Run the IonReporterUploader plugin manually
You can run the IonReporterUploader plugin manually from a completed run report in Torrent Suite™ Software. This process transfers data from a completed sequencing run to Ion Reporter™ Software. You might want to run IonReporterUploader plugin manually if after a sequencing run is completed, for example, you want to annotate only variants, and therefore upload only VCF files. This option is not available when the plugin is run from the Planned Run or run template. Instead both BAM and VCF files are uploaded to Ion Reporter™ Software.
For barcoded runs, you can select the barcodes that you want to include in your plugin results. You can also select the barcode kit on the instrument before the run, then run the plugin manually when the run is complete. In this case, the barcode kit that you enter on the sequencer is used in the run. The barcode kit that you select on the instrument overwrites the barcode kit that is selected in the Planned Run.
When you run the plugin manually, you can select whether to upload only VCF files, only BAM files, or both VCF and BAM files.
You can also see the barcoded samples that were used in the sequencing run. You can upload any barcoded sample that includes a sample name.
- In the Data tab, click Completed Runs & Reports, then click the Report Name link for your completed sequencing run.
- Click link, then click IonReporterUploader.
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For runs that include barcoded samples, click Barcode Sample Settings.
You can select one or more samples to upload to Torrent Suite™ Software.
- (Optional) To adjust speed parameters in IonReporterUploader plugin that change the rate at which files are uploaded, click Advanced Settings.
- In the Upload Options section of the Configure Plugin dialog box, select the file types that you want to upload: BAM, VCF, or BAM and VCF. Then click Launch IRU in the row next to the Ion Reporter™ Software account that you want to use for the upload.
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Click Yes to confirm that you want to upload the data.
Your upload starts. Upload times vary depending on the speed of your internet connection and the size of the dataset being transferred. An email notification is sent when the upload is complete. When the upload completes, you can sign in to Ion Reporter™ Software, then launch an analysis on the new datasets.