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Attributes
Diagrams
Facets
Identity Constraints
Instances
Model
Properties
Source
Used by
Main schema ome.xsd
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
Open Microscopy Environment
OME XML Schema June 2013
Author:  Ilya G. Goldberg, Andrew J Patterson
Properties
attribute form default unqualified
element form default qualified
version 1
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element OME
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The OME element is a container for all information objects accessible by OME.
				These information objects include descriptions of the imaging experiments
				and the people who perform them, descriptions of the microscope, the resulting
				images and how they were acquired, the analyses performed on those images,
				and the analysis results themselves.
				An OME file may contain any or all of this information.

				With the creation of the Metadata Only Companion OME-XML and Binary Only OME-TIFF files
				the top level OME node has changed slightly.
				It can EITHER:
				    Contain all the previously expected elements
				OR:
				    Contain a single BinaryOnly element that points at
				    its Metadata Only Companion OME-XML file.
Diagram
Diagram ome_xsd.tmp#OME_UUID ome_xsd.tmp#OME_Creator ome_xsd.tmp#Rights ome_xsd.tmp#Project ome_xsd.tmp#Dataset ome_xsd.tmp#Experiment SPW_xsd.tmp#Plate SPW_xsd.tmp#Screen ome_xsd.tmp#Experimenter ome_xsd.tmp#ExperimenterGroup ome_xsd.tmp#Instrument ome_xsd.tmp#Image SA_xsd.tmp#StructuredAnnotations ROI_xsd.tmp#ROI ome_xsd.tmp#OME_BinaryOnly
Properties
content complex
Model
Children BinaryOnly, Dataset, Experiment, Experimenter, ExperimenterGroup, Image, Instrument, Plate, Project, ROI, Rights, Screen, StructuredAnnotations
Instance
<OME Creator="" UUID="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:SPW="http://www.openmicroscopy.org/Schemas/SPW/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06" xmlns:ROI="http://www.openmicroscopy.org/Schemas/ROI/2013-06">
  <Rights>{0,1}</Rights>
  <Project ID="" Name="">{0,unbounded}</Project>
  <Dataset ID="" Name="">{0,unbounded}</Dataset>
  <Experiment ID="" Type="">{0,unbounded}</Experiment>
  <SPW:Plate ColumnNamingConvention="" Columns="" ExternalIdentifier="" FieldIndex="" ID="" Name="" RowNamingConvention="" Rows="" Status="" WellOriginX="" WellOriginY="">{0,unbounded}</SPW:Plate>
  <SPW:Screen ID="" Name="" ProtocolDescription="" ProtocolIdentifier="" ReagentSetDescription="" ReagentSetIdentifier="" Type="">{0,unbounded}</SPW:Screen>
  <Experimenter Email="" FirstName="" ID="" Institution="" LastName="" MiddleName="" UserName="">{0,unbounded}</Experimenter>
  <ExperimenterGroup ID="" Name="">{0,unbounded}</ExperimenterGroup>
  <Instrument ID="">{0,unbounded}</Instrument>
  <Image ID="" Name="">{0,unbounded}</Image>
  <SA:StructuredAnnotations>{0,1}</SA:StructuredAnnotations>
  <ROI:ROI ID="" Name="" Namespace="">{0,unbounded}</ROI:ROI>
  <BinaryOnly MetadataFile="" UUID="">{1,1}</BinaryOnly>
</OME>
Attributes
QName Type Use Annotation
Creator xsd:string optional
This is the name of the creating application of the OME-XML
and preferably its full version.
e.g "CompanyName, SoftwareName, V2.6.3456"
This is optional but we hope it will be set by applications
writing out OME-XML from scratch.
UUID UniversallyUniqueIdentifier optional
This unique identifier is used to keep track of multi part files.
						It allows the links between files to survive renaming.

