├── .github ├── build.sh ├── setup.sh └── workflows │ ├── build-main.yml │ └── build-pr.yml ├── .gitignore ├── CITATION.cff ├── README.md ├── images ├── 0-kheops_logo.png ├── 1-image_single_file.png ├── 5-downscaling.png ├── batch-command.png ├── bench-batch-bftools.png ├── bench-batch-glencoe.png ├── bench-batch-kheops.png ├── img.png └── search-bar.png ├── license.txt ├── pom.xml └── src ├── main └── java │ └── ch │ └── epfl │ └── biop │ ├── ImagePlusToOMETiff.java │ └── kheops │ ├── CZTRange.java │ ├── IntRangeParser.java │ ├── KheopsHelper.java │ ├── SourceAndConverterFromSpimDataCreator.java │ ├── command │ ├── KheopsBatchCommand.java │ ├── KheopsCommand.java │ ├── KheopsDocCommand.java │ ├── KheopsExportImagePlusCommand.java │ ├── KheopsExportSourcesCommand.java │ └── deprecated │ │ ├── KheopsAdvCommand.java │ │ ├── KheopsMainCommand.java │ │ └── KheopsSimpleCommand.java │ └── ometiff │ ├── AverageImageScaler.java │ ├── OMETiffExporter.java │ ├── SourceToByteArray.java │ ├── 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