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Merge pull request #37 from chris-allan/releases-in-readme
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Add more "release" style documentation to README
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chris-allan authored Jul 2, 2020
2 parents 40df9e2 + 8dd8a9e commit 17debd6
Showing 1 changed file with 34 additions and 10 deletions.
44 changes: 34 additions & 10 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -12,26 +12,44 @@ Requirements
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 n5-zarr readme (https://github.com/saalfeldlab/n5-zarr/blob/0.0.2-beta/README.md)

Usage
=====
* Mac OSX: `brew install c-blosc`
* Ubuntu 18.04+: `apt-get install libblosc1`

Installation
============

1. Download and unpack a release artifact:

https://github.com/glencoesoftware/raw2ometiff/releases

Development Installation
========================

1. Clone the repository:

Build with Gradle:
git clone [email protected]:glencoesoftware/raw2ometiff.git

gradle clean build
2. Run the Gradle build as required, a list of available tasks can be found by running:

Unpack the distribution:
./gradlew tasks

cd build/distributions
unzip raw2ometiff-$VERSION.zip
cd raw2ometiff-$VERSION
Eclipse Configuration
=====================

1. Run the Gradle Eclipse task:

./gradlew eclipse

Usage
=====

Run the conversion (Bio-Formats 6.x):

bin/raw2ometiff tile_directory pyramid.ome.tiff
raw2ometiff tile_directory pyramid.ome.tiff

or generate a 5.9.x-compatible pyramid:

bin/raw2ometiff tile_directory pyramid.tiff --legacy
raw2ometiff tile_directory pyramid.tiff --legacy

The input tile directory must contain a full pyramid in a Zarr or N5 container.

Expand All @@ -45,3 +63,9 @@ Areas to improve
* Compatibility with both iSyntax and .mrxs
- map JSON metadata to OME-XML (magnification etc.)
- fix tile sizes used when downsampling (TIFF input only)

License
=======

The converter is distributed under the terms of the GPL license.
Please see `LICENSE.txt` for further details.

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