						While OPTIONAL in the general case this is REQUIRED in a
						MetadataOnly Companion to a collection of BinaryOnly files.
Source
<xsd:element name="OME">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:documentation>The OME element is a container for all information objects accessible by OME. These information objects include descriptions of the imaging experiments and the people who perform them, descriptions of the microscope, the resulting images and how they were acquired, the analyses performed on those images, and the analysis results themselves. An OME file may contain any or all of this information. With the creation of the Metadata Only Companion OME-XML and Binary Only OME-TIFF files the top level OME node has changed slightly. It can EITHER: Contain all the previously expected elements OR: Contain a single BinaryOnly element that points at its Metadata Only Companion OME-XML file.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element ref="Rights" minOccurs="0" maxOccurs="1"/>
      <xsd:choice>
        <!-- Either: standard expected elements -->
        <xsd:sequence>
          <xsd:element ref="Project" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="Dataset" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="Experiment" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="SPW:Plate" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="SPW:Screen" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="Experimenter" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="ExperimenterGroup" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="Instrument" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="Image" minOccurs="0" maxOccurs="unbounded"/>
          <xsd:element ref="SA:StructuredAnnotations" minOccurs="0" maxOccurs="1"/>
          <xsd:element ref="ROI:ROI" minOccurs="0" maxOccurs="unbounded"/>
        </xsd:sequence>
        <!-- Or: Single BinaryOnly element -->
        <xsd:element name="BinaryOnly" minOccurs="1" maxOccurs="1">
          <xsd:annotation>
            <xsd:documentation>Pointer to an external metadata file. If this element is present, then no other metadata may be present in this file, i.e. this file is a place-holder.</xsd:documentation>
          </xsd:annotation>
          <xsd:complexType>
            <xsd:attribute name="MetadataFile" type="xsd:string" use="required">
              <xsd:annotation>
                <xsd:documentation>Filename of the OME-XML metadata file for this binary data. If the file cannot be found, a search can be performed based on the UUID.</xsd:documentation>
              </xsd:annotation>
            </xsd:attribute>
            <xsd:attribute name="UUID" type="UniversallyUniqueIdentifier" use="required">
              <xsd:annotation>
                <xsd:documentation>The unique identifier of another OME-XML block whose metadata describes the binary data in this file. This UUID is considered authoritative regardless of mismatches in the filename.</xsd:documentation>
              </xsd:annotation>
            </xsd:attribute>
          </xsd:complexType>
        </xsd:element>
        <!-- End of MetadataOnly Element -->
      </xsd:choice>
    </xsd:sequence>
    <xsd:attribute name="UUID" type="UniversallyUniqueIdentifier" use="optional">
      <xsd:annotation>
        <xsd:documentation>This unique identifier is used to keep track of multi part files. It allows the links between files to survive renaming. While OPTIONAL in the general case this is REQUIRED in a MetadataOnly Companion to a collection of BinaryOnly files.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Creator" type="xsd:string" use="optional">
      <xsd:annotation>
        <xsd:documentation>This is the name of the creating application of the OME-XML and preferably its full version. e.g "CompanyName, SoftwareName, V2.6.3456" This is optional but we hope it will be set by applications writing out OME-XML from scratch.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
  <!-- Unique IDs -->
  <xsd:key name="ChannelIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="DatasetIDKey">
    <xsd:selector xpath="OME:Dataset"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="DetectorIDKey">
    <xsd:selector xpath="OME:Instrument/OME:Detector"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="DichroicIDKey">
    <xsd:selector xpath="OME:Instrument/OME:Dichroic"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ExperimentIDKey">
    <xsd:selector xpath="OME:Experiment"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ExperimenterIDKey">
    <xsd:selector xpath="OME:Experimenter"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="FilterIDKey">
    <xsd:selector xpath="OME:Instrument/OME:Filter"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="FilterSetIDKey">
    <xsd:selector xpath="OME:Instrument/OME:FilterSet"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ExperimenterGroupIDKey">
    <xsd:selector xpath="OME:ExperimenterGroup"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ImageIDKey">
    <xsd:selector xpath="OME:Image"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="InstrumentIDKey">
    <xsd:selector xpath="OME:Instrument"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="LightSourceIDKey">
    <xsd:selector xpath="OME:Instrument/OME:LightSource"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="MicrobeamManipulationIDKey">
    <xsd:selector xpath="OME:Experiment/OME:MicrobeamManipulation"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ObjectiveIDKey">
    <xsd:selector xpath="OME:Instrument/OME:Objective"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="PixelsIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="PlateIDKey">
    <xsd:selector xpath="SPW:Plate"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ProjectIDKey">
    <xsd:selector xpath="OME:Project"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ReagentIDKey">
    <xsd:selector xpath="SPW:Screen/SPW:Reagent"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ScreenAcquisitionIDKey">
    <xsd:selector xpath="SPW:Screen/SPW:ScreenAcquisition"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ScreenIDKey">
    <xsd:selector xpath="SPW:Screen"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="WellIDKey">
    <xsd:selector xpath="SPW:Plate/SPW:Well"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="WellSampleIDKey">
    <xsd:selector xpath="SPW:Plate/SPW:Well/SPW:WellSample"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ROIIDKey">
    <xsd:selector xpath="ROI:ROI"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="ShapeIDKey">
    <xsd:selector xpath="ROI:ROI/ROI:Union/ROI:Shape"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <xsd:key name="AnnotationIDKey">
    <xsd:selector xpath="SA:StructuredAnnotations/*"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <!-- Unique references -->
  <xsd:key name="WellSampleImageRefIDKey">
    <xsd:selector xpath="SPW:Plate/SPW:Well/SPW:WellSample/OME:ImageRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:key>
  <!-- Valid references -->
  <xsd:keyref name="DatasetExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:Dataset/OME:ExperimenterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="DatasetExperimenterGroupIDKeyRef" refer="OME:ExperimenterGroupIDKey">
    <xsd:selector xpath="OME:Dataset/OME:ExperimenterGroupRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="DatasetProjectIDKeyRef" refer="OME:ProjectIDKey">
    <xsd:selector xpath="OME:Dataset/OME:ProjectRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimentExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:Experiment/OME:ExperimenterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimentMicrobeamManipulationExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:Experiment/OME:MicrobeamManipulation/OME:ExperimenterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimentMicrobeamManipulationLightSourceSettingsLightSourceIDKeyRef" refer="OME:LightSourceIDKey">
    <xsd:selector xpath="OME:Experiment/OME:MicrobeamManipulation/OME:LightSourceSettings"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimenterExperimenterGroupIDKeyRef" refer="OME:ExperimenterGroupIDKey">
    <xsd:selector xpath="OME:Experimenter/OME:ExperimenterGroupRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimenterGroupContactExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:ExperimenterGroup/OME:Contact"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimenterGroupLeaderExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:ExperimenterGroup/OME:Leader"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageDatasetIDKeyRef" refer="OME:DatasetIDKey">
    <xsd:selector xpath="OME:Image/OME:DatasetRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:Image/OME:ExperimenterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageExperimentIDKeyRef" refer="OME:ExperimentIDKey">
    <xsd:selector xpath="OME:Image/OME:ExperimentRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageExperimenterGroupIDKeyRef" refer="OME:ExperimenterGroupIDKey">
    <xsd:selector xpath="OME:Image/OME:ExperimenterGroupRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageInstrumentIDKeyRef" refer="OME:InstrumentIDKey">
    <xsd:selector xpath="OME:Image/OME:InstrumentRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageMicrobeamManipulationIDKeyRef" refer="OME:MicrobeamManipulationIDKey">
    <xsd:selector xpath="OME:Image/OME:MicrobeamManipulationRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageObjectiveSettingsObjectiveIDKeyRef" refer="OME:ObjectiveIDKey">
    <xsd:selector xpath="OME:Image/OME:ObjectiveSettings"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelDetectorSettingsDetectorIDKeyRef" refer="OME:DetectorIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:DetectorSettings"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelFilterSetIDKeyRef" refer="OME:FilterSetIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:FilterSetRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelLightPathExcitationFilterIDKeyRef" refer="OME:FilterIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:LightPath/OME:ExcitationFilterPath/OME:FilterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelLightPathExcitationDichroicIDKeyRef" refer="OME:DichroicIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:LightPath/OME:ExcitationFilterPath/OME:DichroicRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelLightPathDichroicIDKeyRef" refer="OME:DichroicIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:LightPath/OME:DichroicRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelLightPathEmissionFilterIDKeyRef" refer="OME:FilterIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:LightPath/OME:EmissionFilterPath/OME:FilterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelLightPathEmissionDichroicIDKeyRef" refer="OME:DichroicIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:LightPath/OME:EmissionFilterPath/OME:DichroicRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImagePixelsChannelLightSourceSettingsLightSourceIDKeyRef" refer="OME:LightSourceIDKey">
    <xsd:selector xpath="OME:Image/OME:Pixels/OME:Channel/OME:LightSourceSettings"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="InstrumentFilterSetExcitationFilterIDKeyRef" refer="OME:FilterIDKey">
    <xsd:selector xpath="OME:Instrument/OME:FilterSet/OME:ExcitationFilterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="InstrumentFilterSetDichroicIDKeyRef" refer="OME:DichroicIDKey">
    <xsd:selector xpath="OME:Instrument/OME:FilterSet/OME:DichroicRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="InstrumentFilterSetEmissionFilterIDKeyRef" refer="OME:FilterIDKey">
    <xsd:selector xpath="OME:Instrument/OME:FilterSet/OME:EmissionFilterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="InstrumentLightSourceLaserPumpLightSourceIDKey" refer="OME:LightSourceIDKey">
    <xsd:selector xpath="OME:Instrument/OME:LightSource/OME:Laser/OME:Pump"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="PlateScreenIDKeyRef" refer="OME:ScreenIDKey">
    <xsd:selector xpath="SPW:Plate/SPW:ScreenRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="PlateWellReagentIDKeyRef" refer="OME:ReagentIDKey">
    <xsd:selector xpath="SPW:Plate/SPW:Well/SPW:ReagentRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="PlateWellWellSampleImageIDKeyRef" refer="OME:ImageIDKey">
    <xsd:selector xpath="SPW:Plate/SPW:Well/SPW:WellSample/SPW:ImageRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ProjectExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="OME:Project/OME:ExperimenterRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ProjectExperimenterGroupIDKeyRef" refer="OME:ExperimenterGroupIDKey">
    <xsd:selector xpath="OME:Project/OME:ExperimenterGroupRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ScreenPlateIDKeyRef" refer="OME:PlateIDKey">
    <xsd:selector xpath="SPW:Screen/SPW:PlateRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ScreenScreenAcquisitionWellSampleIDKeyRef" refer="OME:WellSampleIDKey">
    <xsd:selector xpath="SPW:Screen/SPW:ScreenAcquisition/SPW:WellSampleRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ExperimentMicrobeamManipulationROIIDKeyRef" refer="OME:ROIIDKey">
    <xsd:selector xpath="OME:Experiment/OME:MicrobeamManipulation/ROI:ROIRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="ImageROIIDKeyRef" refer="OME:ROIIDKey">
    <xsd:selector xpath="OME:Image/ROI:ROIRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="AnnotationRefAnnotationIDKeyRef" refer="OME:AnnotationIDKey">
    <xsd:selector xpath=".//SA:AnnotationRef"/>
    <xsd:field xpath="@ID"/>
  </xsd:keyref>
  <xsd:keyref name="AnnotationAnnotatorExperimenterIDKeyRef" refer="OME:ExperimenterIDKey">
    <xsd:selector xpath="SA:StructuredAnnotations/*"/>
    <xsd:field xpath="@Annotator"/>
  </xsd:keyref>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Rights
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The rights holder of this data and the rights held.
Diagram
Diagram ome_xsd.tmp#Rights_RightsHolder ome_xsd.tmp#Rights_RightsHeld
Properties
content complex
Used by
Element OME
Model
Children RightsHeld, RightsHolder
Instance
<Rights xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <RightsHolder>{0,1}</RightsHolder>
  <RightsHeld>{0,1}</RightsHeld>
</Rights>
Source
<xsd:element name="Rights">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Rights</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The rights holder of this data and the rights held.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="RightsHolder" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>The rights holder for this data. [plane text multi-line string] e.g. "Copyright (C) 2002-2013 Open Microscopy Environment"</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element name="RightsHeld" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>The rights held by the rights holder. [plane text multi-line string] e.g. "All rights reserved" or "Creative Commons Attribution 3.0 Unported License"</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
    </xsd:sequence>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Rights / RightsHolder
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The rights holder for this data. [plane text multi-line string]
e.g. "Copyright (C) 2002-2013 Open Microscopy Environment"
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="RightsHolder" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>The rights holder for this data. [plane text multi-line string] e.g. "Copyright (C) 2002-2013 Open Microscopy Environment"</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Rights / RightsHeld
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The rights held by the rights holder. [plane text multi-line string] 
e.g. "All rights reserved" or "Creative Commons Attribution 3.0 Unported License"
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="RightsHeld" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>The rights held by the rights holder. [plane text multi-line string] e.g. "All rights reserved" or "Creative Commons Attribution 3.0 Unported License"</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Project
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The Project ID is required.
Datasets can be grouped into projects using a many-to-many relationship.
A Dataset may belong to one or more Projects by including one or more ProjectRef elements which refer to Project IDs.
Projects do not directly contain images - only by virtue of containing datasets, which themselves contain images.
Diagram
Diagram ome_xsd.tmp#Project_Name ome_xsd.tmp#Project_ID ome_xsd.tmp#Project_Description ome_xsd.tmp#ExperimenterRef ome_xsd.tmp#ExperimenterGroupRef ome_xsd.tmp#DatasetRef SA_xsd.tmp#AnnotationRef
Properties
content complex
Used by
Element OME
Model
Children AnnotationRef, DatasetRef, Description, ExperimenterGroupRef, ExperimenterRef
Instance
<Project ID="" Name="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <Description>{0,1}</Description>
  <ExperimenterRef ID="">{0,1}</ExperimenterRef>
  <ExperimenterGroupRef ID="">{0,1}</ExperimenterGroupRef>
  <DatasetRef ID="">{0,unbounded}</DatasetRef>
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
</Project>
Attributes
QName Type Use
ID ProjectID required
Name xsd:string optional
Source
<xsd:element name="Project">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Projects</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The Project ID is required. Datasets can be grouped into projects using a many-to-many relationship. A Dataset may belong to one or more Projects by including one or more ProjectRef elements which refer to Project IDs. Projects do not directly contain images - only by virtue of containing datasets, which themselves contain images.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="Description" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>A description for the project. [plane text multi-line string]</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element ref="ExperimenterRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="ExperimenterGroupRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="DatasetRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="Name" use="optional" type="xsd:string"/>
    <xsd:attribute name="ID" use="required" type="ProjectID"/>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Project / Description
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description for the project. [plane text multi-line string]
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="Description" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>A description for the project. [plane text multi-line string]</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ExperimenterRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This empty element has a required Experimenter ID and an optional DocumentID attribute which refers to one of the Experimenters defined within OME.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#ExperimenterRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Attributes
QName Type Use
ID ExperimenterID required
Source
