AssertionError with some genes

[oyvindbusk]

Nice tool! I have noticed some genes (e.g. HNRNPA1) gives an assertionerror, and I have not been able to figure out why.

code used:

./seqcover report --genes HNRNPA1 \
--fasta $fasta samples/*_recal.per-base.d4 \
--background seqcover_out/seqcover_p5.d4 \
-r my_genes_report.html \
--hg19

# Gives:
fatal.nim(49)            sysFatal
Error: unhandled exception: transcript.nim(143, 14) `r_off - l_off == o_exon[1] - o_exon[0]`  [AssertionError]

[brentp]

thanks for reporting. I'll look into this.

[brentp]

I have fixed this in master. Here is an executable with the recent changes if you want to try. Thanks for reporting!
seqcover.gz

[oyvindbusk]

Perfect, thanks!