reference = reference/sacCer3.fa.gz
extra_references = reference/conversion_control.fa.gz
index_dir = indexes
base = .
sequence_dir = ${base}/fastq/@SAMPLE
bam_dir = ${base}/mapping/@BARCODE
bcf_dir = ${base}/calls/@BARCODE
extract_dir = ${base}/extract/@BARCODE
report_dir = ${base}/report
threads = 1
jobs = 1
benchmark_mode = true
[mapping]
underconversion_sequence = NC_001416.1
include /software/conf/IHEC_standard.conf