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The element gets message(s) with assembled reads data and saves the data to the specified file(s) in one of the appropriate formats (SAM, BAM, or UGENEDB).

Element type: write-assembly

Parameters


ParameterDescriptionDefault valueParameter in Workflow FileType
Data storagePlace to store workflow results: local file system or a database.
data-storagestring
Document formatDocument format of the output file.bamdocument-formatstring
Build index (BAM only)Build BAM index for the target BAM file. The file .bai will be created in the same directory.Truebuild-indexboolean
Output fileLocation of output data file. If this attribute is set, slot "Location" in port will not be used.
out-urlstring
Output file suffixThis suffix will be used for generating the output file name.
url-suffixstring
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.Renamewrite-modenumeric


Input/Output Ports

The element has 1 input port:

Name in GUI: Assembly

Name in Workflow File: in-assembly

Slots:

Slot In GUISlot in Workflow FileType
Assembly dataassemblyassembly
Locationurlstring
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