raw2ometiff
Raw format to OME-TIFF converter
Archived This repository is archived: read-only and no longer maintained.
Fork A fork of glencoesoftware/raw2ometiff; the README may describe the upstream project.
Overview
Java application to convert a directory of tiles to an OME-TIFF pyramid. This is the second half of iSyntax/.mrxs => OME-TIFF conversion.
libblosc (https://github.com/Blosc/c-blosc) version 1.9.0 or later must be installed separately. The native libraries are not packaged with any relevant jars. See also note in jzarr readme (https://github.com/bcdev/jzarr/blob/master/README.md)
https://github.com/glencoesoftware/raw2ometiff/releases
git clone git@github.com:glencoesoftware/raw2ometiff.git
Run the conversion (Bio-Formats 6.x):
raw2ometiff tile_directory pyramid.ome.tiff
or generate a 5.9.x-compatible pyramid:
raw2ometiff tile_directory pyramid.tiff --legacy
The input tile directory must contain a full pyramid in a Zarr container.
Tile compression is performed in parallel. The number of workers can be changed using the --max_workers option.
From the project’s README on GitHub.
At a glance
| Repository | Kentucky-Open-Science/raw2ometiff |
|---|---|
| Research area | Forks of other projects |
| Primary language | None detected |
| License | GPL-2.0 |
| Stars / forks | 0 / 0 |
| Open issues and pull requests | 0 |
| Created | 2022-08-07 |
| Last push | 2022-07-07 |
| Default branch | master |
| Forked from | glencoesoftware/raw2ometiff — Raw format to OME-TIFF converter |
What the README covers
- Requirements
- Installation
- Development Installation
- Eclipse Configuration
- Usage
- Areas to improve
- License
Top contributors
- @chris-allan (132 commits)
- @melissalinkert (91 commits)
- @joshmoore (1 commit)
Get the code
git clone https://github.com/Kentucky-Open-Science/raw2ometiff.git