<xsd:element name="ExperimenterRef">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:documentation>This empty element has a required Experimenter ID and an optional DocumentID attribute which refers to one of the Experimenters defined within OME.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="ExperimenterID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ExperimenterGroupRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This empty element has a reference (the ExperimenterGroup ID attribute) to a ExperimenterGroup defined within OME.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#ExperimenterGroupRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Elements Dataset, Image, Project
Attributes
QName Type Use
ID ExperimenterGroupID required
Source
<xsd:element name="ExperimenterGroupRef">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:documentation>This empty element has a reference (the ExperimenterGroup ID attribute) to a ExperimenterGroup defined within OME.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="ExperimenterGroupID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element DatasetRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The DatasetRef element refers to a Dataset by specifying the Dataset ID attribute.
One or more DatasetRef elements may be listed within the Image element to specify what Datasets
the Image belongs to.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#DatasetRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Element Project
Attributes
QName Type Use
ID DatasetID required
Source
<xsd:element name="DatasetRef">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:documentation>The DatasetRef element refers to a Dataset by specifying the Dataset ID attribute. One or more DatasetRef elements may be listed within the Image element to specify what Datasets the Image belongs to.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="DatasetID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Dataset
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
An element specifying a collection of images that are always processed together.
Images can belong to more than one Dataset, and a Dataset may contain more than one Image.
Images contain one or more DatasetRef elements to specify what datasets they belong to.
Once a Dataset has been processed in any way, its collection of images cannot be altered.
The ExperimenterRef and ExperimenterGroupRef elements specify the person and group this Dataset belongs to.
Projects may contain one or more Datasets, and Datasets may belong to one or more Projects.
This relationship is specified by listing DatasetRef elements within the Project element.
Diagram
Diagram ome_xsd.tmp#Dataset_Name ome_xsd.tmp#Dataset_ID ome_xsd.tmp#Dataset_Description ome_xsd.tmp#ExperimenterRef ome_xsd.tmp#ExperimenterGroupRef ome_xsd.tmp#ImageRef SA_xsd.tmp#AnnotationRef
Properties
content complex
Used by
Element OME
Model
Children AnnotationRef, Description, ExperimenterGroupRef, ExperimenterRef, ImageRef
Instance
<Dataset ID="" Name="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <Description>{0,1}</Description>
  <ExperimenterRef ID="">{0,1}</ExperimenterRef>
  <ExperimenterGroupRef ID="">{0,1}</ExperimenterGroupRef>
  <ImageRef ID="">{0,unbounded}</ImageRef>
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
</Dataset>
Attributes
QName Type Use Annotation
ID DatasetID required
Name xsd:string optional
A name for the dataset that is suitable be presented to the user.
Source
<xsd:element name="Dataset">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Datasets</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>An element specifying a collection of images that are always processed together. Images can belong to more than one Dataset, and a Dataset may contain more than one Image. Images contain one or more DatasetRef elements to specify what datasets they belong to. Once a Dataset has been processed in any way, its collection of images cannot be altered. The ExperimenterRef and ExperimenterGroupRef elements specify the person and group this Dataset belongs to. Projects may contain one or more Datasets, and Datasets may belong to one or more Projects. This relationship is specified by listing DatasetRef elements within the Project element.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="Description" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>A description for the dataset. [plane text multi-line string]</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element ref="ExperimenterRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="ExperimenterGroupRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="ImageRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="Name" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>A name for the dataset that is suitable be presented to the user.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="ID" use="required" type="DatasetID"/>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Dataset / Description
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description for the dataset. [plane text multi-line string]
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="Description" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>A description for the dataset. [plane text multi-line string]</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ImageRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The ImageRef element is a reference to a OME:Image element.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#ImageRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Elements Dataset, WellSample
Attributes
QName Type Use
ID ImageID required
Source
<xsd:element name="ImageRef">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:documentation>The ImageRef element is a reference to a OME:Image element.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="ImageID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Experiment
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This element describes the type of experiment.  The required Type attribute must contain one or more entries from the following list:
FP FRET Time-lapse 4-D+ Screen Immunocytochemistry FISH Electrophysiology  Ion-Imaging Colocalization PGI/Documentation
FRAP Photoablation Optical-Trapping Photoactivation Fluorescence-Lifetime Spectral-Imaging Other
FP refers to fluorescent proteins, PGI/Documentation is not a 'data' image.
The optional Description element may contain free text to further describe the experiment.
Diagram
Diagram ome_xsd.tmp#Experiment_Type ome_xsd.tmp#Experiment_ID ome_xsd.tmp#Experiment_Description ome_xsd.tmp#ExperimenterRef ome_xsd.tmp#MicrobeamManipulation
Properties
content complex
Used by
Element OME
Model
Children Description, ExperimenterRef, MicrobeamManipulation
Instance
<Experiment ID="" Type="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <Description>{0,1}</Description>
  <ExperimenterRef ID="">{0,1}</ExperimenterRef>
  <MicrobeamManipulation ID="" Type="">{0,unbounded}</MicrobeamManipulation>
</Experiment>
Attributes
QName Type Use Annotation
ID ExperimentID required
Type list of restriction of xsd:string optional
A term to describe the type of experiment.
Source
<xsd:element name="Experiment">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Experiments</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This element describes the type of experiment. The required Type attribute must contain one or more entries from the following list: FP FRET Time-lapse 4-D+ Screen Immunocytochemistry FISH Electrophysiology Ion-Imaging Colocalization PGI/Documentation FRAP Photoablation Optical-Trapping Photoactivation Fluorescence-Lifetime Spectral-Imaging Other FP refers to fluorescent proteins, PGI/Documentation is not a 'data' image. The optional Description element may contain free text to further describe the experiment.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="Description" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>A description for the experiment. [plane text multi-line string]</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element ref="ExperimenterRef" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>This is a link to the Experimenter who conducted the experiment</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="MicrobeamManipulation" minOccurs="0" maxOccurs="unbounded"/>
    </xsd:sequence>
    <xsd:attribute name="Type" use="optional">
      <xsd:annotation>
        <xsd:documentation>A term to describe the type of experiment.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:list>
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="FP"/>
              <xsd:enumeration value="FRET"/>
              <!-- Förster resonance energy transfer, also known as fluorescence resonance energy transfer, resonance energy transfer (RET) or electronic energy transfer (EET) -->
              <xsd:enumeration value="TimeLapse"/>
              <!--  Time-lapse microscopy (microphotography, photomicrography) -->
              <xsd:enumeration value="FourDPlus"/>
              <xsd:enumeration value="Screen"/>
              <xsd:enumeration value="Immunocytochemistry"/>
              <xsd:enumeration value="Immunofluorescence"/>
              <xsd:enumeration value="FISH"/>
              <!-- Fluorescent in situ hybridization -->
              <xsd:enumeration value="Electrophysiology"/>
              <xsd:enumeration value="IonImaging"/>
              <xsd:enumeration value="Colocalization"/>
              <xsd:enumeration value="PGIDocumentation"/>
              <xsd:enumeration value="FluorescenceLifetime"/>
              <!-- Fluorescence lifetime imaging (FLIM) -->
              <xsd:enumeration value="SpectralImaging"/>
              <xsd:enumeration value="Photobleaching"/>
              <xsd:enumeration value="SPIM"/>
              <!-- Selective or Single Plane Illumination Microscopy -->
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:list>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="ID" use="required" type="ExperimentID"/>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Experiment / Description
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description for the experiment. [plane text multi-line string]
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="Description" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>A description for the experiment. [plane text multi-line string]</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element MicrobeamManipulation
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
Defines a microbeam operation type and the region of the image it was applied to.
The LightSourceRef element is a reference to a LightSource specified in the Instrument element which was used for a technique other than illumination for
the purpose of imaging. For example, a laser used for photobleaching.
Diagram
Diagram ome_xsd.tmp#MicrobeamManipulation_ID ome_xsd.tmp#MicrobeamManipulation_Type ome_xsd.tmp#MicrobeamManipulation_Description ROI_xsd.tmp#ROIRef ome_xsd.tmp#ExperimenterRef ome_xsd.tmp#LightSourceSettings
Properties
content complex
Used by
Element Experiment
Model
Children Description, ExperimenterRef, LightSourceSettings, ROIRef
Instance
<MicrobeamManipulation ID="" Type="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:ROI="http://www.openmicroscopy.org/Schemas/ROI/2013-06">
  <Description>{0,1}</Description>
  <ROI:ROIRef ID="">{1,unbounded}</ROI:ROIRef>
  <ExperimenterRef ID="">{1,1}</ExperimenterRef>
  <LightSourceSettings Attenuation="" ID="" Wavelength="">{0,unbounded}</LightSourceSettings>
</MicrobeamManipulation>
Attributes
QName Type Use Annotation
ID MicrobeamManipulationID required
Type list of restriction of xsd:string optional
The type of manipulation performed.
Source
<xsd:element name="MicrobeamManipulation">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>MicrobeamManipulations</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>Defines a microbeam operation type and the region of the image it was applied to. The LightSourceRef element is a reference to a LightSource specified in the Instrument element which was used for a technique other than illumination for the purpose of imaging. For example, a laser used for photobleaching.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="Description" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>A description for the Microbeam Manipulation. [plane text multi-line string]</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element ref="ROI:ROIRef" minOccurs="1" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="ExperimenterRef" minOccurs="1" maxOccurs="1"/>
      <xsd:element ref="LightSourceSettings" minOccurs="0" maxOccurs="unbounded"/>
    </xsd:sequence>
    <xsd:attribute name="ID" use="required" type="MicrobeamManipulationID"/>
    <xsd:attribute name="Type" use="optional">
      <xsd:annotation>
        <xsd:documentation>The type of manipulation performed.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:list>
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="FRAP"/>
              <!-- Fluorescence recovery after photobleaching -->
              <xsd:enumeration value="FLIP"/>
              <!-- Fluorescence Loss in Photobleaching -->
              <xsd:enumeration value="InverseFRAP"/>
              <!-- iFRAP, inverse FRAP -->
              <xsd:enumeration value="Photoablation"/>
              <xsd:enumeration value="Photoactivation"/>
              <xsd:enumeration value="Uncaging"/>
              <xsd:enumeration value="OpticalTrapping"/>
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:list>
      </xsd:simpleType>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element MicrobeamManipulation / Description
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description for the Microbeam Manipulation. [plane text multi-line string]
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="Description" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>A description for the Microbeam Manipulation. [plane text multi-line string]</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element LightSourceSettings
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#Settings ome_xsd.tmp#LightSourceSettings_ID ome_xsd.tmp#LightSourceSettings_Attenuation ome_xsd.tmp#LightSourceSettings_Wavelength
Type extension of Settings
Type hierarchy
Properties
content complex
Used by
Attributes
QName Type Use Annotation
Attenuation PercentFraction optional
The Attenuation of the light source [units:none]
A fraction, as a value from 0.0 to 1.0.
ID LightSourceID required
Wavelength PositiveInt optional
The Wavelength of the light source. nanometres[nm]
Source
<xsd:element name="LightSourceSettings">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>LightSourceSettingsCombinations</plural>
      </xsdfu>
    </xsd:appinfo>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Settings">
        <xsd:attribute name="ID" use="required" type="LightSourceID"/>
        <xsd:attribute name="Attenuation" use="optional" type="PercentFraction">
          <xsd:annotation>
            <xsd:documentation>The Attenuation of the light source [units:none] A fraction, as a value from 0.0 to 1.0.</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Wavelength" use="optional" type="PositiveInt">
          <xsd:annotation>
            <xsd:documentation>The Wavelength of the light source. nanometres[nm]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Experimenter
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This element describes a person who performed an imaging experiment.
This person may also be a user of the OME system, in which case the UserName element contains their login name.
Experimenters may belong to one or more groups which are specified using one or more ExperimenterGroupRef elements.
Diagram
Diagram ome_xsd.tmp#Experimenter_ID ome_xsd.tmp#Experimenter_FirstName ome_xsd.tmp#Experimenter_MiddleName ome_xsd.tmp#Experimenter_LastName ome_xsd.tmp#Experimenter_Email ome_xsd.tmp#Experimenter_Institution ome_xsd.tmp#Experimenter_UserName SA_xsd.tmp#AnnotationRef
Properties
content complex
Used by
Element OME
Model
Children AnnotationRef
Instance
<Experimenter Email="" FirstName="" ID="" Institution="" LastName="" MiddleName="" UserName="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
</Experimenter>
Attributes
QName Type Use Annotation
Email xsd:string optional
A person's email address. [valid email address as string]
FirstName xsd:string optional
First name, sometime called christian name or given name or forename. [plain text string]
ID ExperimenterID required
Institution xsd:string optional
A person's Institution
The organizing structure that people belong to other than groups.  A university, or company, etc.
We do not specify a department element, and do not mean for Institution to be used in this way.
We simply wish to say XXX at YYY.  Where YYY has a better chance of being tied to a geographically fixed location
and of being more recognizable than a group of experimenters. [plain text string]
LastName xsd:string optional
A person's last name sometimes called surname or family name. [plain text string]
MiddleName xsd:string optional
Any other names. [plain text string]
UserName xsd:string optional
This is the username of the experimenter (in a 'unix' or 'database' sense). [plain text string]
Source
<xsd:element name="Experimenter">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Experimenters</plural>
        <global/>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This element describes a person who performed an imaging experiment. This person may also be a user of the OME system, in which case the UserName element contains their login name. Experimenters may belong to one or more groups which are specified using one or more ExperimenterGroupRef elements.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="ID" use="required" type="ExperimenterID"/>
    <xsd:attribute name="FirstName" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>First name, sometime called christian name or given name or forename. [plain text string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="MiddleName" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>Any other names. [plain text string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="LastName" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>A person's last name sometimes called surname or family name. [plain text string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Email" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>A person's email address. [valid email address as string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Institution" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>A person's Institution The organizing structure that people belong to other than groups. A university, or company, etc. We do not specify a department element, and do not mean for Institution to be used in this way. We simply wish to say XXX at YYY. Where YYY has a better chance of being tied to a geographically fixed location and of being more recognizable than a group of experimenters. [plain text string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="UserName" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:appinfo>
          <xsdfu>
            <unique/>
          </xsdfu>
        </xsd:appinfo>
        <xsd:documentation>This is the username of the experimenter (in a 'unix' or 'database' sense). [plain text string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ExperimenterGroup
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The ExperimenterGroupID is required.
Information should ideally be specified for at least one Leader as a contact for the group.
The Leaders are themselves Experimenters.
Diagram
