Hi everyone, I’ve been troubleshooting an issue with the pipeline recently and finally discovered that the error was in the contrastsheet, where I had incorrectly listed the names in the design. The pipeline currently validates both the samplesheet.csv and the contrastsheet.csv separately (I think). If you consider it appropriate, I suggest adding a validation step to ensure that the condition names in the samplesheet match the treatment and control names in the contrastsheet. This way, any mismatches can be identified early for correction. Thanks!