Feature/reactivate python bindings (#74)

major changes:
- add python bindings for all c++ features except network_io
- changes to cross compile on windows,linux and macos
- fix bugs with cluster_finder
- use Dtype in Frame instead of bitdepth
- remove boost::program_options and replace with our implementation 
- add Transforms class that applies a sequence of functions (c++ or
python functions) on a Frame.
- remove frame reorder and flip from SubFile.cpp. use Transforms instead
- Test clusterFinder and Pedestal results in comparison with
slsDetectorCalibration

---------

Co-authored-by: Bechir <bechir.brahem420@gmail.com>
Co-authored-by: Erik Fröjdh <erik.frojdh@gmail.com>

include/aare/core.hpp

@@ -1,8 +1,9 @@
 #include "aare/core/CircularFifo.hpp"
-#include "aare/core/DType.hpp"
+#include "aare/core/Dtype.hpp"
 #include "aare/core/Frame.hpp"
 #include "aare/core/NDArray.hpp"
 #include "aare/core/NDView.hpp"
 #include "aare/core/defs.hpp"
 // #include "aare/core/VariableSizeClusterFinder.hpp"
-#include "aare/core/ProducerConsumerQueue.hpp"
+#include "aare/core/ProducerConsumerQueue.hpp"
+#include "aare/core/Transforms.hpp"

include/aare/file_io.hpp

@@ -1,4 +1,3 @@
-#include "aare/file_io/ClusterFile.hpp"
 #include "aare/file_io/ClusterFileV2.hpp"
 #include "aare/file_io/File.hpp"
 #include "aare/file_io/FileInterface.hpp"

include/aare/utils.hpp

@@ -1,3 +1,4 @@
+#include "aare/utils/arg_parser.hpp"
 #include "aare/utils/compare_files.hpp"
 #include "aare/utils/json.hpp"
 #include "aare/utils/logger.hpp"