Diagram ome_xsd.tmp#ExperimenterGroup_Name ome_xsd.tmp#ExperimenterGroup_ID ome_xsd.tmp#ExperimenterGroup_Description ome_xsd.tmp#ExperimenterRef ome_xsd.tmp#Leader SA_xsd.tmp#AnnotationRef
Properties
content complex
Used by
Element OME
Model
Children AnnotationRef, Description, ExperimenterRef, Leader
Instance
<ExperimenterGroup ID="" Name="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <Description>{0,1}</Description>
  <ExperimenterRef ID="">{0,unbounded}</ExperimenterRef>
  <Leader ID="">{0,unbounded}</Leader>
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
</ExperimenterGroup>
Attributes
QName Type Use
ID ExperimenterGroupID required
Name xsd:string optional
Source
<xsd:element name="ExperimenterGroup">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>ExperimenterGroups</plural>
        <global/>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The ExperimenterGroupID is required. Information should ideally be specified for at least one Leader as a contact for the group. The Leaders are themselves Experimenters.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="Description" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>A description for the group. [plane text multi-line string]</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element ref="ExperimenterRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
              <childordered/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="Leader" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="Name" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:appinfo>
          <xsdfu>
            <unique/>
          </xsdfu>
        </xsd:appinfo>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="ID" use="required" type="ExperimenterGroupID"/>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ExperimenterGroup / Description
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description for the group. [plane text multi-line string]
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="Description" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>A description for the group. [plane text multi-line string]</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Leader
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
Contact information for a ExperimenterGroup leader specified using a reference
to an Experimenter element defined elsewhere in the document.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#Leader_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Attributes
QName Type Use
ID ExperimenterID required
Source
<xsd:element name="Leader">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Leaders</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>Contact information for a ExperimenterGroup leader specified using a reference to an Experimenter element defined elsewhere in the document.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="ExperimenterID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Instrument
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This element describes the instrument used to capture the Image.
It is primarily a container for manufacturer's model and catalog
numbers for the Microscope, LightSource, Detector, Objective and
Filters components.
The Objective element contains the additional elements LensNA and Magnification.
The Filters element can be composed either of separate excitation,
emission filters and a dichroic mirror or a single filter set.
Within the Image itself, a reference is made to this one Filter element.
There may be multiple light sources, detectors, objectives and filters on a microscope.
Each of these has their own ID attribute, which can be referred to from Channel.
It is understood that the light path configuration can be different
for each channel, but cannot be different for each timepoint or
each plane of an XYZ stack.
Diagram
Diagram ome_xsd.tmp#Instrument_ID ome_xsd.tmp#Microscope ome_xsd.tmp#LightSource ome_xsd.tmp#Detector ome_xsd.tmp#Objective ome_xsd.tmp#FilterSet ome_xsd.tmp#Filter ome_xsd.tmp#Dichroic
Properties
content complex
Used by
Element OME
Model
Children Detector, Dichroic, Filter, FilterSet, LightSource, Microscope, Objective
Instance
<Instrument ID="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <Microscope LotNumber="" Manufacturer="" Model="" SerialNumber="" Type="">{0,1}</Microscope>
  <LightSource ID="" LotNumber="" Manufacturer="" Model="" Power="" SerialNumber="">{0,unbounded}</LightSource>
  <Detector AmplificationGain="" Gain="" ID="" LotNumber="" Manufacturer="" Model="" Offset="" SerialNumber="" Type="" Voltage="" Zoom="">{0,unbounded}</Detector>
  <Objective CalibratedMagnification="" Correction="" ID="" Immersion="" Iris="" LensNA="" LotNumber="" Manufacturer="" Model="" NominalMagnification="" SerialNumber="" WorkingDistance="">{0,unbounded}</Objective>
  <FilterSet ID="" LotNumber="" Manufacturer="" Model="" SerialNumber="">{0,unbounded}</FilterSet>
  <Filter FilterWheel="" ID="" LotNumber="" Manufacturer="" Model="" SerialNumber="" Type="">{0,unbounded}</Filter>
  <Dichroic ID="" LotNumber="" Manufacturer="" Model="" SerialNumber="">{0,unbounded}</Dichroic>
</Instrument>
Attributes
QName Type Use
ID InstrumentID required
Source
<xsd:element name="Instrument">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Instruments</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This element describes the instrument used to capture the Image. It is primarily a container for manufacturer's model and catalog numbers for the Microscope, LightSource, Detector, Objective and Filters components. The Objective element contains the additional elements LensNA and Magnification. The Filters element can be composed either of separate excitation, emission filters and a dichroic mirror or a single filter set. Within the Image itself, a reference is made to this one Filter element. There may be multiple light sources, detectors, objectives and filters on a microscope. Each of these has their own ID attribute, which can be referred to from Channel. It is understood that the light path configuration can be different for each channel, but cannot be different for each timepoint or each plane of an XYZ stack.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element ref="Microscope" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="LightSource" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="Detector" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="Objective" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="FilterSet" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="Filter" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="Dichroic" minOccurs="0" maxOccurs="unbounded"/>
    </xsd:sequence>
    <xsd:attribute name="ID" use="required" type="InstrumentID"/>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Microscope
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The microscope's manufacturer specification.
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#Microscope_Type
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Attributes
QName Type Use Annotation
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
Type restriction of xsd:string optional
Source
<xsd:element name="Microscope">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Microscopes</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The microscope's manufacturer specification.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:attribute name="Type" use="optional">
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="Upright"/>
              <xsd:enumeration value="Inverted"/>
              <xsd:enumeration value="Dissection"/>
              <xsd:enumeration value="Electrophysiology"/>
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:attribute>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element LightSource
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The lightsource for the instrument.  An instrument may have several light sources.
The type of lightsource is specified by one of the child-elements which are 'Laser', 'Filament', 'Arc' or 'LightEmittingDiode'.
Each of the light source types has its own Type attribute to further differentiate the light source
(eg, Nd-YAG for Laser or Hg for Arc).
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#LightSource_ID ome_xsd.tmp#LightSource_Power ome_xsd.tmp#Laser ome_xsd.tmp#Filament ome_xsd.tmp#Arc ome_xsd.tmp#LightEmittingDiode
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Model
Children Arc, Filament, Laser, LightEmittingDiode
Instance
<LightSource ID="" LotNumber="" Manufacturer="" Model="" Power="" SerialNumber="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <Laser FrequencyMultiplication="" LaserMedium="" PockelCell="" Pulse="" RepetitionRate="" Tuneable="" Type="" Wavelength="">{1,1}</Laser>
  <Filament Type="">{1,1}</Filament>
  <Arc Type="">{1,1}</Arc>
  <LightEmittingDiode>{1,1}</LightEmittingDiode>
</LightSource>
Attributes
QName Type Use Annotation
ID LightSourceID required
A LightSource ID must be specified for each light source, and the individual
light sources can be referred to by their LightSource IDs (eg from Channel).
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
Power xsd:float optional
The light-source power. units milliwatts[mW]
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
Source
<xsd:element name="LightSource">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>LightSources</plural>
        <abstractproprietary/>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The lightsource for the instrument. An instrument may have several light sources. The type of lightsource is specified by one of the child-elements which are 'Laser', 'Filament', 'Arc' or 'LightEmittingDiode'. Each of the light source types has its own Type attribute to further differentiate the light source (eg, Nd-YAG for Laser or Hg for Arc).</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:choice minOccurs="1" maxOccurs="1">
          <xsd:element ref="Laser" minOccurs="1" maxOccurs="1"/>
          <xsd:element ref="Filament" minOccurs="1" maxOccurs="1"/>
          <xsd:element ref="Arc" minOccurs="1" maxOccurs="1"/>
          <xsd:element ref="LightEmittingDiode" minOccurs="1" maxOccurs="1"/>
        </xsd:choice>
        <xsd:attribute name="ID" use="required" type="LightSourceID">
          <xsd:annotation>
            <xsd:documentation>A LightSource ID must be specified for each light source, and the individual light sources can be referred to by their LightSource IDs (eg from Channel).</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Power" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The light-source power. units milliwatts[mW]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Laser
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
Laser types are specified using two attributes - the Type and the LaserMedium.
Diagram
Diagram ome_xsd.tmp#Laser_Type ome_xsd.tmp#Laser_LaserMedium ome_xsd.tmp#Laser_Wavelength ome_xsd.tmp#Laser_FrequencyMultiplication ome_xsd.tmp#Laser_Tuneable ome_xsd.tmp#Laser_Pulse ome_xsd.tmp#Laser_PockelCell ome_xsd.tmp#Laser_RepetitionRate ome_xsd.tmp#Pump
Properties
content complex
Used by
Element LightSource
Model
Children Pump
Instance
<Laser FrequencyMultiplication="" LaserMedium="" PockelCell="" Pulse="" RepetitionRate="" Tuneable="" Type="" Wavelength="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <Pump ID="">{0,1}</Pump>
</Laser>
Attributes
QName Type Use Annotation
FrequencyMultiplication PositiveInt optional
FrequencyMultiplication that may be specified. [units:none]
LaserMedium restriction of xsd:string optional
The Medium attribute specifies the actual lasing medium
for a given laser type.
PockelCell xsd:boolean optional
If true the laser has a PockelCell to rotate the polarization of the beam. [flag]
Pulse restriction of xsd:string optional
The Pulse mode of the laser.
RepetitionRate xsd:float optional
The is the rate in Hz at which the laser pulses if
the Pulse type is 'Repetitive'. hertz[Hz]
Tuneable xsd:boolean optional
Whether or not the laser is Tuneable [flag]
Type restriction of xsd:string optional
Type is the general category of laser.
Wavelength PositiveInt optional
The Wavelength of the laser in nanometres[nm]
Source
<xsd:element name="Laser">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Lasers</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>Laser types are specified using two attributes - the Type and the LaserMedium.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element ref="Pump" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>The Laser element may contain a Pump sub-element which refers to a LightSource used as a laser pump.</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="Type" use="optional">
      <xsd:annotation>
        <xsd:documentation>Type is the general category of laser.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="Excimer"/>
          <xsd:enumeration value="Gas"/>
          <xsd:enumeration value="MetalVapor"/>
          <xsd:enumeration value="SolidState"/>
          <xsd:enumeration value="Dye"/>
          <xsd:enumeration value="Semiconductor"/>
          <xsd:enumeration value="FreeElectron"/>
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="LaserMedium" use="optional">
      <xsd:annotation>
        <xsd:documentation>The Medium attribute specifies the actual lasing medium for a given laser type.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <!-- MetalVaporLaserMedia -->
          <xsd:enumeration value="Cu"/>
          <xsd:enumeration value="Ag"/>
          <!-- ExcimerLaserMedia -->
          <xsd:enumeration value="ArFl"/>
          <xsd:enumeration value="ArCl"/>
          <xsd:enumeration value="KrFl"/>
          <xsd:enumeration value="KrCl"/>
          <xsd:enumeration value="XeFl"/>
          <xsd:enumeration value="XeCl"/>
          <xsd:enumeration value="XeBr"/>
          <!-- GasLaserMedia -->
          <xsd:enumeration value="N"/>
          <xsd:enumeration value="Ar"/>
          <xsd:enumeration value="Kr"/>
          <xsd:enumeration value="Xe"/>
          <xsd:enumeration value="HeNe"/>
          <xsd:enumeration value="HeCd"/>
          <xsd:enumeration value="CO"/>
          <xsd:enumeration value="CO2"/>
          <xsd:enumeration value="H2O"/>
          <xsd:enumeration value="HFl"/>
          <!-- SolidStateLaserMedia -->
          <xsd:enumeration value="NdGlass"/>
          <xsd:enumeration value="NdYAG"/>
          <xsd:enumeration value="ErGlass"/>
          <xsd:enumeration value="ErYAG"/>
          <xsd:enumeration value="HoYLF"/>
          <xsd:enumeration value="HoYAG"/>
          <xsd:enumeration value="Ruby"/>
          <xsd:enumeration value="TiSapphire"/>
          <xsd:enumeration value="Alexandrite"/>
          <!-- DyeLaserMedia -->
          <xsd:enumeration value="Rhodamine6G"/>
          <xsd:enumeration value="CoumarinC30"/>
          <!-- SemiconductorLaserMedia -->
          <xsd:enumeration value="GaAs"/>
          <xsd:enumeration value="GaAlAs"/>
          <!-- FreeElectronLaserMedia -->
          <xsd:enumeration value="EMinus"/>
          <!-- OtherLaserMedia -->
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="Wavelength" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>The Wavelength of the laser in nanometres[nm]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="FrequencyMultiplication" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>FrequencyMultiplication that may be specified. [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Tuneable" use="optional" type="xsd:boolean">
      <xsd:annotation>
        <xsd:documentation>Whether or not the laser is Tuneable [flag]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Pulse" use="optional">
      <xsd:annotation>
        <xsd:documentation>The Pulse mode of the laser.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="CW"/>
          <xsd:enumeration value="Single"/>
          <xsd:enumeration value="QSwitched"/>
          <xsd:enumeration value="Repetitive"/>
          <xsd:enumeration value="ModeLocked"/>
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="PockelCell" use="optional" type="xsd:boolean">
      <xsd:annotation>
        <xsd:documentation>If true the laser has a PockelCell to rotate the polarization of the beam. [flag]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="RepetitionRate" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The is the rate in Hz at which the laser pulses if the Pulse type is 'Repetitive'. hertz[Hz]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Pump
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The Pump element is a reference to a LightSource.  It is used within the Laser element to specify the light source for the laser's pump (if any).
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#Pump_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Element Laser
Attributes
QName Type Use
ID LightSourceID required
Source
<xsd:element name="Pump">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Pumps</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The Pump element is a reference to a LightSource. It is used within the Laser element to specify the light source for the laser's pump (if any).</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="LightSourceID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Filament
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The Filament element is used to describe various kinds of filament bulbs such as Incadescent or Halogen.
The Power of the Filament is now stored in the LightSource.
Diagram
Diagram ome_xsd.tmp#Filament_Type
Properties
content complex
Used by
Element LightSource
Attributes
QName Type Use Annotation
Type restriction of xsd:string optional
The type of filament.
Source
<xsd:element name="Filament">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Filaments</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The Filament element is used to describe various kinds of filament bulbs such as Incadescent or Halogen. The Power of the Filament is now stored in the LightSource.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:attribute name="Type" use="optional">
      <xsd:annotation>
        <xsd:documentation>The type of filament.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="Incandescent"/>
          <xsd:enumeration value="Halogen"/>
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Arc
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The Arc element is used to describe various kinds of Arc lamps - Hg, Xe, HgXe.
The Power of the Arc is now stored in the LightSource.
Diagram
Diagram ome_xsd.tmp#Arc_Type
Properties
content complex
Used by
Element LightSource
Attributes
QName Type Use Annotation
Type restriction of xsd:string optional
The type of Arc lamp.
Source
<xsd:element name="Arc">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Arcs</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The Arc element is used to describe various kinds of Arc lamps - Hg, Xe, HgXe. The Power of the Arc is now stored in the LightSource.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:attribute name="Type" use="optional">
      <xsd:annotation>
        <xsd:documentation>The type of Arc lamp.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="Hg"/>
          <xsd:enumeration value="Xe"/>
          <xsd:enumeration value="HgXe"/>
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element LightEmittingDiode
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The LightEmittingDiode element is used to describe
				various kinds of LED lamps.

