JaneliaSciComp/ometiff_to_n5

module

Convert OME-TIFF to N5 on a dask cluster

dask OME-TIFF N5

Module Information

Repository: https://github.com/JaneliaSciComp/nextflow-modules/tree/main/modules/janelia/ometiff_to_n5
Source: Janelia
Organization: JaneliaSciComp
Authors: @cgoina
Maintainers: @cgoina

Convert OME-TIFF to N5

License: ['BSD-3-Clause']

Name	Type	Description
meta	map	Groovy map containing: id
input_path	file	Path to the OME-TIFF file
output_path	directory	Output directory for N5 container
output_name	string	Name of the N5 container.
scale_subpath	string	Relative path to the scale 0 location.
dask_scheduler	string	Dask scheduler IP
dask_config	file	Optional path to the dask config. If this is not specified pass in as empty list.
ncpus	integer	Number of cpus needed to run the main ometiff to n5 program
mem_gb	string	Memory needed for the main ometiff to n5 program

Name	Type	Description
meta	map	Groovy map containing: id, input_image_dataset, output_image_name
versions	file	File containing software versions

Include this module in your Nextflow pipeline:

include { OMETIFF_TO_N5 } from 'https://github.com/JaneliaSciComp/nextflow-modules/tree/main/modules/janelia/ometiff_to_n5'