IonReporterUploader command-line utility

The IonReporterUploader command-line utility is an alternative to the IonReporterUploader plugin that is included with Torrent Suite™ Software. You can use the IonReporterUploader command-line utility to transfer results files to Ion Reporter™ Software and to define samples, based on the transferred files. The IonReporterUploader command-line utility uses your sign in ID to transfer run data from Torrent Suite™ Software to Ion Reporter™ Software. The utility supports these transfer scenarios:

• Transfer a single BAM or VCF file

• Transfer all results files for a Torrent Suite™ Software analysis

• Transfer results files that are in a single flat folder

• Transfer multiple files that are not restricted to a single folder

You can later analyze the samples with Ion Reporter™ Software. You can enter IonReporterUploader command-line utility options through command line arguments, or through a properties file.

The IonReporterUploader command-line utility can be run on any of the following:

• A Ion Torrent™ Server.

• A standard Linux™ computer.

• A standard Windows™ computer that uses the Windows™ XP operating system or later.

• A standard Macintosh™ computer.

IonReporterUploader command-line utility supports the upload of combined Ion Reporter™ Software analysis results that are output by the Combine Alignments option in the Torrent Suite™ Software Projects tab. The IonReporterUploader plugin does not support uploading these files.

You can download the IonReporterUploader command-line utility at: http://iru.ionreporter.thermofisher.com/. For information on IonReporterUploader plugin, see the Torrent Suite™ Software Help, or the Torrent Suite™ Software User Guide.