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  • Write Assembly Element

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Parameters in GUI

ParameterDescriptionDefault value
Document formatDocument format of output file.bam
Build index (BAM only)Build BAM index for the target BAM file. The file .bai will be created in the same directory.True
Output fileLocation of output data file. If this attribute is set, slot "Location" in port will not be used. 
Existing fileIf a target file already exists, you can specify how it should be handled: either overwritten, renamed or appended (if supported by file format). If Rename option is chosen existing file will be renamed.Rename

Parameters in

Schema File

Workflow File

Type: write-assembly

ParameterParameter in the GUIType
document-formatDocument formatstring
build-indexBuild index (BAM only)


out-urlOutput file


write-modeExisting filenumeric

Input/Output Ports

The element has 1 input port:

Name in GUI: Assembly

Name in Schema File Workflow File: in-assembly


Slot In GUISlot in Schema Workflow FileType
Assembly dataassemblyassembly