Ambiguous species & fastq structure submits blank status detail
Summary
Steps to reproduce
v2.0.0rc01 on replicate Q-Y5ER (ambiguous species) v2.0.0rc01 on replicate Q-Y5HT (fastq structure)
Observed bug behavior
Blank status detail
Expected behavior
Inference of species returns an ambiguous result: Percent aligned to human = ${align_hu} and percent aligned to mouse = ${align_mo}
There is an error with the structure of the fastq
Relevant logs and/or screenshots
Potential fixes
process failPreExecutionRun
elif [ ${speciesError} == true ]
then
errorDetails=\$(echo \$(errorDetails)${fastqReadError_details}"\\n")should have errorDetails=\$(echo \$(errorDetails)${speciesError_details}"\\n")
AND
elif [ ${fastqFileError} == true ]
then
errorDetails=\$(echo \$(errorDetails)${fastqReadError_details}"\\n")should have errorDetails=\$(echo \$(errorDetails)${fastqFileError_details}"\\n")