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IndexError: list index out of range

Open stroke1989 opened this issue 2 years ago • 0 comments

Dear professor: I wrote to you due to issues about conpair. when I run command: ~/software/conpair/Conpair/scripts/verify_concordance.py -T SCA_078_T.conpair.pileup -N SCA_078_N.conpair.pileup --markers ~/software/conpair/Conpair/data/markers/GRCh38.autosomes.phase3_shapeit2_mvncall_integrated.20130502.SNV.genotype.sselect_v4_MAF_0.4_LD_0.8.liftover.txt one error happened: Traceback (most recent call last): File "/home/ug0416/software/conpair/Conpair/scripts/verify_concordance.py", line 61, in Normal_genotype_likelihoods = genotype_likelihoods_for_markers(Markers, opts.normal_pileup, min_map_quality=MMQ, min_base_quality=MBQ) File "/home/ug0416/software/conpair/Conpair/modules/ContaminationMarker.py", line 106, in genotype_likelihoods_for_markers pileup = parse_mpileup_line(line, min_map_quality=min_map_quality, min_base_quality=min_base_quality) File "/home/ug0416/software/conpair/Conpair/modules/ContaminationMarker.py", line 71, in parse_mpileup_line baseQs = baseQ2int(line[4]) IndexError: list index out of range I don't know what happened

stroke1989 avatar Oct 25 '21 02:10 stroke1989