				As the LightEmittingDiode is inside a LightSource it already has
				available the values from ManufacturerSpec
				(Manufacturer, Model, SerialNumber, LotNumber)
				And the values from LightSource which includes Power in milliwatts

				We have looked at extending this element but have had a problem
				producing a generic solution.

				Possible attributes talked about adding include:
					Power in lumens - but this is complicated by multi-channel
						devices like CoolLED where each channel's power is different
					Wavelength Range - not a simple value so would require
						multiple attributes or a child element
					Angle of Projection - this would be further affected by the
						optics used for filtering the naked LED or that combine
						power from multiple devices

					These values are further affected if you over-drive the LED
					resulting in a more complex system

				Another issue is that LED's may not be used directly for
				illumination but as drivers for secondary emissions from doped
				fiber optics. This would require the fiber optics to be modeled.

				Thanks to Paul Goodwin of Applied Precision of information about
				this topic.
Diagram
Diagram
Used by
Element LightSource
Source
<xsd:element name="LightEmittingDiode">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>LightEmittingDiodes</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The LightEmittingDiode element is used to describe various kinds of LED lamps. As the LightEmittingDiode is inside a LightSource it already has available the values from ManufacturerSpec (Manufacturer, Model, SerialNumber, LotNumber) And the values from LightSource which includes Power in milliwatts We have looked at extending this element but have had a problem producing a generic solution. Possible attributes talked about adding include: Power in lumens - but this is complicated by multi-channel devices like CoolLED where each channel's power is different Wavelength Range - not a simple value so would require multiple attributes or a child element Angle of Projection - this would be further affected by the optics used for filtering the naked LED or that combine power from multiple devices These values are further affected if you over-drive the LED resulting in a more complex system Another issue is that LED's may not be used directly for illumination but as drivers for secondary emissions from doped fiber optics. This would require the fiber optics to be modeled. Thanks to Paul Goodwin of Applied Precision of information about this topic.</xsd:documentation>
  </xsd:annotation>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Detector
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The type of detector used to capture the image.
				The Detector ID can be used as a reference within the Channel element in the Image element.
				The values stored in Detector represent the fixed values,
				variable values modified during the acquisition go in DetectorSettings

				Each attribute now has an indication of what type of detector
				it applies to. This is preparatory work for cleaning up and
				possibly splitting this object into sub-types.
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#Detector_Gain ome_xsd.tmp#Detector_Voltage ome_xsd.tmp#Detector_Offset ome_xsd.tmp#Detector_Zoom ome_xsd.tmp#Detector_AmplificationGain ome_xsd.tmp#Detector_ID ome_xsd.tmp#Detector_Type
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Attributes
QName Type Use Annotation
AmplificationGain xsd:float optional
Gain applied to the detector signal.
This is the electronic gain (as apposed to the inherent gain) that is set for the detector. [units:none] {used:EMCCD#EMGain}
Gain xsd:float optional
The Detector Gain for this detector, as a float. [units:none] {used:CCD,EMCCD,PMT}
ID DetectorID required
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
Offset xsd:float optional
The Detector Offset. [units:none] {used:CCD,EMCCD}
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
Type restriction of xsd:string optional
The Type of detector. E.g. CCD, PMT, EMCCD etc.
Voltage xsd:float optional
The Voltage of the detector (e.g. PMT voltage) as a float. volts[V] {used:PMT}
Zoom xsd:float optional
The fixed Zoom for a detector. [units:none] {used:PMT}
Source
<xsd:element name="Detector">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Detectors</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The type of detector used to capture the image. The Detector ID can be used as a reference within the Channel element in the Image element. The values stored in Detector represent the fixed values, variable values modified during the acquisition go in DetectorSettings Each attribute now has an indication of what type of detector it applies to. This is preparatory work for cleaning up and possibly splitting this object into sub-types.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:attribute name="Gain" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The Detector Gain for this detector, as a float. [units:none] {used:CCD,EMCCD,PMT}</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Voltage" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The Voltage of the detector (e.g. PMT voltage) as a float. volts[V] {used:PMT}</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Offset" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The Detector Offset. [units:none] {used:CCD,EMCCD}</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Zoom" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The fixed Zoom for a detector. [units:none] {used:PMT}</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="AmplificationGain" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>Gain applied to the detector signal. This is the electronic gain (as apposed to the inherent gain) that is set for the detector. [units:none] {used:EMCCD#EMGain}</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="ID" use="required" type="DetectorID"/>
        <xsd:attribute name="Type" use="optional">
          <xsd:annotation>
            <xsd:documentation>The Type of detector. E.g. CCD, PMT, EMCCD etc.</xsd:documentation>
          </xsd:annotation>
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="CCD"/>
              <!-- Charge-Coupled Device -->
              <xsd:enumeration value="IntensifiedCCD"/>
              <xsd:enumeration value="AnalogVideo"/>
              <xsd:enumeration value="PMT"/>
              <!-- Photomultiplier tube -->
              <xsd:enumeration value="Photodiode"/>
              <xsd:enumeration value="Spectroscopy"/>
              <xsd:enumeration value="LifetimeImaging"/>
              <xsd:enumeration value="CorrelationSpectroscopy"/>
              <xsd:enumeration value="FTIR"/>
              <!-- Fourier transform infrared spectroscopy -->
              <xsd:enumeration value="EMCCD"/>
              <!-- Electron Multiplying Charge Coupled Device -->
              <xsd:enumeration value="APD"/>
              <!-- Avalanche Photodiode -->
              <xsd:enumeration value="CMOS"/>
              <!-- complementary metal oxide semiconductor -->
              <xsd:enumeration value="EBCCD"/>
              <!-- electron-bombarded charge-coupled device -->
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:attribute>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Objective
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description of the microscope's objective lens.
Required elements include the lens numerical aperture,
and the magnification, both of which a floating
point (real) numbers.
The values are those that are fixed for a particular
objective: either because it has been manufactured to
this specification or the value has been measured on
this particular objective.
Correction: This is the type of correction coating applied to this lens.
Immersion: This is the types of immersion medium the lens is designed to
work with. It is not the same as 'Medium' in ObjectiveRef (a
single type) as here Immersion can have compound values like 'Multi'.
LensNA: The numerical aperture of the lens (as a float)
NominalMagnification: The specified magnification e.g. x10
CalibratedMagnification: The measured magnification e.g. x10.3
WorkingDistance: WorkingDistance of the lens. The Units are microns[µm].
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#Objective_ID ome_xsd.tmp#Objective_Correction ome_xsd.tmp#Objective_Immersion ome_xsd.tmp#Objective_LensNA ome_xsd.tmp#Objective_NominalMagnification ome_xsd.tmp#Objective_CalibratedMagnification ome_xsd.tmp#Objective_WorkingDistance ome_xsd.tmp#Objective_Iris
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Attributes
QName Type Use Annotation
CalibratedMagnification xsd:float optional
The magnification of the lens as measured by a calibration process- i.e. '59.987' for a 60X lens. [units:none]
Correction restriction of xsd:string optional
The correction applied to the lens
ID ObjectiveID required
Immersion restriction of xsd:string optional
The immersion medium the lens is designed for
Iris xsd:boolean optional
Records whether or not the objective was fitted with an Iris. [flag]
LensNA xsd:float optional
The numerical aperture of the lens expressed as a floating point (real) number.
Expected range 0.02 - 1.5 [units:none]
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
NominalMagnification xsd:float optional
The magnification of the lens as specified by the manufacturer - i.e. '60' is a 60X lens. [units:none]
Note: The type of this has been changed from int to float to allow
the specification of additional lenses e.g. 0.5X lens
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
WorkingDistance xsd:float optional
The working distance of the lens expressed as a floating point (real) number. Units are microns[µm].
Source
<xsd:element name="Objective">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Objectives</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>A description of the microscope's objective lens. Required elements include the lens numerical aperture, and the magnification, both of which a floating point (real) numbers. The values are those that are fixed for a particular objective: either because it has been manufactured to this specification or the value has been measured on this particular objective. Correction: This is the type of correction coating applied to this lens. Immersion: This is the types of immersion medium the lens is designed to work with. It is not the same as 'Medium' in ObjectiveRef (a single type) as here Immersion can have compound values like 'Multi'. LensNA: The numerical aperture of the lens (as a float) NominalMagnification: The specified magnification e.g. x10 CalibratedMagnification: The measured magnification e.g. x10.3 WorkingDistance: WorkingDistance of the lens. The Units are microns[µm].</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:attribute name="ID" use="required" type="ObjectiveID"/>
        <xsd:attribute name="Correction" use="optional">
          <xsd:annotation>
            <xsd:documentation>The correction applied to the lens</xsd:documentation>
          </xsd:annotation>
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="UV"/>
              <xsd:enumeration value="PlanApo"/>
              <xsd:enumeration value="PlanFluor"/>
              <xsd:enumeration value="SuperFluor"/>
              <xsd:enumeration value="VioletCorrected"/>
              <xsd:enumeration value="Achro"/>
              <xsd:enumeration value="Achromat"/>
              <xsd:enumeration value="Fluor"/>
              <xsd:enumeration value="Fl"/>
              <xsd:enumeration value="Fluar"/>
              <xsd:enumeration value="Neofluar"/>
              <xsd:enumeration value="Fluotar"/>
              <xsd:enumeration value="Apo"/>
              <xsd:enumeration value="PlanNeofluar"/>
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:attribute>
        <xsd:attribute name="Immersion" use="optional">
          <xsd:annotation>
            <xsd:documentation>The immersion medium the lens is designed for</xsd:documentation>
          </xsd:annotation>
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="Oil"/>
              <xsd:enumeration value="Water"/>
              <xsd:enumeration value="WaterDipping"/>
              <xsd:enumeration value="Air"/>
              <xsd:enumeration value="Multi"/>
              <xsd:enumeration value="Glycerol"/>
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:attribute>
        <xsd:attribute name="LensNA" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The numerical aperture of the lens expressed as a floating point (real) number. Expected range 0.02 - 1.5 [units:none]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="NominalMagnification" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The magnification of the lens as specified by the manufacturer - i.e. '60' is a 60X lens. [units:none] Note: The type of this has been changed from int to float to allow the specification of additional lenses e.g. 0.5X lens</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="CalibratedMagnification" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The magnification of the lens as measured by a calibration process- i.e. '59.987' for a 60X lens. [units:none]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="WorkingDistance" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The working distance of the lens expressed as a floating point (real) number. Units are microns[µm].</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Iris" use="optional" type="xsd:boolean">
          <xsd:annotation>
            <xsd:documentation>Records whether or not the objective was fitted with an Iris. [flag]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element FilterSet
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
Filter set manufacturer specification
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#FilterSet_ID ome_xsd.tmp#FilterSet_ExcitationFilterRef ome_xsd.tmp#DichroicRef ome_xsd.tmp#FilterSet_EmissionFilterRef
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Model
Children DichroicRef, EmissionFilterRef, ExcitationFilterRef
Instance
<FilterSet ID="" LotNumber="" Manufacturer="" Model="" SerialNumber="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <ExcitationFilterRef ID="">{0,unbounded}</ExcitationFilterRef>
  <DichroicRef ID="">{0,1}</DichroicRef>
  <EmissionFilterRef ID="">{0,unbounded}</EmissionFilterRef>
</FilterSet>
Attributes
QName Type Use Annotation
ID FilterSetID required
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
Source
<xsd:element name="FilterSet">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>FilterSets</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>Filter set manufacturer specification</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:sequence>
          <xsd:element name="ExcitationFilterRef" type="FilterRef" minOccurs="0" maxOccurs="unbounded">
            <xsd:annotation>
              <xsd:appinfo>
                <xsdfu>
                  <plural>ExcitationFilters</plural>
                  <manytomany/>
                </xsdfu>
              </xsd:appinfo>
              <xsd:documentation>The Filters placed in the Excitation light path.</xsd:documentation>
            </xsd:annotation>
          </xsd:element>
          <xsd:element ref="DichroicRef" minOccurs="0" maxOccurs="1"/>
          <xsd:element name="EmissionFilterRef" type="FilterRef" minOccurs="0" maxOccurs="unbounded">
            <xsd:annotation>
              <xsd:appinfo>
                <xsdfu>
                  <plural>EmissionFilters</plural>
                  <manytomany/>
                </xsdfu>
              </xsd:appinfo>
              <xsd:documentation>The Filters placed in the Emission light path.</xsd:documentation>
            </xsd:annotation>
          </xsd:element>
        </xsd:sequence>
        <xsd:attribute name="ID" use="required" type="FilterSetID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element FilterSet / ExcitationFilterRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The Filters placed in the Excitation light path.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#FilterRef_ID ome_xsd.tmp#FilterRef
Type FilterRef
Type hierarchy
Properties
content complex
minOccurs 0
maxOccurs unbounded
Attributes
QName Type Use
ID FilterID required
Source
<xsd:element name="ExcitationFilterRef" type="FilterRef" minOccurs="0" maxOccurs="unbounded">
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>ExcitationFilters</plural>
        <manytomany/>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The Filters placed in the Excitation light path.</xsd:documentation>
  </xsd:annotation>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element DichroicRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#DichroicRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Elements FilterSet, LightPath
Attributes
QName Type Use
ID DichroicID required
Source
<xsd:element name="DichroicRef">
  <!-- top level definition -->
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="DichroicID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element FilterSet / EmissionFilterRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The Filters placed in the Emission light path.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#FilterRef_ID ome_xsd.tmp#FilterRef
Type FilterRef
Type hierarchy
Properties
content complex
minOccurs 0
maxOccurs unbounded
Attributes
QName Type Use
ID FilterID required
Source
<xsd:element name="EmissionFilterRef" type="FilterRef" minOccurs="0" maxOccurs="unbounded">
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>EmissionFilters</plural>
        <manytomany/>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The Filters placed in the Emission light path.</xsd:documentation>
  </xsd:annotation>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Filter
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A filter is either an excitation or emission filters.
There should be one filter element specified per wavelength in the image.
The channel number associated with a filter set is specified in Channel.
It is based on the FilterSpec type, so has the required attributes Manufacturer, Model, and LotNumber.
It may also contain a Type attribute which may be set to
'LongPass', 'ShortPass', 'BandPass', 'MultiPass',
'Dichroic', 'NeutralDensity', 'Tuneable' or 'Other'.
It can be associated with an optional FilterWheel - Note: this is not the same as a FilterSet
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#Filter_Type ome_xsd.tmp#Filter_FilterWheel ome_xsd.tmp#Filter_ID ome_xsd.tmp#TransmittanceRange
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Model
Children TransmittanceRange
Instance
<Filter FilterWheel="" ID="" LotNumber="" Manufacturer="" Model="" SerialNumber="" Type="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06">
  <TransmittanceRange CutIn="" CutInTolerance="" CutOut="" CutOutTolerance="" Transmittance="">{0,1}</TransmittanceRange>
</Filter>
Attributes
QName Type Use Annotation
FilterWheel xsd:string optional
A filter 'wheel' in OME can refer to any arrangement of filters in a filter holder of any shape. It could, for example, be a filter slider. [plain text string]
ID FilterID required
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
Type restriction of xsd:string optional
Source
<xsd:element name="Filter">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Filters</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>A filter is either an excitation or emission filters. There should be one filter element specified per wavelength in the image. The channel number associated with a filter set is specified in Channel. It is based on the FilterSpec type, so has the required attributes Manufacturer, Model, and LotNumber. It may also contain a Type attribute which may be set to 'LongPass', 'ShortPass', 'BandPass', 'MultiPass', 'Dichroic', 'NeutralDensity', 'Tuneable' or 'Other'. It can be associated with an optional FilterWheel - Note: this is not the same as a FilterSet</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:sequence>
          <xsd:element ref="TransmittanceRange" minOccurs="0" maxOccurs="1"/>
        </xsd:sequence>
        <xsd:attribute name="Type" use="optional">
          <xsd:simpleType>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="Dichroic"/>
              <xsd:enumeration value="LongPass"/>
              <xsd:enumeration value="ShortPass"/>
              <xsd:enumeration value="BandPass"/>
              <xsd:enumeration value="MultiPass"/>
              <xsd:enumeration value="NeutralDensity"/>
              <xsd:enumeration value="Tuneable"/>
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:attribute>
        <xsd:attribute name="FilterWheel" use="optional" type="xsd:string">
          <xsd:annotation>
            <xsd:documentation>A filter 'wheel' in OME can refer to any arrangement of filters in a filter holder of any shape. It could, for example, be a filter slider. [plain text string]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="ID" use="required" type="FilterID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element TransmittanceRange
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This records the range of wavelengths that are transmitted by the filter. It also records the maximum amount of light transmitted.
Diagram
Diagram ome_xsd.tmp#TransmittanceRange_CutIn ome_xsd.tmp#TransmittanceRange_CutOut ome_xsd.tmp#TransmittanceRange_CutInTolerance ome_xsd.tmp#TransmittanceRange_CutOutTolerance ome_xsd.tmp#TransmittanceRange_Transmittance
Properties
content complex
Used by
Element Filter
Attributes
QName Type Use Annotation
CutIn PositiveInt optional
CutIn is the wavelength below which there is less than 50% transmittance for a filter. Units: nanometres[nm].
CutInTolerance NonNegativeInt optional
CutInTolerance Units: nanometres[nm],
CutOut PositiveInt optional
CutOut is the wavelength above which there is less than 50% transmittance for a filter. Units: nanometres[nm].
CutOutTolerance NonNegativeInt optional
CutOutTolerance Units: nanometres[nm],
Transmittance PercentFraction optional
The amount of light the filter transmits at a maximum [units:none]
A fraction, as a value from 0.0 to 1.0.
Source
<xsd:element name="TransmittanceRange">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>TransmittanceRanges</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This records the range of wavelengths that are transmitted by the filter. It also records the maximum amount of light transmitted.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:attribute name="CutIn" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>CutIn is the wavelength below which there is less than 50% transmittance for a filter. Units: nanometres[nm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="CutOut" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>CutOut is the wavelength above which there is less than 50% transmittance for a filter. Units: nanometres[nm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="CutInTolerance" use="optional" type="NonNegativeInt">
      <xsd:annotation>
        <xsd:documentation>CutInTolerance Units: nanometres[nm],</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="CutOutTolerance" use="optional" type="NonNegativeInt">
      <xsd:annotation>
        <xsd:documentation>CutOutTolerance Units: nanometres[nm],</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Transmittance" use="optional" type="PercentFraction">
      <xsd:annotation>
        <xsd:documentation>The amount of light the filter transmits at a maximum [units:none] A fraction, as a value from 0.0 to 1.0.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Dichroic
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The dichromatic beamsplitter or dichroic mirror used for this filter combination.
Diagram
Diagram ome_xsd.tmp#ManufacturerSpec_Manufacturer ome_xsd.tmp#ManufacturerSpec_Model ome_xsd.tmp#ManufacturerSpec_SerialNumber ome_xsd.tmp#ManufacturerSpec_LotNumber ome_xsd.tmp#ManufacturerSpec ome_xsd.tmp#Dichroic_ID
Type extension of ManufacturerSpec
Type hierarchy
Properties
content complex
Used by
Element Instrument
Attributes
QName Type Use Annotation
ID DichroicID required
LotNumber xsd:string optional
The lot number of the component. [plain text string]
Manufacturer xsd:string optional
The manufacturer of the component. [plain text string]
Model xsd:string optional
The Model of the component. [plain text string]
SerialNumber xsd:string optional
The serial number of the component. [plain text string]
Source
<xsd:element name="Dichroic">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Dichroics</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The dichromatic beamsplitter or dichroic mirror used for this filter combination.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="ManufacturerSpec">
        <xsd:attribute name="ID" use="required" type="DichroicID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Image
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This element describes the actual image and its meta-data.
				The elements that are references (ending in Ref or Settings) refer to
				elements defined outside of the Image element. Ref elements are simple
				links, while Settings elements are links with additional values.

