nornir-volumemodel

nornir_volumemodel is a pure Python data model for a Nornir-registered electron-microscopy volume. It describes the hierarchy of objects that make up a processed volume and supports serialization to/from Nornir’s XML metadata format.

Object hierarchy

A volume is organized as a tree:

Volume
└── Block (one or more)
    └── Section (one per physical slice / Z-level)
        └── Channel (e.g. "TEM", "Leveled")
            ├── Filter (image processing filter applied to the channel)
            │   └── TilePyramid → Level → Image tiles
            └── Transform (spatial registration transforms)

Key modules

nornir_volumemodel.model.volume: Volume — top-level container; holds a list of Block objects. Inherits DirectoryResource and Named.
nornir_volumemodel.model.block: Block — groups sections and is the unit of batch processing.
nornir_volumemodel.model.section: Section — represents one Z-slice. Holds channels and section-level transforms.
nornir_volumemodel.model.channel: Channel — a named imaging channel within a section. Contains filters and a scale.
nornir_volumemodel.model.scale: Scale — physical scale (units per pixel) on each axis.
nornir_volumemodel.model.transform: Transform — a registration transform linking two coordinate spaces.
nornir_volumemodel.persistance.nornir_xml: XML serialization/deserialization. Call nornir_volumemodel.Load_Xml(path) to load a volume from disk.

Usage

Load a volume from XML:

import nornir_volumemodel

vol = nornir_volumemodel.Load_Xml('/path/to/volume.xml')
for block in vol.Blocks:
    for section in block.Sections:
        print(section.Number, list(section.Channels))

API reference: nornir_volumemodel API