Histogram maker

Creates all histograms that displayed in the database portal

class library.image_manipulation.histogram_maker.HistogramMaker

Bases: object

Includes methods to generate single histograms per tiff file and a combined histogram for entire stack

make_combined_histogram()

This method takes all tif files by channel and creates a histogram of the combined image space.

Parameters:

• animal – the prep_id of the animal we are working with

• channel – the channel {1,2,3}

Returns:

nothing

make_histogram()

This method creates an individual histogram for each tif file by channel.

Parameters:

• animal – the prep id of the animal

• channel – the channel of the stack to process {1,2,3}

Returns:

nothing

library.image_manipulation.histogram_maker.make_combined_histogram_full(image_manager, OUTPUT_DIR: Path, animal: str, mask_path: Path) → None

library.image_manipulation.histogram_maker.make_histogram_full_RAM(img: ndarray, output_path_histogram: Path, mask_path: Path, debug: bool = False) → None

Generate histogram for a single image [full resolution]

library.image_manipulation.histogram_maker.make_single_histogram(file_key: tuple[str, str, str, str, str]) → None

Makes a histogram for a single image file

Parameters:

file_key – tuple of input_path, mask_path, channel, file, output_path

library.image_manipulation.histogram_maker.make_single_histogram_full(file_key: tuple[str, str, str, str, str]) → None

Makes a histogram for a single image file [full resolution]

Parameters:

file_key – tuple of input_path, mask_path, channel, file, output_path