				If any of the required Image attributes or elements are missing, its
				guaranteed to be an invalid document. The required attributes and
				elements are ID and Pixels.

				ExperimenterRef is required for all Images with well formed LSIDs.
				ImageType is a vendor-specific designation of the type of image this is.
				Examples of ImageType include 'STK', 'SoftWorx', etc.
				The Name attributes are in all cases the name of the element
				instance. In this case, the name of the image, not necessarily the filename.
				Physical size of pixels are microns[µm].
Diagram
Diagram ome_xsd.tmp#Image_ID ome_xsd.tmp#Image_Name ome_xsd.tmp#Image_AcquisitionDate ome_xsd.tmp#ExperimenterRef ome_xsd.tmp#Image_Description ome_xsd.tmp#ExperimentRef ome_xsd.tmp#ExperimenterGroupRef ome_xsd.tmp#InstrumentRef ome_xsd.tmp#ObjectiveSettings ome_xsd.tmp#ImagingEnvironment ome_xsd.tmp#StageLabel ome_xsd.tmp#Pixels ROI_xsd.tmp#ROIRef ome_xsd.tmp#MicrobeamManipulationRef SA_xsd.tmp#AnnotationRef
Properties
content complex
Used by
Element OME
Model
Children AcquisitionDate, AnnotationRef, Description, ExperimentRef, ExperimenterGroupRef, ExperimenterRef, ImagingEnvironment, InstrumentRef, MicrobeamManipulationRef, ObjectiveSettings, Pixels, ROIRef, StageLabel
Instance
<Image ID="" Name="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:ROI="http://www.openmicroscopy.org/Schemas/ROI/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <AcquisitionDate>{0,1}</AcquisitionDate>
  <ExperimenterRef ID="">{0,1}</ExperimenterRef>
  <Description>{0,1}</Description>
  <ExperimentRef ID="">{0,1}</ExperimentRef>
  <ExperimenterGroupRef ID="">{0,1}</ExperimenterGroupRef>
  <InstrumentRef ID="">{0,1}</InstrumentRef>
  <ObjectiveSettings CorrectionCollar="" ID="" Medium="" RefractiveIndex="">{0,1}</ObjectiveSettings>
  <ImagingEnvironment AirPressure="" CO2Percent="" Humidity="" Temperature="">{0,1}</ImagingEnvironment>
  <StageLabel Name="" X="" Y="" Z="">{0,1}</StageLabel>
  <Pixels BigEndian="" DimensionOrder="" ID="" Interleaved="" PhysicalSizeX="" PhysicalSizeY="" PhysicalSizeZ="" SignificantBits="" SizeC="" SizeT="" SizeX="" SizeY="" SizeZ="" TimeIncrement="" Type="">{1,1}</Pixels>
  <ROI:ROIRef ID="">{0,unbounded}</ROI:ROIRef>
  <MicrobeamManipulationRef ID="">{0,unbounded}</MicrobeamManipulationRef>
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
</Image>
Attributes
QName Type Use
ID ImageID required
Name xsd:string optional
Source
<xsd:element name="Image">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Images</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This element describes the actual image and its meta-data. The elements that are references (ending in Ref or Settings) refer to elements defined outside of the Image element. Ref elements are simple links, while Settings elements are links with additional values. If any of the required Image attributes or elements are missing, its guaranteed to be an invalid document. The required attributes and elements are ID and Pixels. ExperimenterRef is required for all Images with well formed LSIDs. ImageType is a vendor-specific designation of the type of image this is. Examples of ImageType include 'STK', 'SoftWorx', etc. The Name attributes are in all cases the name of the element instance. In this case, the name of the image, not necessarily the filename. Physical size of pixels are microns[µm].</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element name="AcquisitionDate" minOccurs="0" maxOccurs="1" type="xsd:dateTime">
        <xsd:annotation>
          <xsd:documentation>The acquisition date of the Image. The element contains a string in the ISO 8601 dateTime format (i.e. 1988-04-07T18:39:09)</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="ExperimenterRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element name="Description" minOccurs="0" maxOccurs="1">
        <xsd:annotation>
          <xsd:documentation>A description for the image. [plane text multi-line string]</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:whiteSpace value="preserve"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element ref="ExperimentRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="ExperimenterGroupRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="InstrumentRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="ObjectiveSettings" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="ImagingEnvironment" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="StageLabel" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="Pixels" minOccurs="1" maxOccurs="1"/>
      <xsd:element ref="ROI:ROIRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="MicrobeamManipulationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="ID" use="required" type="ImageID"/>
    <xsd:attribute name="Name" use="optional" type="xsd:string"/>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Image / AcquisitionDate
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The acquisition date of the Image.
The element contains a string in the ISO 8601 dateTime format (i.e. 1988-04-07T18:39:09)
Diagram
Diagram
Type xsd:dateTime
Properties
content simple
minOccurs 0
maxOccurs 1
Source
<xsd:element name="AcquisitionDate" minOccurs="0" maxOccurs="1" type="xsd:dateTime">
  <xsd:annotation>
    <xsd:documentation>The acquisition date of the Image. The element contains a string in the ISO 8601 dateTime format (i.e. 1988-04-07T18:39:09)</xsd:documentation>
  </xsd:annotation>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Image / Description
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
A description for the image. [plane text multi-line string]
Diagram
Diagram
Type restriction of xsd:string
Properties
content simple
minOccurs 0
maxOccurs 1
Facets
whiteSpace preserve
Source
<xsd:element name="Description" minOccurs="0" maxOccurs="1">
  <xsd:annotation>
    <xsd:documentation>A description for the image. [plane text multi-line string]</xsd:documentation>
  </xsd:annotation>
  <xsd:simpleType>
    <xsd:restriction base="xsd:string">
      <xsd:whiteSpace value="preserve"/>
    </xsd:restriction>
  </xsd:simpleType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ExperimentRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#ExperimentRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Element Image
Attributes
QName Type Use
ID ExperimentID required
Source
<xsd:element name="ExperimentRef">
  <!-- top level definition -->
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="ExperimentID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element InstrumentRef
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This empty element can be used (via the required Instrument ID attribute) to refer to an Instrument defined within OME.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#InstrumentRef_ID
Type extension of Reference
Type hierarchy
Properties
content complex
Used by
Element Image
Attributes
QName Type Use
ID InstrumentID required
Source
<xsd:element name="InstrumentRef">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:documentation>This empty element can be used (via the required Instrument ID attribute) to refer to an Instrument defined within OME.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Reference">
        <xsd:attribute name="ID" use="required" type="InstrumentID"/>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ObjectiveSettings
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This holds the setting applied to an objective as well as a
reference to the objective.
The ID is the objective used in this case.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#Settings ome_xsd.tmp#ObjectiveSettings_ID ome_xsd.tmp#ObjectiveSettings_CorrectionCollar ome_xsd.tmp#ObjectiveSettings_Medium ome_xsd.tmp#ObjectiveSettings_RefractiveIndex
Type extension of Settings
Type hierarchy
Properties
content complex
Used by
Element Image
Attributes
QName Type Use Annotation
CorrectionCollar xsd:float optional
The CorrectionCollar is normally an adjustable ring on the
objective. Each has an arbitrary scale on it so the values
is unit-less. [units:none]
ID ObjectiveID required
Medium restriction of xsd:string optional
RefractiveIndex xsd:float optional
The RefractiveIndex is that of the immersion medium. This is
a ratio so it also unit-less. [units:none]
Source
<xsd:element name="ObjectiveSettings">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>ObjectiveSettingsCombinations</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This holds the setting applied to an objective as well as a reference to the objective. The ID is the objective used in this case.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:complexContent>
      <xsd:extension base="Settings">
        <xsd:attribute name="ID" use="required" type="ObjectiveID"/>
        <xsd:attribute name="CorrectionCollar" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The CorrectionCollar is normally an adjustable ring on the objective. Each has an arbitrary scale on it so the values is unit-less. [units:none]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
        <xsd:attribute name="Medium" use="optional">
          <xsd:simpleType>
            <xsd:annotation>
              <xsd:documentation>A description of a Medium used for the lens. The Medium is the actual immersion medium used in this case.</xsd:documentation>
            </xsd:annotation>
            <xsd:restriction base="xsd:string">
              <xsd:enumeration value="Air"/>
              <xsd:enumeration value="Oil"/>
              <xsd:enumeration value="Water"/>
              <xsd:enumeration value="Glycerol"/>
              <xsd:enumeration value="Other"/>
            </xsd:restriction>
          </xsd:simpleType>
        </xsd:attribute>
        <xsd:attribute name="RefractiveIndex" use="optional" type="xsd:float">
          <xsd:annotation>
            <xsd:documentation>The RefractiveIndex is that of the immersion medium. This is a ratio so it also unit-less. [units:none]</xsd:documentation>
          </xsd:annotation>
        </xsd:attribute>
      </xsd:extension>
    </xsd:complexContent>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element ImagingEnvironment
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This describes the environment that the biological sample was in
during the experiment.
Diagram
Diagram ome_xsd.tmp#ImagingEnvironment_Temperature ome_xsd.tmp#ImagingEnvironment_AirPressure ome_xsd.tmp#ImagingEnvironment_Humidity ome_xsd.tmp#ImagingEnvironment_CO2Percent
Properties
content complex
Used by
Element Image
Attributes
QName Type Use Annotation
AirPressure xsd:float optional
AirPressure is in millibars[mbar].
CO2Percent PercentFraction optional
Carbon Dioxide concentration around the sample [units:none]
A fraction, as a value from 0.0 to 1.0.
Humidity PercentFraction optional
Humidity around the sample [units:none]
A fraction, as a value from 0.0 to 1.0.
Temperature xsd:float optional
The Temperature is in Celsius[°C].
Source
<xsd:element name="ImagingEnvironment">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>ImagingEnvironments</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This describes the environment that the biological sample was in during the experiment.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:attribute name="Temperature" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The Temperature is in Celsius[°C].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="AirPressure" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>AirPressure is in millibars[mbar].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Humidity" use="optional" type="PercentFraction">
      <xsd:annotation>
        <xsd:documentation>Humidity around the sample [units:none] A fraction, as a value from 0.0 to 1.0.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="CO2Percent" use="optional" type="PercentFraction">
      <xsd:annotation>
        <xsd:documentation>Carbon Dioxide concentration around the sample [units:none] A fraction, as a value from 0.0 to 1.0.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element StageLabel
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
The StageLabel is used to specify a name and position for a stage position in the microscope's reference frame.
Diagram
Diagram ome_xsd.tmp#StageLabel_Name ome_xsd.tmp#StageLabel_X ome_xsd.tmp#StageLabel_Y ome_xsd.tmp#StageLabel_Z
Properties
content complex
Used by
Element Image
Attributes
QName Type Use Annotation
Name xsd:string required
X xsd:float optional
The X position of the stage label. [units are in the microscope reference frame]
Y xsd:float optional
The Y position of the stage label. [units are in the microscope reference frame]
Z xsd:float optional
The Z position of the stage label. [units are in the microscope reference frame]
Source
<xsd:element name="StageLabel">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>StageLabels</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>The StageLabel is used to specify a name and position for a stage position in the microscope's reference frame.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:attribute name="Name" use="required" type="xsd:string"/>
    <xsd:attribute name="X" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The X position of the stage label. [units are in the microscope reference frame]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Y" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The Y position of the stage label. [units are in the microscope reference frame]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Z" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The Z position of the stage label. [units are in the microscope reference frame]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Pixels
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
Pixels is going to be removed in the future, but it is still required.

