Precomputed manager

class library.image_manipulation.precomputed_manager.NgPrecomputedMaker

Bases: object

Class to convert a tiff image stack to the precomputed neuroglancer format code from Seung lab

create_downsamples()

Downsamples the neuroglancer cloudvolume this step is needed to make the files viewable in neuroglancer

create_neuroglancer()

create the Seung lab cloud volume format from the image stack For a large isotropic data set, Allen uses chunks = [128,128,128] self.input and self.output are defined in the pipeline_process

get_scales()

returns the scanning resolution for a given animal. The scan resolution and sectioning thickness are retrived from the database. The resolution in the database is stored as micrometers (microns -um). But neuroglancer wants nanometers so we multipy by 1000

Returns:

list of converstion factors from pixel to micron for x,y and z