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  • Write Assembly Element

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Parameters in GUI

ParameterDescriptionDefault value
Data storagePlace to store workflow results: local file system or a database. 
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. 
Output file suffixThis suffix will be used for generating the output file name. 
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 Workflow File

Type: write-assembly

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


out-urlOutput file


url-suffixOutput file suffixstring
write-modeExisting filenumeric

Input/Output Ports