
     define_interpolation_bindings(m);
     define_jungfrau_data_file_io_bindings(m);
@@ -106,6 +114,7 @@ PYBIND11_MODULE(_aare, m) {
     DEFINE_BINDINGS_CLUSTERFINDER(int, 3, 3, uint16_t, i);
     DEFINE_BINDINGS_CLUSTERFINDER(double, 3, 3, uint16_t, d);
     DEFINE_BINDINGS_CLUSTERFINDER(float, 3, 3, uint16_t, f);
+    DEFINE_BINDINGS_CLUSTERFINDER(int16_t, 3, 3, uint16_t, i16);
 
     DEFINE_BINDINGS_CLUSTERFINDER(int, 5, 5, uint16_t, i);
     DEFINE_BINDINGS_CLUSTERFINDER(double, 5, 5, uint16_t, d);