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Genotek / ClassifyCNV

ClassifyCNV: a tool for clinical annotation of copy-number variants
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Division by zero error #6

Closed emmakwiener closed 3 years ago

emmakwiener commented 3 years ago

Good day, I have been trying to run ClassifyCNV and have had the following error. Traceback (most recent call last): File "ClassifyCNV.py", line 834, in analyze_pop_freqs() File "ClassifyCNV.py", line 737, in analyze_pop_freqs overlap_perc = int(fields[9]) * 100 / (int(fields[2]) - int(fields[1])) ZeroDivisionError: division by zero I used this command python3 ClassifyCNV.py --infile MTDDgene.bed --GenomeBuild hg38 and here is the beginning of the bed file.

chr1 1339884 1339884 DUP 78 chr1 1450954 1516361 DUP 65407 chr1 1478376 1517082 DUP 38706 chr1 1484927 1522741 DUP 37814 chr1 1529887 1529962 DEL 75 chr1 1530531 1530850 DEL 319 chr1 1532785 1532785 DUP 54 chr1 1842391 1848340 DEL 5949 chr1 2230766 2231750 DEL 984 chr1 2309634 2309829 DEL 195 chr1 3848063 3848421 DEL 358 chr1 5868308 5868634 DEL 314 chr1 5959500 5959580 DEL 80

Could you please assist me is resolving this? Thank you so much Regards Emma

emmakwiener commented 3 years ago

Realised the DUP INS were the problem, with the same start and end coordinates