How to troubleshoot the DRAGEN Array Cloud error "Sample sheet missing required columns"

With DRAGEN Array v1.3, new sample sheet features were introduced (refer to the DRAGEN Array v1.3.0 Release Notes for additional details), including:

• GenomeStudio backwards compatible sample sheet support and related deprecation of separate IDAT and GTC sample sheets.

• User-defined data from the sample sheet will get passed to gt_sample_summary files during genotyping.

These sample sheet features are compatible only with DRAGEN Array Local CLI Analysis.

When launching DRAGEN Array Cloud Analysis on BaseSpace Sequence Hub using a GenomeStudio-formatted sample sheet, the following error may be displayed:

Error

Samplesheet is missing required columns "beadChipName" and "sampleSectionName" (Figure 1).

Figure 1. Sample sheet error displayed when launching DRAGEN Array Cloud Analysis on BaseSpace using a GenomeStudio-formatted sample sheet.

Resolution

To resolve this error, use a sample sheet that conforms to the format required for DRAGEN Array Cloud analysis. For additional information, refer to What is the correct format for DRAGEN Array IDAT CSV Sample Sheet?

DRAGEN Array Cloud analysis does not currently support sections found in the GenomeStudio sample sheet such as Header and Data.

In addition, DRAGEN Array Cloud analysis does not use the SentrixBarcode_A and SentrixPosition_A fields to identify samples.

The DRAGEN Array Cloud sample sheet uses the following two column headers which must be included in the CSV file (Figure 2):

• beadChipName

• sampleSectionName

  

Figure 2. Example of a sample sheet formatted for DRAGEN Array Cloud analysis.

A Cloud Sample Sheet Template is available on BaseSpace during Run Setup (Plan or Start an Analysis, Figure 3):

Figure 3. Download Sample Sheet Template option available during DRAGEN Array run setup in BaseSpace Sequence Hub.

References:

DRAGEN Array Secondary Analysis Software Downloads Page for the Local and Cloud Sample Sheet templates

DRAGEN Array User Guide and Release Notes

For any feedback or questions regarding this article (Illumina Knowledge Article #10004), contact Illumina Technical Support [e-mail].