Illumina's BCL Convert software generates FASTQ files for sequencing data run directory containing BCL files. The demultiplexing process involves assigning reads to a FASTQ files as specified by the indices (barcodes) in the SampleSheet.csv file. If no reads can be assigned to the barcode, bcl-convert generates an empty FASTQ. The empty FASTQ file has caused error in the bcl_demultiplex subworkflow. The fix should include a test case for empty FASTQs. We can include a sample with indices in the SamleSheet.csv that are not used in the library prep to generate the empty FASTQ file during the test.
Illumina's BCL Convert software generates FASTQ files for sequencing data run directory containing BCL files. The demultiplexing process involves assigning reads to a FASTQ files as specified by the indices (barcodes) in the SampleSheet.csv file. If no reads can be assigned to the barcode, bcl-convert generates an empty FASTQ. The empty FASTQ file has caused error in the bcl_demultiplex subworkflow. The fix should include a test case for empty FASTQs. We can include a sample with indices in the SamleSheet.csv that are not used in the library prep to generate the empty FASTQ file during the test.