cp -r ${r_annotation} ./ | cp -r ${r_annotation} ./ | ||||
cp /software/REdiscoverTE/a.Rdata ./ | cp /software/REdiscoverTE/a.Rdata ./ | ||||
/opt/conda/bin/Rscript /software/REdiscoverTE/rollup.R | /opt/conda/bin/Rscript /software/REdiscoverTE/rollup.R | ||||
cp Step_2_salmon_counts/quant.sf ./${sample_id}_quant.sf | |||||
>>> | >>> | ||||
output { | output { | ||||
Array[File] te_result=glob("./Step_4_rollup2/*.RDS") | Array[File] te_result=glob("./Step_4_rollup2/*.RDS") | ||||
Array[File] te_quant=glob("./*.sf") | |||||
} | } | ||||
} | } |