Hi,
I am getting this error when I run htseq-count (version 0.5.4p3)
Error occured in line 6684695 of file OUT.gsnap.combined.Control_72_Rep3_R1.fastq.uniq.
Error: value too large to convert to int
[Exception type: OverflowError, raised in _HTSeq.pyx:1120]
The corresponding line in the input file is
HISEQ:488:C3W46ACXX:4:2111:4082:52860 83 Chr08 6311469 40 28S2M4294966387N45M25S = 63083
37 -3002 GAAAATTGAGGATGACTTAGAGGTCTCAAGATCGGCAATGCATCTGGAAAGAAGTGGATATCAATGACTAATGAGGAGAAGGTTAAATACTAT
GATATAG DDDC@CCA>3FFFFFFFHFHEHHEEEEHF;;--0/9AEJIIIIH@GDJHHGJJIIHGHCJHGIIIHFEHHHEHEHIHGIIHEIIJIHDHFFHFFFFF@@@MD:Z:4T42 NH:i:1 HI:i:1 NM:i:1 SM:i:40 XQ:i:40 X2:i:0 XO:Z:CU XS:A:+
I noticed that there is a very large gap in the CIGAR string. I used GSNAP to generate the alignments.
Has anyone encountered this before?
Thanks for your help
I am getting this error when I run htseq-count (version 0.5.4p3)
Error occured in line 6684695 of file OUT.gsnap.combined.Control_72_Rep3_R1.fastq.uniq.
Error: value too large to convert to int
[Exception type: OverflowError, raised in _HTSeq.pyx:1120]
The corresponding line in the input file is
HISEQ:488:C3W46ACXX:4:2111:4082:52860 83 Chr08 6311469 40 28S2M4294966387N45M25S = 63083
37 -3002 GAAAATTGAGGATGACTTAGAGGTCTCAAGATCGGCAATGCATCTGGAAAGAAGTGGATATCAATGACTAATGAGGAGAAGGTTAAATACTAT
GATATAG DDDC@CCA>3FFFFFFFHFHEHHEEEEHF;;--0/9AEJIIIIH@GDJHHGJJIIHGHCJHGIIIHFEHHHEHEHIHGIIHEIIJIHDHFFHFFFFF@@@MD:Z:4T42 NH:i:1 HI:i:1 NM:i:1 SM:i:40 XQ:i:40 X2:i:0 XO:Z:CU XS:A:+
I noticed that there is a very large gap in the CIGAR string. I used GSNAP to generate the alignments.
Has anyone encountered this before?
Thanks for your help
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