SAMTOOLS_GENOME @CASAVA_FULL_DATADIR@/examples/Validation/100723_EAS346_0188_FC626BWAAXX/Data/Intensities/BaseCalls/controls.fasta

4:ANALYSIS eland_pair
4:USE_BASES y*n,y*n

8:ANALYSIS eland_extended
8:USE_BASES y*n,n*

CHROM_NAME_VALIDATION off

KAGU_PARAMS --circular phi

PAS_PARAMS --max_patterns_to_store 100000