Affymetrix® GeneChip Command Console Sample File

Command Console Sample File

Description
The Command Console sample file is a file used to store user attributes associated with a sample and its associated physical arrays.
Format
The format of the file is an XML file.
DTT
The DTT for the XML file is:
<?xml version="1.0" encoding="UTF-8"?>

			<!--


			Entries in associated XML files are initialized by the Calvin 
			system.

			Modifying the files directly must be done with care.

			Please see the comments below for areas of particular concern.

			Modifying GUIDs is particularly dangerous. The Calvin system 
			populates empty GUIDs

			whenever possible. An error will be generated by the Calvin system 
			if

			an invalid or non-unique GUID is found.


			-->

			

			<!ELEMENT ArraySetFile (PhysicalArrays?, UserAttributes?)>

			

			<!ELEMENT TemplateFile (UserAttributes?)>

			<!--

			The OriginalProjectName attribute is used as a "hint" when an 
			orphaned ArraySetFile is found and its project


			association is unclear. The attribute is NOT used by the Calvin 
			system.

			The GUID attribute must be unique within the Calvin system. The 
			Calvin system will populate this GUID.

			-->

			

			<!ATTLIST ArraySetFile

			Type CDATA #FIXED "affymetrix-calvin-arraysetfile"


			Version CDATA #FIXED "1.0"

			GUID CDATA #REQUIRED

			OriginalProjectName CDATA #IMPLIED

			CreatedDateTime CDATA #IMPLIED

			CreatedBy CDATA #IMPLIED

			CreatedStep (None | ArrayRegistration | Scanning | Gridding | 
			CELAnalysis | From | JobOrderServer | FileIndexer | Other) #IMPLIED


			>

			<!-- The GUID attribute must be unique within the Calvin system. The 
			Calvin system will populate this GUID. -->

			

			<!ATTLIST TemplateFile

			Type CDATA #FIXED "affymetrix-calvin-template"

			Version CDATA #FIXED "1.0"


			GUID CDATA #REQUIRED

			CreatedDateTime CDATA #IMPLIED

			CreatedBy CDATA #IMPLIED

			>

			

			<!ELEMENT PhysicalArrays (PhysicalArray+)>

			


			<!ELEMENT PhysicalArray (ArrayAttribute*)>

			<!--

			The GUID attribute must be unique within the Calvin system.

			The Calvin system will populate this GUID.

			The ArrayName attribute must be unique within the ArraySetFile.

			The AffyBarcode attribute must be unique within the Calvin system.


			The MediaFileName attribute refers to a Media File containing 
			information about the physical media which houses the array.

			The MediaFileGUID attribute is the GUID for the MediaFileName.

			The LibraryPackageName attribute must refer to a "libraryPackageName" 
			attribute within a specific FluidicsScripts element inside a Media 
			File, and/or the "name" attribute of a specific LibraryFilePackage 
			element within a Master File.

			The MasterFileName and MediaFileName attributes are used as a "hint" 
			for the user.


			The Calvin system uses the MasterFileGUID and MediaFileGUID 
			attributes to

			uniquely identify the Master File or Media File, and does NOT use 
			the value in the

			MasterFileName or MediaFileName attributes.

			-->

			

			<!ATTLIST PhysicalArray


			Type CDATA #FIXED "affymetrix-calvin-array"

			GUID CDATA #REQUIRED

			ArrayName CDATA #REQUIRED

			AffyBarcode CDATA #IMPLIED

			MediaType (Cartridge | PlateOrStrip) #REQUIRED

			MediaRow CDATA #IMPLIED


			MediaCol CDATA #IMPLIED

			MediaFileName CDATA #IMPLIED

			MediaFileGUID CDATA #IMPLIED

			LibraryPackageName CDATA #REQUIRED

			MasterFileName CDATA #IMPLIED

			MasterFileGUID CDATA #REQUIRED


			PATAssignmentMethod (None | AffyBarcode | UserSelected | Other) 
			#IMPLIED

			CreatedDateTime CDATA #IMPLIED

			CreatedBy CDATA #IMPLIED

			CreatedStep (None | ArrayRegistration | Scanning | Gridding | 
			CELAnalysis | From | JobOrderServer | FileIndexer | Other) #IMPLIED

			Comment CDATA #IMPLIED

			>


			

			<!ELEMENT ArrayAttribute (#PCDATA)>

			<!ATTLIST ArrayAttribute

			Name CDATA #REQUIRED

			>

			

			<!ELEMENT UserAttributes (UserAttribute*)>


			<!ELEMENT UserAttribute (UserAttributeValue*, Control*)>

			<!-- If the Required attribute is not present, the UserAttribute is 
			NOT required. -->

			<!-- If the DefaultValue attribute is not present, no default is 
			assigned. -->

			<!ATTLIST UserAttribute

			Name CDATA #REQUIRED

			Type (String | Int | Float | Date | Time | SingleControl | 
			MultiControl) #REQUIRED


			Required (true | false) #IMPLIED

			DefaultValue CDATA #IMPLIED

			Namespace CDATA #IMPLIED

			>

			

			<!ELEMENT UserAttributeValue (#PCDATA)>

			


			<!ELEMENT Control EMPTY>

			<!ATTLIST Control

			Value CDATA #REQUIRED

			>