Dear Kneaddata developers,
I am running kneaddata 0.7.3 for my microbiome analysis of pair end reads
I have an unusual large file to run through kneaddata. I am wondering if the program can be check point or restarted at various junctions. My network is unable to support prolonged walltime at such high computing memory and they have advised me to breakdown my jobs.
My command was
[$PATH] kneaddata --input XXX_1P.fq.gz --input XXX_2P.fq.gz -db Database --output XXX --bypass-trim
The files size were 16.8gb and 19.8gb and that is causing a lot of issue on memory and walltime requirements.
I have already run trimmomatic separately/