				This is just notice that the contents of Pixels will be
				moved up to Image in a future release. This is because there
				has only been 1 Pixels object in each Image for some time.
				The concept of multiple Pixels sets for one Image failed to
				take off. It is therefore redundant.

				The Image will be unreadable if any of the required Pixel attributes are missing.

				The Pixels themselves can be stored within the OME-XML compressed by plane, and encoded
				in Base64.
				Or the Pixels may be stored in TIFF format.

				The Pixels element should contain a list of BinData or TiffData, each containing a
				single plane of pixels. These Pixels elements, when read in document order,
				must produce a 5-D pixel array of the size specified in this element, and in the
				dimension order specified by 'DimensionOrder'.

				All of the values in the Pixels object when present should match the same value
				stored in any associated TIFF format (e.g. SizeX should be the same). Where there
				is a mismatch our readers will take the value from the TIFF structure as overriding
				the value in the OME-XML. This is simply a pragmatic decision as it increases the
				likelihood of reading data from a slightly incorrect file.
Diagram
Diagram ome_xsd.tmp#Pixels_ID ome_xsd.tmp#Pixels_DimensionOrder ome_xsd.tmp#Pixels_Type ome_xsd.tmp#Pixels_SignificantBits ome_xsd.tmp#Pixels_Interleaved ome_xsd.tmp#Pixels_BigEndian ome_xsd.tmp#Pixels_SizeX ome_xsd.tmp#Pixels_SizeY ome_xsd.tmp#Pixels_SizeZ ome_xsd.tmp#Pixels_SizeC ome_xsd.tmp#Pixels_SizeT ome_xsd.tmp#Pixels_PhysicalSizeX ome_xsd.tmp#Pixels_PhysicalSizeY ome_xsd.tmp#Pixels_PhysicalSizeZ ome_xsd.tmp#Pixels_TimeIncrement ome_xsd.tmp#Channel BinaryFile_xsd.tmp#BinData ome_xsd.tmp#TiffData ome_xsd.tmp#MetadataOnly ome_xsd.tmp#Plane SA_xsd.tmp#AnnotationRef
Properties
content complex
Used by
Element Image
Model
Children AnnotationRef, Bin:BinData, Channel, MetadataOnly, Plane, TiffData
Instance
<Pixels BigEndian="" DimensionOrder="" ID="" Interleaved="" PhysicalSizeX="" PhysicalSizeY="" PhysicalSizeZ="" SignificantBits="" SizeC="" SizeT="" SizeX="" SizeY="" SizeZ="" TimeIncrement="" Type="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:BIN="http://www.openmicroscopy.org/Schemas/BinaryFile/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <Channel AcquisitionMode="" Color="-1" ContrastMethod="" EmissionWavelength="" ExcitationWavelength="" Fluor="" ID="" IlluminationType="" Name="" NDFilter="" PinholeSize="" PockelCellSetting="" SamplesPerPixel="">{0,unbounded}</Channel>
  <BIN:BinData BigEndian="" Compression="none" Length="">{1,unbounded}</BIN:BinData>
  <TiffData FirstC="0" FirstT="0" FirstZ="0" IFD="0" PlaneCount="">{1,unbounded}</TiffData>
  <MetadataOnly>{1,1}</MetadataOnly>
  <Plane DeltaT="" ExposureTime="" PositionX="" PositionY="" PositionZ="" TheC="" TheT="" TheZ="">{0,unbounded}</Plane>
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
</Pixels>
Attributes
QName Type Use Annotation
BigEndian xsd:boolean optional
This is true if the pixels data was written in BigEndian order.

