I generated a ome.tif image with 3 different channel. But I wrote the ome-xml part directly by myself and overwrote. However, when I see the image from OMERO.insight after I import it to my server (4.2.1), the color of each channel is blue, green, blue for channel 0, 1, 2, respectively.
I thought it is usually ordered as red, green, and blue for ch 0, 1, 2.
the ome-xml part of theimage is something like this. could anyone tell me about this?
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<OME xmlns="http://www.openmicroscopy.org/Schemas/OME/2010-06" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.openmicroscopy.org/Schemas/OME/2010-06 http://www.openmicroscopy.org/Schemas/OME/2010-06/ome.xsd">
<Instrument ID="Instrument:In001">
<Microscope Manufacturer="Beckman-Coulter" SerialNumber="S4SID479780"/><Detector ID="Detector:D004" Manufacturer="Orca" Model="C4742-80-12AG" SerialNumber="620280" Type="CCD"/><Objective ID="Objective:O005" LensNA="0.9" Manufacturer="Nikon" Model="S Fluor" NominalMagnification="40" SerialNumber="062364"/><Filter ID="Filter:0" Type="BandPass">
<TransmittanceRange CutIn="477" CutOut="491"/>
</Filter><Filter ID="Filter:1" Type="BandPass">
<TransmittanceRange CutIn="502" CutOut="532"/>
</Filter><Filter ID="Filter:2" Type="BandPass">
<TransmittanceRange CutIn="437" CutOut="451"/>
</Filter><Filter ID="Filter:3" Type="BandPass">
<TransmittanceRange CutIn="351" CutOut="373"/>
</Filter><Filter ID="Filter:4" Type="BandPass">
<TransmittanceRange CutIn="321" CutOut="350"/>
</Filter><Filter ID="Filter:5" Type="BandPass">
<TransmittanceRange CutIn="200" CutOut="211"/>
</Filter></Instrument>
<Image ID="Image:I001">
<InstrumentRef ID="Instrument:In001">
</InstrumentRef>
<Pixels DimensionOrder="XYCZT" ID="Pixels:P001" SizeC="3" SizeT="1" SizeX="1344" SizeY="1024" SizeZ="1" Type="uint8">
<Channel ID="Channel:0:0" Name="dna" SamplesPerPixel="1">
<LightPath>
<ExcitationFilterRef ID="Filter:2"/>
<EmissionFilterRef ID="Filter:3"/>
</LightPath>
</Channel><Channel ID="Channel:0:1" Name="ATP_synthase" SamplesPerPixel="1">
<LightPath>
<ExcitationFilterRef ID="Filter:0"/>
<EmissionFilterRef ID="Filter:1"/>
</LightPath>
</Channel><Channel ID="Channel:0:2" Name="autofluorescence" SamplesPerPixel="1">
<LightPath>
<ExcitationFilterRef ID="Filter:4"/>
<EmissionFilterRef ID="Filter:5"/>
</LightPath>
</Channel><TiffData FirstC="0" FirstT="0" FirstZ="0" IFD="0" PlaneCount="1"/><TiffData FirstC="1" FirstT="0" FirstZ="0" IFD="1" PlaneCount="1"/><TiffData FirstC="2" FirstT="0" FirstZ="0" IFD="2" PlaneCount="1"/><Plane ExposureTime="4" TheC="0" TheT="0" TheZ="0"/><Plane ExposureTime="5" TheC="1" TheT="0" TheZ="0"/><Plane ExposureTime="6" TheC="2" TheT="0" TheZ="0"/></Pixels>
</Image>
</OME>
And could you also tell me how to apply a manual color to each channel?
I know there is an attribute in the ome-xml where I can change the color for each channel.
which is /OME/Image/Pixels/Channel@Color.
the color value should be a signed 32 bit value.
then what is the 32bit signed number for Red, Green, and Blue color?
