Open an OMERO dataset into Fiji with caching #BIOP #Fiji

OpenOMERO.groovy

// Open a URL from OMERO with caching into Fiji as an ImagePlus
// Requires PTBIOP and OMERO 5.5 5.6 update site
// Written by Nicolas Chiaruttini on 24th Jan 2025
// Try https://omero-tim.gerbi-gmb.de/webclient/?show=image-104300 with:
// login: read-tim
// passwd: read-tim

#@CommandService cs
#@String(label="omero url") url
#@SourceAndConverterService source_service

// Creates a SpimData object
def sd  = cs.run(CreateBdvDatasetOMEROCommand.class, true,
	"datasetname", url,
	"omero_urls", url,
	"unit", "MICROMETER",
	"plane_origin_convention", "CENTER").get().getOutput("spimdata")

// Retrieves sources from spimdata
def sources = source_service.getSourceAndConverterFromSpimdata(sd)

// Gets ImagePlus of Dataset highest resolution level, virtual stack with caching at the bdv level, not at the ImagePlus level
def image = cs.run(ExportToMultipleImagePlusCommand.class, true,
	"sacs", sources as SourceAndConverter[],
	"level", 0,
	"range_channels", "",
	"range_slices", "",
	"range_frames", "",
	"export_mode", "Virtual no-cache", // could also be "Virtual"
	"monitor", false,
	"parallel", false,
	"parallel_c", false,
	"parallel_z", false,
	"parallel_t", false,
	"entities_split", "",
	"verbose", false).get().getOutput("imps_out")[0]


import ch.epfl.biop.bdv.img.omero.command.CreateBdvDatasetOMEROCommand
import ch.epfl.biop.scijava.command.source.ExportToMultipleImagePlusCommand
import bdv.viewer.SourceAndConverter