						If this value is present it should match the value used in BinData
						or TiffData. If it does not a reader should honour the value used
						in the BinData or TiffData. This values is useful for MetadataOnly
						files and is to allow for future storage solutions.
DimensionOrder restriction of xsd:string required
The order in which the individual planes of data are interleaved.
ID PixelsID required
Interleaved xsd:boolean optional
How the channels are arranged within the data block:
true if channels are stored RGBRGBRGB...;
false if channels are stored RRR...GGG...BBB...
PhysicalSizeX PositiveFloat optional
Physical size of a pixel in microns[µm].
PhysicalSizeY PositiveFloat optional
Physical size of a pixel in microns[µm].
PhysicalSizeZ PositiveFloat optional
Physical size of a pixel in microns[µm].
SignificantBits PositiveInt optional
The number of bits within the type storing each pixel that are significant.
e.g. you can store 12 bit data within a 16 bit type.
This does not reduce the storage requirements but can be a useful indicator
when processing or viewing the image data.
SizeC PositiveInt required
Dimensional size of pixel data array [units:none]
SizeT PositiveInt required
Dimensional size of pixel data array [units:none]
SizeX PositiveInt required
Dimensional size of pixel data array [units:none]
SizeY PositiveInt required
Dimensional size of pixel data array [units:none]
SizeZ PositiveInt required
Dimensional size of pixel data array [units:none]
TimeIncrement xsd:float optional
TimeIncrement is used for time series that have a global
timing specification instead of per-timepoint timing info.
For example in a video stream.  The unit is seconds[s].
Type PixelType required
The variable type used to represent each pixel in the image.
Source
<xsd:element name="Pixels">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Pixels</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>Pixels is going to be removed in the future, but it is still required. This is just notice that the contents of Pixels will be moved up to Image in a future release. This is because there has only been 1 Pixels object in each Image for some time. The concept of multiple Pixels sets for one Image failed to take off. It is therefore redundant. The Image will be unreadable if any of the required Pixel attributes are missing. The Pixels themselves can be stored within the OME-XML compressed by plane, and encoded in Base64. Or the Pixels may be stored in TIFF format. The Pixels element should contain a list of BinData or TiffData, each containing a single plane of pixels. These Pixels elements, when read in document order, must produce a 5-D pixel array of the size specified in this element, and in the dimension order specified by 'DimensionOrder'. All of the values in the Pixels object when present should match the same value stored in any associated TIFF format (e.g. SizeX should be the same). Where there is a mismatch our readers will take the value from the TIFF structure as overriding the value in the OME-XML. This is simply a pragmatic decision as it increases the likelihood of reading data from a slightly incorrect file.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element ref="Channel" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <ordered/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:choice minOccurs="1" maxOccurs="1">
        <xsd:element ref="BIN:BinData" minOccurs="1" maxOccurs="unbounded"/>
        <xsd:element ref="TiffData" minOccurs="1" maxOccurs="unbounded"/>
        <xsd:element ref="MetadataOnly" minOccurs="1" maxOccurs="1"/>
      </xsd:choice>
      <xsd:element ref="Plane" minOccurs="0" maxOccurs="unbounded"/>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
    </xsd:sequence>
    <xsd:attribute name="ID" use="required" type="PixelsID"/>
    <xsd:attribute name="DimensionOrder" use="required">
      <xsd:annotation>
        <xsd:documentation>The order in which the individual planes of data are interleaved.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="XYZCT"/>
          <xsd:enumeration value="XYZTC"/>
          <xsd:enumeration value="XYCTZ"/>
          <xsd:enumeration value="XYCZT"/>
          <xsd:enumeration value="XYTCZ"/>
          <xsd:enumeration value="XYTZC"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="Type" use="required" type="PixelType">
      <xsd:annotation>
        <xsd:documentation>The variable type used to represent each pixel in the image.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SignificantBits" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>The number of bits within the type storing each pixel that are significant. e.g. you can store 12 bit data within a 16 bit type. This does not reduce the storage requirements but can be a useful indicator when processing or viewing the image data.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Interleaved" use="optional" type="xsd:boolean">
      <xsd:annotation>
        <xsd:documentation>How the channels are arranged within the data block: true if channels are stored RGBRGBRGB...; false if channels are stored RRR...GGG...BBB...</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="BigEndian" use="optional" type="xsd:boolean">
      <xsd:annotation>
        <xsd:documentation>This is true if the pixels data was written in BigEndian order. If this value is present it should match the value used in BinData or TiffData. If it does not a reader should honour the value used in the BinData or TiffData. This values is useful for MetadataOnly files and is to allow for future storage solutions.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SizeX" use="required" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Dimensional size of pixel data array [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SizeY" use="required" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Dimensional size of pixel data array [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SizeZ" use="required" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Dimensional size of pixel data array [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SizeC" use="required" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Dimensional size of pixel data array [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SizeT" use="required" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Dimensional size of pixel data array [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="PhysicalSizeX" use="optional" type="PositiveFloat">
      <xsd:annotation>
        <xsd:documentation>Physical size of a pixel in microns[µm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="PhysicalSizeY" use="optional" type="PositiveFloat">
      <xsd:annotation>
        <xsd:documentation>Physical size of a pixel in microns[µm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="PhysicalSizeZ" use="optional" type="PositiveFloat">
      <xsd:annotation>
        <xsd:documentation>Physical size of a pixel in microns[µm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="TimeIncrement" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>TimeIncrement is used for time series that have a global timing specification instead of per-timepoint timing info. For example in a video stream. The unit is seconds[s].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element Channel
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
There must be one per channel in the Image, even for a single-plane image.
And information about how each of them was acquired is stored in the various optional *Ref elements.  Each Logical Channel is composed of one or more
ChannelComponents.  For example, an entire spectrum in an FTIR experiment may be stored in a single Logical Channel with each discrete wavenumber of the spectrum
constituting a ChannelComponent of the FTIR Logical Channel.  An RGB image where the Red, Green and Blue components do not reflect discrete probes but are
instead the output of a color camera would be treated similarly - one Logical channel with three ChannelComponents in this case.
The total number of ChannelComponents for a set of pixels must equal SizeC.
The IlluminationType attribute is a string enumeration which may be set to 'Transmitted', 'Epifluorescence', 'Oblique', or 'NonLinear'.
The user interface logic for labeling a given channel for the user should use the first existing attribute in the following sequence:
Name -> Fluor -> EmissionWavelength -> ChannelComponent/Index.
Diagram
Diagram ome_xsd.tmp#Channel_ID ome_xsd.tmp#Channel_Name ome_xsd.tmp#Channel_SamplesPerPixel ome_xsd.tmp#Channel_IlluminationType ome_xsd.tmp#Channel_PinholeSize ome_xsd.tmp#Channel_AcquisitionMode ome_xsd.tmp#Channel_ContrastMethod ome_xsd.tmp#Channel_ExcitationWavelength ome_xsd.tmp#Channel_EmissionWavelength ome_xsd.tmp#Channel_Fluor ome_xsd.tmp#Channel_NDFilter ome_xsd.tmp#Channel_PockelCellSetting ome_xsd.tmp#Channel_Color ome_xsd.tmp#LightSourceSettings ome_xsd.tmp#DetectorSettings ome_xsd.tmp#FilterSetRef SA_xsd.tmp#AnnotationRef ome_xsd.tmp#LightPath
Properties
content complex
Used by
Element Pixels
Model
Children AnnotationRef, DetectorSettings, FilterSetRef, LightPath, LightSourceSettings
Instance
<Channel AcquisitionMode="" Color="-1" ContrastMethod="" EmissionWavelength="" ExcitationWavelength="" Fluor="" ID="" IlluminationType="" Name="" NDFilter="" PinholeSize="" PockelCellSetting="" SamplesPerPixel="" xmlns="http://www.openmicroscopy.org/Schemas/OME/2013-06" xmlns:SA="http://www.openmicroscopy.org/Schemas/SA/2013-06">
  <LightSourceSettings Attenuation="" ID="" Wavelength="">{0,1}</LightSourceSettings>
  <DetectorSettings Binning="" Gain="" ID="" Integration="" Offset="" ReadOutRate="" Voltage="" Zoom="">{0,1}</DetectorSettings>
  <FilterSetRef ID="">{0,1}</FilterSetRef>
  <SA:AnnotationRef ID="">{0,unbounded}</SA:AnnotationRef>
  <LightPath>{0,1}</LightPath>
</Channel>
Attributes
QName Type Default Use Annotation
AcquisitionMode restriction of xsd:string optional
AcquisitionMode describes the type of microscopy performed for each channel
Color Color -1 optional
A color used to render this channel - encoded as RGBA
The default value "-1" is #FFFFFFFF so solid white (it is a signed 32 bit value)
NOTE: Prior to the 2012-06 schema the default value was incorrect and produced a transparent red not solid white.
ContrastMethod restriction of xsd:string optional
ContrastMethod describes the technique used to achieve contrast for each channel
EmissionWavelength PositiveInt optional
Emission wavelength of excitation for a particular channel, in nanometres[nm].
ExcitationWavelength PositiveInt optional
Excitation wavelength of excitation for a particular channel, in nanometres[nm].
Fluor xsd:string optional
The Fluor attribute is used for fluorescence images.
This is the name of the fluorophore used to produce this channel [plain text string]
ID ChannelID required
IlluminationType restriction of xsd:string optional
The method of illumination used to capture the channel.
NDFilter xsd:float optional
The NDfilter attribute is used to specify the combined effect of any neutral density filters used. [units optical density expressed as a PercentFraction]
Name xsd:string optional
A name for the channel that is suitable be presented to the user.
PinholeSize xsd:float optional
The optional PinholeSize attribute allows specifying adjustable
pin hole diameters for confocal microscopes (units microns[µm]).
PockelCellSetting xsd:int optional
The PockelCellSetting used for this channel. This is the amount the polarization of the beam is rotated by. [units:none]
SamplesPerPixel PositiveInt optional
The number of samples the detector takes to form each pixel value. [units:none]
Note: This is not the same as "Frame Averaging" - see Integration in DetectorSettings
Source
<xsd:element name="Channel">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>Channels</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>There must be one per channel in the Image, even for a single-plane image. And information about how each of them was acquired is stored in the various optional *Ref elements. Each Logical Channel is composed of one or more ChannelComponents. For example, an entire spectrum in an FTIR experiment may be stored in a single Logical Channel with each discrete wavenumber of the spectrum constituting a ChannelComponent of the FTIR Logical Channel. An RGB image where the Red, Green and Blue components do not reflect discrete probes but are instead the output of a color camera would be treated similarly - one Logical channel with three ChannelComponents in this case. The total number of ChannelComponents for a set of pixels must equal SizeC. The IlluminationType attribute is a string enumeration which may be set to 'Transmitted', 'Epifluorescence', 'Oblique', or 'NonLinear'. The user interface logic for labeling a given channel for the user should use the first existing attribute in the following sequence: Name -> Fluor -> EmissionWavelength -> ChannelComponent/Index.</xsd:documentation>
  </xsd:annotation>
  <xsd:complexType>
    <xsd:sequence>
      <xsd:element ref="LightSourceSettings" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="DetectorSettings" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="FilterSetRef" minOccurs="0" maxOccurs="1"/>
      <xsd:element ref="SA:AnnotationRef" minOccurs="0" maxOccurs="unbounded">
        <xsd:annotation>
          <xsd:appinfo>
            <xsdfu>
              <manytomany/>
            </xsdfu>
          </xsd:appinfo>
        </xsd:annotation>
      </xsd:element>
      <xsd:element ref="LightPath" minOccurs="0" maxOccurs="1"/>
    </xsd:sequence>
    <xsd:attribute name="ID" use="required" type="ChannelID"/>
    <xsd:attribute name="Name" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>A name for the channel that is suitable be presented to the user.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="SamplesPerPixel" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>The number of samples the detector takes to form each pixel value. [units:none] Note: This is not the same as "Frame Averaging" - see Integration in DetectorSettings</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="IlluminationType" use="optional">
      <xsd:annotation>
        <xsd:documentation>The method of illumination used to capture the channel.</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="Transmitted"/>
          <xsd:enumeration value="Epifluorescence"/>
          <xsd:enumeration value="Oblique"/>
          <xsd:enumeration value="NonLinear"/>
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="PinholeSize" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The optional PinholeSize attribute allows specifying adjustable pin hole diameters for confocal microscopes (units microns[µm]).</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="AcquisitionMode" use="optional">
      <xsd:annotation>
        <xsd:documentation>AcquisitionMode describes the type of microscopy performed for each channel</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="WideField"/>
          <xsd:enumeration value="LaserScanningConfocalMicroscopy"/>
          <!-- CLSM or LSCM -->
          <xsd:enumeration value="SpinningDiskConfocal"/>
          <xsd:enumeration value="SlitScanConfocal"/>
          <xsd:enumeration value="MultiPhotonMicroscopy"/>
          <!-- laser scanning multiphoton microscopy (LSMM), two photon microscopy -->
          <xsd:enumeration value="StructuredIllumination"/>
          <xsd:enumeration value="SingleMoleculeImaging"/>
          <xsd:enumeration value="TotalInternalReflection"/>
          <xsd:enumeration value="FluorescenceLifetime"/>
          <xsd:enumeration value="SpectralImaging"/>
          <xsd:enumeration value="FluorescenceCorrelationSpectroscopy"/>
          <xsd:enumeration value="NearFieldScanningOpticalMicroscopy"/>
          <!-- NSOM -->
          <xsd:enumeration value="SecondHarmonicGenerationImaging"/>
          <!-- Second harmonic imaging microscopy (SHIM) -->
          <xsd:enumeration value="PALM"/>
          <!-- photo-activated localization microscopy, photo-activation localization microscopy -->
          <xsd:enumeration value="STORM"/>
          <!-- stochastic optical reconstruction microscopy -->
          <xsd:enumeration value="STED"/>
          <!-- stimulated emission depletion -->
          <xsd:enumeration value="TIRF"/>
          <!-- total internal reflection fluorescence (TIRFM) -->
          <xsd:enumeration value="FSM"/>
          <!-- Fluorescence speckle microscopy -->
          <xsd:enumeration value="LCM"/>
          <!-- Laser capture microdissection -->
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="ContrastMethod" use="optional">
      <xsd:annotation>
        <xsd:documentation>ContrastMethod describes the technique used to achieve contrast for each channel</xsd:documentation>
      </xsd:annotation>
      <xsd:simpleType>
        <xsd:restriction base="xsd:string">
          <xsd:enumeration value="Brightfield"/>
          <xsd:enumeration value="Phase"/>
          <xsd:enumeration value="DIC"/>
          <!-- Differential Interference Contrast -->
          <xsd:enumeration value="HoffmanModulation"/>
          <!-- Hoffman Modulation Contrast (HMC) -->
          <xsd:enumeration value="ObliqueIllumination"/>
          <xsd:enumeration value="PolarizedLight"/>
          <!-- Polarization Microscopy -->
          <xsd:enumeration value="Darkfield"/>
          <!-- Dark Field Imaging -->
          <xsd:enumeration value="Fluorescence"/>
          <xsd:enumeration value="Other"/>
        </xsd:restriction>
      </xsd:simpleType>
    </xsd:attribute>
    <xsd:attribute name="ExcitationWavelength" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Excitation wavelength of excitation for a particular channel, in nanometres[nm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="EmissionWavelength" use="optional" type="PositiveInt">
      <xsd:annotation>
        <xsd:documentation>Emission wavelength of excitation for a particular channel, in nanometres[nm].</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Fluor" use="optional" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation>The Fluor attribute is used for fluorescence images. This is the name of the fluorophore used to produce this channel [plain text string]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="NDFilter" use="optional" type="xsd:float">
      <xsd:annotation>
        <xsd:documentation>The NDfilter attribute is used to specify the combined effect of any neutral density filters used. [units optical density expressed as a PercentFraction]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="PockelCellSetting" use="optional" type="xsd:int">
      <xsd:annotation>
        <xsd:documentation>The PockelCellSetting used for this channel. This is the amount the polarization of the beam is rotated by. [units:none]</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="Color" use="optional" type="Color" default="-1">
      <xsd:annotation>
        <xsd:documentation>A color used to render this channel - encoded as RGBA The default value "-1" is #FFFFFFFF so solid white (it is a signed 32 bit value) NOTE: Prior to the 2012-06 schema the default value was incorrect and produced a transparent red not solid white.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>
Schema location http://www.openmicroscopy.org/Schemas/OME/2013-06/ome.xsd
Element DetectorSettings
Namespace http://www.openmicroscopy.org/Schemas/OME/2013-06
Annotations
This holds the setting applied to a detector as well as a
				reference to the detector.
				The ID is the detector used in this case.
				The values stored in DetectorSettings represent the variable values,
				fixed values not modified during the acquisition go in Detector.

				Each attribute now has an indication of what type of detector
				it applies to. This is preparatory work for cleaning up and
				possibly splitting this object into sub-types.
Diagram
Diagram ome_xsd.tmp#Reference ome_xsd.tmp#Settings ome_xsd.tmp#DetectorSettings_ID ome_xsd.tmp#DetectorSettings_Offset ome_xsd.tmp#DetectorSettings_Gain ome_xsd.tmp#DetectorSettings_Voltage ome_xsd.tmp#DetectorSettings_Zoom ome_xsd.tmp#DetectorSettings_ReadOutRate ome_xsd.tmp#DetectorSettings_Binning ome_xsd.tmp#DetectorSettings_Integration
Type extension of Settings
Type hierarchy
Properties
content complex
Used by
Element Channel
Attributes
QName Type Use Annotation
Binning restriction of xsd:string optional
Represents the number of pixels that are combined to form larger pixels. {used:CCD,EMCCD}
Gain xsd:float optional
The Gain of the detector. [units:none] {used:CCD,EMCCD,PMT}
ID DetectorID required
Integration PositiveInt optional
This is the number of sequential frames that get averaged,
to improve the signal-to-noise ratio. [units:none] {used:CCD,EMCCD}
Offset xsd:float optional
The Offset of the detector. [units none] {used:CCD,EMCCD}
ReadOutRate xsd:float optional
The speed at which the detector can count pixels.  {used:CCD,EMCCD}
Units of ReadOutRate is MHz. This is the bytes per second that
can be read from the detector (like a baud rate). megahertz[MHz]
Voltage xsd:float optional
The Voltage of the detector. volts[V] {used:PMT}
Zoom xsd:float optional
The Zoom or "Confocal Zoom" or "Scan Zoom" for a detector. [units:none] {used:PMT}
Source
<xsd:element name="DetectorSettings">
  <!-- top level definition -->
  <xsd:annotation>
    <xsd:appinfo>
      <xsdfu>
        <plural>DetectorSettingsCombinations</plural>
      </xsdfu>
    </xsd:appinfo>
    <xsd:documentation>This holds the setting applied to a detector as well as a reference to the detector. The ID is the detector used in this case. The values stored in DetectorSettings represent the variable va