advanced_image_processing: Cleaned up ExtendedRegionProps and extended_region_local_maxima_properties and all code using it to clearly state that local maxima are used not centroids.
advanced_image_processing: Adjustment to allow for having optional upper or lower bounds.
neuron_volumina_viewer: Drop some unused imports. This is related to issue #47.
advanced_image_processing: Updated docstrings throughout the module. Tried to address axis as appropriate. Also, tried to remove old TODOs. This is related to issue #46 and issue #47.
advanced_image_processing: Declared internal variables in preprocess_data before entering if statements.
advanced_image_processing: Need to force values that are nan to zero. Fixed argument order to reflect this.
advanced_image_processing: Added debug output for max projections of intermediate results in preprocessing.
F0_Comparison_Graph: Added a simplistic comparison graph using iPython that will show for a given point the time series for the original data vs the f0 processed data. This fixes #21 for now. However, it does not full integrate it into the viewer. So, this issue will need to be revisited if such integration is deemed necessary.
neuron_volumina_viewer: Transposed the order of the axes to match the standard (tzyxc) format and convert it to the Volumnia standard (txyzc).
neuron_volumina_viewer: Cleaned up unnecessary imports and some dead code.
neuron_volumina_viewer: Cleaned up docstrings of HDF5DataSource, HDF5DataRequest, and HDF5Viewer.
read_config: Cleaned up read_parameters. Was not dropping some __comment__ portions in the json files that were read. Also, did not have a simple structure for catching commented lines. Now, it is simple, clean, and is working fine.
neuron_volumina_viewer: HDF5DataSource was not properly formatting its slices due to a missing assignment.
advanced_image_processing: Added new_data_spatially_smoothed from extract_f0 to the array_debug_recorder.
F0_Comparison_Graph: Updated the notebook to show new_data_spatially_smoothed instead of the result from extract_f0.
expanded_numpy: Changed expand_view so that if no repetitions are provided, it will not raise and exception, but will simply return a view of the exact same array.
expanded_numpy: Added the function expand_arange, which acts like numpy.arange except that it will add use expand_view to provide a view of itself as a larger shape. Passed all doctests.
expanded_numpy: Added the function expand_enumerate, which will enumerate along an array axis. It will expand to the shape of the given array. Along all other axes, the the enumeration will be constant.
advanced_image_processing: Changed so that the contour max projection image is generated using specialty functions in expanded_numpy.
batch_learner: Generates mean projection of the original images.